# command:# Prefix for input files set to /projects/compbio/experiments/undertaker/atoms-inputs/ # command:# reading dunbrack-2191.atoms # #computed average backbone with maximum peptide_sq_deviance = 0.002 # computed average trans backbone unit from 53157 examples # computed average trans backbone unit before proline from 2010 examples # computed average cis backbone unit from 97 examples # trans (non-proline) backbone unit: # CA= -2.2087 1.0126 -0.0030 # O= -0.1499 2.2440 0.0016 # C= -0.6889 1.1368 -0.0000 # N+1= 0.0000 0.0000 0.0000 # CA+1= 1.4581 -0.0000 0.0000 # cis backbone unit: # CA= -0.1436 2.4534 -0.0002 # O= -2.0284 0.9742 0.0015 # C= -0.8018 1.0771 -0.0000 # N+1= 0.0000 0.0000 0.0000 # CA+1= 1.4668 0.0000 0.0000 # trans backbone unit before proline: # CA= -2.2100 1.0631 -0.0014 # O= -0.1236 2.2458 0.0075 # C= -0.6872 1.1517 -0.0000 # N+1= 0.0000 0.0000 0.0000 # CA+1= 1.4660 0.0000 0.0000 # After reading dunbrack-2191.atoms have 2191 chains in training database # Count of chains,residues,atoms: 2191,500310,3902258 # 493341 residues have no bad marker # 3226 residues lack atoms needed to compute omega # 1453 residues have cis peptide # number of each bad type: # NON_STANDARD_RESIDUE 4 # HAS_OXT 1167 # TOO_MANY_ATOMS 1 # TOO_FEW_ATOMS 3052 # HAS_UNKNOWN_ATOMS 9 # HAS_DUPLICATE_ATOMS 0 # CHAIN_BREAK_BEFORE 979 # NON_PLANAR_PEPTIDE 888 # BAD_PEPTIDE 2680 # Note: may sum to more than number of residues, # because one residue may have multiple problems # command:# Reading rotamer library from dunbrack-2191.rot # command:# Prefix for input files set to /projects/compbio/experiments/undertaker/spots/ # command:# ReadAtomType exp-pdb.types Read AtomType exp-pdb with 49 types. # command:# ReadClashTable exp-pdb-2191-2symm.clash # Read ClashTable exp-pdb-2191-2symm checking bonds symmetric at MaxSep 2 # command:# command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0334/ # command:# Making conformation for sequence T0334 numbered 1 through 530 Created new target T0334 from T0334.a2m # command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0334/ # command:Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334//projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0334/manyalignments-good-all.under or /projects/compbio/experiments/protein-predict/casp7/T0334//projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0334/manyalignments-good-all.under.gz for input Trying /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0334/manyalignments-good-all.under # reading script from file /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0334/manyalignments-good-all.under # Reading fragments from alignment file # Attempting to read fragment alignments from file 1m64A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1m64A expands to /projects/compbio/data/pdb/1m64.pdb.gz 1m64A:# T0334 read from 1m64A/merged-good-all-a2m # 1m64A read from 1m64A/merged-good-all-a2m # adding 1m64A to template set # found chain 1m64A in template set T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1m64A 125 :DTVDVVVVGSGGAGFSAAISATD # choosing archetypes in rotamer library T0334 30 :GTADITLLQAPDIPTLGVGEATI 1m64A 148 :SGAKVILIEKEPVIGGNAKLAAG T0334 57 :TAF 1m64A 178 :DQQ T0334 61 :DFLGI 1m64A 181 :KAKKI T0334 66 :PEDEWMREC 1m64A 188 :SPELMFEDT T0334 75 :NASYKVAIKFINWR 1m64A 206 :PALVKVLSSHSKDS T0334 123 :SHYWFDRSYR 1m64A 220 :VDWMTAMGAD T0334 144 :YKEPVI 1m64A 230 :LTDVGM T0334 152 :ANRSPRRL 1m64A 236 :MGGASVNR T0334 162 :SKVTNYAW 1m64A 244 :AHRPTGGA T0334 171 :FDAHLVADFLRRFAT 1m64A 252 :GVGAHVVQVLYDNAV T0334 187 :KLGVRHVED 1m64A 267 :KRNIDLRMN T0334 196 :RVEHVQRDANGNIESVRTA 1m64A 277 :RGIEVLKDDKGTVKGILVK T0334 215 :TG 1m64A 299 :KG T0334 217 :RVFDADLFVDCSGFR 1m64A 302 :YWVKADAVILATGGF T0334 232 :GLL 1m64A 321 :ERV T0334 236 :NKAM 1m64A 324 :AKLD T0334 244 :LDMSDHLLNDS 1m64A 328 :PSLKGFISTNQ T0334 267 :NGVE 1m64A 339 :PGAV T0334 271 :PFTSAIAMKSGWTWKIPM 1m64A 350 :ENAGGALKDMQYIFAHPT T0334 289 :LGRFGT 1m64A 371 :KGGVMV T0334 295 :GYVYSSRFATE 1m64A 384 :GAILVNREGKR T0334 306 :DEAVREFCEMW 1m64A 462 :TETVARYNSLV T0334 317 :HLDPETQ 1m64A 475 :GKDTDFE T0334 324 :PLNRIRFRVG 1m64A 493 :NYYAIEVTPG T0334 334 :RNRRAWVGNCVSIG 1m64A 520 :NAKKQVIPGLYGAG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHF 1m64A 537 :GGVHGANRLGGNAISDIITFGRLAGEEA Number of specific fragments extracted= 27 number of extra gaps= 0 total=27 Number of alignments=1 # 1m64A read from 1m64A/merged-good-all-a2m # found chain 1m64A in template set Warning: unaligning (T0334)P66 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1m64A)W176 Warning: unaligning (T0334)E67 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1m64A)W176 T0334 3 :GKID 1m64A 122 :APHD T0334 7 :KILIVGGGTAGWMAASYLGK 1m64A 128 :DVVVVGSGGAGFSAAISATD T0334 29 :QGT 1m64A 148 :SGA T0334 33 :DITLLQAPD 1m64A 151 :KVILIEKEP T0334 42 :IPTL 1m64A 161 :IGGN T0334 57 :TAFFDFLGI 1m64A 166 :KLAAGGMNA T0334 68 :DEWMRECNASYKVAIKFINWRTAGEGTS 1m64A 177 :TDQQKAKKITDSPELMFEDTMKGGQNIN T0334 96 :EARELDGGPDHFYHSFGLL 1m64A 222 :WMTAMGADLTDVGMMGGAS T0334 115 :KYHE 1m64A 246 :RPTG T0334 152 :AN 1m64A 251 :AG T0334 172 :DAHLVADFLRRFA 1m64A 253 :VGAHVVQVLYDNA T0334 186 :EKLGVRHVED 1m64A 266 :VKRNIDLRMN T0334 196 :RVEHVQRDANGNIESVRTA 1m64A 277 :RGIEVLKDDKGTVKGILVK T0334 215 :T 1m64A 297 :M T0334 216 :GR 1m64A 299 :KG T0334 218 :VFDADLFVDCSGF 1m64A 303 :WVKADAVILATGG T0334 231 :RGLLINKAMEEPFLD 1m64A 344 :DGLDVAENAGGALKD T0334 280 :SGWTWKIPM 1m64A 359 :MQYIFAHPT T0334 289 :LGR 1m64A 371 :KGG T0334 292 :FGTGYVYSSRFATE 1m64A 383 :NGAILVNREGKRFV T0334 306 :DEAVREFCEM 1m64A 462 :TETVARYNSL T0334 316 :WHLDPETQPLNRIRF 1m64A 473 :SSGKDTDFERPNLPR T0334 331 :RVGRNR 1m64A 503 :VHHTMG T0334 337 :RAWVGNCVSIGTSSCFVEP 1m64A 523 :KQVIPGLYGAGEVTGGVHG T0334 356 :LESTGIYFVYAALYQLVKHF 1m64A 545 :LGGNAISDIITFGRLAGEEA Number of specific fragments extracted= 25 number of extra gaps= 1 total=52 Number of alignments=2 # 1m64A read from 1m64A/merged-good-all-a2m # found chain 1m64A in template set T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1m64A 125 :DTVDVVVVGSGGAGFSAAISATD T0334 30 :GTADITLLQAPDI 1m64A 148 :SGAKVILIEKEPV T0334 45 :LGVGEATI 1m64A 161 :IGGNAKLA T0334 53 :P 1m64A 178 :D T0334 58 :AF 1m64A 179 :QQ T0334 61 :DFLGI 1m64A 181 :KAKKI T0334 66 :PEDEWMR 1m64A 188 :SPELMFE T0334 113 :LLKYHEQIPLSHYWFDRSY 1m64A 195 :DTMKGGQNINDPALVKVLS T0334 137 :EPFDYACYKEPVILDANRSPRRLDGSKVTN 1m64A 214 :SHSKDSVDWMTAMGADLTDVGMMGGASVNR T0334 169 :WHF 1m64A 244 :AHR T0334 172 :DAHLVADFLRRFATEKLGVRHVEDRVEHVQRDANGNIESVRT 1m64A 253 :VGAHVVQVLYDNAVKRNIDLRMNTRGIEVLKDDKGTVKGILV T0334 214 :ATGR 1m64A 297 :MYKG T0334 218 :VFDADLFVDCSGFRG 1m64A 303 :WVKADAVILATGGFA T0334 233 :LLINK 1m64A 322 :RVAKL T0334 243 :FLDMSDHLLND 1m64A 327 :DPSLKGFISTN T0334 307 :EAVREFCEMWHLDP 1m64A 463 :ETVARYNSLVSSGK T0334 322 :TQ 1m64A 477 :DT T0334 324 :PLNRIRFRVGRNRRA 1m64A 493 :NYYAIEVTPGVHHTM T0334 339 :WVGNCVSIGTSSCFVEP 1m64A 525 :VIPGLYGAGEVTGGVHG T0334 356 :LESTGIYFVYAALYQLVKHFPD 1m64A 545 :LGGNAISDIITFGRLAGEEAAK Number of specific fragments extracted= 20 number of extra gaps= 0 total=72 Number of alignments=3 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2fjbA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2fjbA expands to /projects/compbio/data/pdb/2fjb.pdb.gz 2fjbA:Skipped atom 1920, because occupancy 0.5 <= existing 0.500 in 2fjbA Skipped atom 1922, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 1924, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 1926, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 2576, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 2578, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 2580, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 2582, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 2624, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 2626, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 2628, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 2630, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 3129, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 3131, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 3133, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 3135, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 4289, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 4291, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 4293, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 4295, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 5141, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 5143, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 5145, because occupancy 0.500 <= existing 0.500 in 2fjbA Skipped atom 5147, because occupancy 0.500 <= existing 0.500 in 2fjbA # T0334 read from 2fjbA/merged-good-all-a2m # 2fjbA read from 2fjbA/merged-good-all-a2m # adding 2fjbA to template set # found chain 2fjbA in template set T0334 5 :IDKILIVGGGTAGWMAASYLGKAL 2fjbA 22 :ETDILIIGGGFSGCGAAYEAAYWA T0334 29 :QGTADITLLQAPDI 2fjbA 47 :LGGLKVTLVEKAAV T0334 43 :PTLGVGEATIPNLQTAF 2fjbA 80 :TGRSERQNTLEDYVRYV T0334 60 :FDFLGIP 2fjbA 98 :LDMMGLA T0334 77 :SYKVAIKFINWRTAG 2fjbA 105 :REDLVADYARHVDGT T0334 123 :SHYWFDRSYR 2fjbA 120 :VHLFEKWGLP T0334 136 :V 2fjbA 130 :I T0334 141 :YACYKEPVI 2fjbA 131 :WKTPDGKYV T0334 163 :KVTNYAWHF 2fjbA 140 :REGQWQIMI T0334 173 :AHLVADFLRRFA 2fjbA 154 :KPIIAEAAKMAV T0334 189 :G 2fjbA 166 :G T0334 192 :HVED 2fjbA 170 :IYER T0334 196 :RVEHVQRDANGN 2fjbA 175 :FIFELLKDKNDP T0334 208 :IESVR 2fjbA 189 :VAGAV T0334 213 :TA 2fjbA 195 :FS T0334 215 :TG 2fjbA 198 :RE T0334 217 :RVFDADLFVDCSGFRGLL 2fjbA 203 :YVFKAKAVILATGGATLL T0334 243 :FLDMSDH 2fjbA 221 :FRPRSTG T0334 264 :DDANGVEPFTSAIAM 2fjbA 228 :EAAGRTWYAIFDTGS T0334 279 :KSGWTW 2fjbA 250 :AGAMLT T0334 285 :KIPM 2fjbA 261 :FIPF T0334 289 :LGR 2fjbA 267 :KDG T0334 292 :FGT 2fjbA 271 :GPV T0334 299 :SSRFATE 2fjbA 305 :PYGAAQP T0334 306 :DEAVREFCEMW 2fjbA 348 :KKKLKHIYEEA T0334 317 :HLDPETQ 2fjbA 377 :NIDPQEQ T0334 329 :RFRVGRNRRA 2fjbA 384 :PSEAAPAEPY T0334 339 :WVGNCVSIGTSSCFVEPLESTGIYF 2fjbA 430 :TVKGLFAIGDCAGANPHKFSSGSFT T0334 364 :VYAALYQLVKHFPD 2fjbA 456 :GRIAAKAAVRFILE T0334 378 :KSLNPVLTARF 2fjbA 474 :PEIDDAVVEEL T0334 396 :FDDTRDFIQAHFYFSPRTDTP 2fjbA 485 :KKKAYAPMERFMQYKDLSTAD T0334 417 :FW 2fjbA 514 :PW T0334 428 :DGMQEKIDMYRAGMAINAPA 2fjbA 516 :QGLVRLQKIMDEYAAGIATI T0334 500 :DEVFGAVKDRQRNLLET 2fjbA 540 :EKMLQRALELLAFLKED Number of specific fragments extracted= 34 number of extra gaps= 0 total=106 Number of alignments=4 # 2fjbA read from 2fjbA/merged-good-all-a2m # found chain 2fjbA in template set T0334 4 :KID 2fjbA 17 :PTE T0334 7 :KILIVGGGTAGWMAASYLGKAL 2fjbA 24 :DILIIGGGFSGCGAAYEAAYWA T0334 29 :QGT 2fjbA 48 :GGL T0334 33 :DITLLQAP 2fjbA 51 :KVTLVEKA T0334 46 :GVGEATIPNLQTAFFDFLGIPED 2fjbA 59 :AVERSGAVAQGLSAINTYIDLTG T0334 115 :KYHEQIPLSHYWFDRSYRGKTVEP 2fjbA 82 :RSERQNTLEDYVRYVTLDMMGLAR T0334 139 :FDYACYKEPVILD 2fjbA 121 :HLFEKWGLPIWKT T0334 152 :ANRSPRRLD 2fjbA 135 :DGKYVREGQ T0334 162 :SKVTNYAWH 2fjbA 144 :WQIMIHGES T0334 172 :DAHLVADFLRRFA 2fjbA 153 :YKPIIAEAAKMAV T0334 186 :EK 2fjbA 166 :GE T0334 191 :R 2fjbA 168 :E T0334 192 :HVED 2fjbA 170 :IYER T0334 196 :RVEHVQRDANG 2fjbA 175 :FIFELLKDKND T0334 207 :NIESVRTA 2fjbA 188 :AVAGAVGF T0334 215 :TGR 2fjbA 198 :REP T0334 218 :VFDADLFVDCSGF 2fjbA 204 :VFKAKAVILATGG T0334 231 :R 2fjbA 367 :V T0334 233 :LLINKAMEEPFL 2fjbA 370 :ALLWACQNIDPQ T0334 247 :SDHLLNDSAV 2fjbA 382 :EQPSEAAPAE T0334 271 :PFTS 2fjbA 392 :PYIM T0334 287 :PMLGRFGTGYVYSSRFATEDEAV 2fjbA 396 :GSHSGEAGFWVCGPEDLMPEEYA T0334 314 :EMWHLDP 2fjbA 419 :KLFPLKY T0334 337 :RAWVGNCVSIGTSSCF 2fjbA 428 :MTTVKGLFAIGDCAGA T0334 353 :VEPLESTGIYFVYAALYQLVKHFP 2fjbA 445 :PHKFSSGSFTEGRIAAKAAVRFIL T0334 377 :DKSLNPVLTARFNREIETMFDDTRDF 2fjbA 473 :NPEIDDAVVEELKKKAYAPMERFMQY T0334 424 :LRL 2fjbA 499 :KDL T0334 427 :ADGMQEKIDMYRAGMAINAPAS 2fjbA 515 :WQGLVRLQKIMDEYAAGIATIY T0334 500 :DEVFGAVKDRQRNLLETLPS 2fjbA 540 :EKMLQRALELLAFLKEDLEK Number of specific fragments extracted= 29 number of extra gaps= 0 total=135 Number of alignments=5 # 2fjbA read from 2fjbA/merged-good-all-a2m # found chain 2fjbA in template set T0334 7 :KILIVGGGTAGWMAASYLGKAL 2fjbA 24 :DILIIGGGFSGCGAAYEAAYWA T0334 29 :QGTADITLLQAPDIPTLGV 2fjbA 47 :LGGLKVTLVEKAAVERSGA T0334 78 :YKVAIKFINW 2fjbA 66 :VAQGLSAINT T0334 94 :TSEARELDGGPDHFYHSFGLLKYHEQIPLSHYWFD 2fjbA 76 :YIDLTGRSERQNTLEDYVRYVTLDMMGLAREDLVA T0334 134 :KTVEPFDYACYKEPVILDANRSPRRLDGSKVTNYAWHF 2fjbA 111 :DYARHVDGTVHLFEKWGLPIWKTPDGKYVREGQWQIMI T0334 172 :DAHLVADFLRRFA 2fjbA 153 :YKPIIAEAAKMAV T0334 191 :RHVEDRVEHVQRDANGN 2fjbA 170 :IYERVFIFELLKDKNDP T0334 208 :IESVRTATGR 2fjbA 192 :AVGFSVREPK T0334 218 :VFDADLFVDCSGFRGL 2fjbA 204 :VFKAKAVILATGGATL T0334 260 :VPHDDDANGVEPFTS 2fjbA 220 :LFRPRSTGEAAGRTW T0334 338 :AWVGNCVSIGTSSCFVEPLESTG 2fjbA 429 :TTVKGLFAIGDCAGANPHKFSSG T0334 361 :IYFVYAALYQLVKHFP 2fjbA 453 :FTEGRIAAKAAVRFIL T0334 377 :DKSLNPVLTARFNREIETMFDDTRDF 2fjbA 473 :NPEIDDAVVEELKKKAYAPMERFMQY T0334 441 :MAINAPASDDAQLY 2fjbA 499 :KDLSTADDVNPEYI T0334 457 :NFEEEFRNFWNNSNYYCVLAGLGL 2fjbA 513 :LPWQGLVRLQKIMDEYAAGIATIY T0334 481 :V 2fjbA 539 :N T0334 493 :PQATESVDEVFGAVKDRQ 2fjbA 540 :EKMLQRALELLAFLKEDL Number of specific fragments extracted= 17 number of extra gaps= 0 total=152 Number of alignments=6 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1rp0A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0334 read from 1rp0A/merged-good-all-a2m # 1rp0A read from 1rp0A/merged-good-all-a2m # found chain 1rp0A in training set Warning: unaligning (T0334)L356 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1rp0A)F256 Warning: unaligning (T0334)E357 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1rp0A)F256 T0334 5 :IDKILIVGGGTAGWMAASYLGKA 1rp0A 39 :ETDVVVVGAGSAGLSAAYEISKN T0334 30 :GTADITLLQAP 1rp0A 62 :PNVQVAIIEQS T0334 41 :DIPTLG 1rp0A 74 :SPGGGA T0334 52 :IPNLQTAF 1rp0A 92 :RKPAHLFL T0334 61 :DFLGI 1rp0A 100 :DEIGV T0334 130 :S 1rp0A 105 :A T0334 136 :VEPFD 1rp0A 106 :YDEQD T0334 166 :NYAWHFDAHLVADFLRRFATEKLGVRHVED 1rp0A 111 :TYVVVKHAALFTSTIMSKLLARPNVKLFNA T0334 196 :RVEHVQRDANG 1rp0A 142 :AAEDLIVKGNR T0334 208 :IESVRTAT 1rp0A 153 :VGGVVTNW T0334 217 :RVFDADLFVDCSGFR 1rp0A 176 :NVMEAKIVVSSCGHD T0334 232 :GLL 1rp0A 196 :TGV T0334 236 :NKAMEEPFL 1rp0A 199 :KRLKSIGMI T0334 267 :NGVEPFTSA 1rp0A 208 :DHVPGMKAL T0334 304 :TEDEAVREFCEM 1rp0A 217 :DMNTAEDAIVRL T0334 336 :RRAWVGNCVSIG 1rp0A 229 :TREVVPGMIVTG T0334 348 :TSSCFVEP 1rp0A 247 :DGAPRMGP T0334 358 :STGIYFVYAALYQLVKHFP 1rp0A 257 :GAMMISGQKAGQLALKALG Number of specific fragments extracted= 18 number of extra gaps= 1 total=170 Number of alignments=7 # 1rp0A read from 1rp0A/merged-good-all-a2m # found chain 1rp0A in training set Warning: unaligning (T0334)P53 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1rp0A)G82 Warning: unaligning (T0334)N54 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1rp0A)G82 Warning: unaligning (T0334)L356 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1rp0A)F256 Warning: unaligning (T0334)E357 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1rp0A)F256 T0334 6 :D 1rp0A 39 :E T0334 7 :KILIVGGGTAGWMAASYLGK 1rp0A 41 :DVVVVGAGSAGLSAAYEISK T0334 29 :QGT 1rp0A 62 :PNV T0334 33 :DITLLQAPD 1rp0A 65 :QVAIIEQSV T0334 46 :GVGEATI 1rp0A 74 :SPGGGAW T0334 57 :TAF 1rp0A 83 :GQL T0334 104 :PDHFYHSFGLL 1rp0A 86 :FSAMIVRKPAH T0334 139 :FDYACYKEPV 1rp0A 97 :LFLDEIGVAY T0334 152 :ANRSPRRLD 1rp0A 108 :EQDTYVVVK T0334 172 :DAHLVADFLRRFATEKLGVRHVED 1rp0A 117 :HAALFTSTIMSKLLARPNVKLFNA T0334 196 :RVEHVQRDAN 1rp0A 142 :AAEDLIVKGN T0334 207 :NIESVRTAT 1rp0A 152 :RVGGVVTNW T0334 218 :VFDADLFVDCSGFRG 1rp0A 177 :VMEAKIVVSSCGHDG T0334 233 :LLINKAMEEPFL 1rp0A 196 :TGVKRLKSIGMI T0334 270 :EPFTSA 1rp0A 208 :DHVPGM T0334 306 :DEAVREFCEMWH 1rp0A 219 :NTAEDAIVRLTR T0334 338 :AWVGNCVSIG 1rp0A 231 :EVVPGMIVTG T0334 348 :TSSCFVEP 1rp0A 247 :DGAPRMGP T0334 358 :STGIYFVYAALYQLVKHFP 1rp0A 257 :GAMMISGQKAGQLALKALG T0334 377 :DK 1rp0A 281 :DG Number of specific fragments extracted= 20 number of extra gaps= 2 total=190 Number of alignments=8 # 1rp0A read from 1rp0A/merged-good-all-a2m # found chain 1rp0A in training set Warning: unaligning (T0334)T51 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1rp0A)G82 Warning: unaligning (T0334)I52 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1rp0A)G82 Warning: unaligning (T0334)L356 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1rp0A)F256 Warning: unaligning (T0334)E357 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1rp0A)F256 T0334 7 :KILIVGGGTAGWMAASYLGK 1rp0A 41 :DVVVVGAGSAGLSAAYEISK T0334 29 :QGTADITLLQAPDIPTLGV 1rp0A 61 :NPNVQVAIIEQSVSPGGGA T0334 50 :A 1rp0A 80 :W T0334 53 :PNLQ 1rp0A 93 :KPAH T0334 69 :EWMRECNASY 1rp0A 97 :LFLDEIGVAY T0334 88 :RTAGEGTS 1rp0A 107 :DEQDTYVV T0334 171 :F 1rp0A 115 :V T0334 172 :DAHLVADFLRRFATEK 1rp0A 117 :HAALFTSTIMSKLLAR T0334 188 :LGVRHVEDRVEHVQRDANG 1rp0A 134 :NVKLFNAVAAEDLIVKGNR T0334 208 :IESVRT 1rp0A 153 :VGGVVT T0334 214 :ATGR 1rp0A 167 :HHTQ T0334 218 :VFDADLFVDCSGFRG 1rp0A 177 :VMEAKIVVSSCGHDG T0334 233 :LLINKAMEEPFL 1rp0A 196 :TGVKRLKSIGMI T0334 264 :DDANGVE 1rp0A 208 :DHVPGMK T0334 307 :EAVREFCEMW 1rp0A 220 :TAEDAIVRLT T0334 337 :RAWVGNCVSIG 1rp0A 230 :REVVPGMIVTG T0334 348 :TSSCFVEP 1rp0A 247 :DGAPRMGP T0334 358 :STGIYFVYAALYQLVKHFP 1rp0A 257 :GAMMISGQKAGQLALKALG Number of specific fragments extracted= 18 number of extra gaps= 2 total=208 Number of alignments=9 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2bryA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2bryA expands to /projects/compbio/data/pdb/2bry.pdb.gz 2bryA:Skipped atom 81, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 83, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 85, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 140, because occupancy 0.500 <= existing 0.500 in 2bryA Skipped atom 142, because occupancy 0.500 <= existing 0.500 in 2bryA Skipped atom 522, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 524, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 976, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 978, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 980, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 1362, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 1364, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 1366, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 1656, because occupancy 0.500 <= existing 0.500 in 2bryA Skipped atom 1658, because occupancy 0.500 <= existing 0.500 in 2bryA Skipped atom 1908, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 1910, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 1912, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 3017, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 3019, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 3021, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 3297, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 3299, because occupancy 0.400 <= existing 0.600 in 2bryA Skipped atom 3301, because occupancy 0.400 <= existing 0.600 in 2bryA # T0334 read from 2bryA/merged-good-all-a2m # 2bryA read from 2bryA/merged-good-all-a2m # adding 2bryA to template set # found chain 2bryA in template set Warning: unaligning (T0334)M278 because of BadResidue code TOO_FEW_ATOMS+CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (2bryA)Y265 T0334 6 :DKILIVGGGTAGWMAASYLGKA 2bryA 85 :TKCLVVGAGPCGLRAAVELALL T0334 31 :TADITLLQAP 2bryA 107 :GARVVLVEKR T0334 41 :DIPTLGVGEA 2bryA 118 :KFSRHNVLHL T0334 52 :IPNLQTAF 2bryA 128 :WPFTIHDL T0334 61 :DFLGI 2bryA 136 :RALGA T0334 124 :HYW 2bryA 141 :KKF T0334 155 :SPRRLDG 2bryA 144 :YGRFCTG T0334 166 :NYAW 2bryA 151 :TLDH T0334 171 :FDAHLVADFLRRFAT 2bryA 155 :ISIRQLQLLLLKVAL T0334 187 :KLGVRHVED 2bryA 170 :LLGVEIHWG T0334 196 :RVEHVQR 2bryA 180 :KFTGLQP T0334 203 :DANGNIESVRTATG 2bryA 188 :PRKGSGWRAQLQPN T0334 217 :R 2bryA 208 :S T0334 219 :FDADLFVDCSG 2bryA 209 :YEFDVLISAAG T0334 239 :MEEPFLDMS 2bryA 220 :GKFVPEGFT T0334 248 :DHLLNDSAVATQVPHDDD 2bryA 234 :GKLAIGITANFVNGRTVE T0334 279 :KS 2bryA 266 :NQ T0334 281 :GWTWKIPM 2bryA 282 :ENIVYYKD T0334 291 :R 2bryA 290 :E T0334 292 :FGTGYVYS 2bryA 292 :HYFVMTAK T0334 300 :SRFATE 2bryA 306 :LGVLRQ T0334 306 :DEAVREFCEMW 2bryA 328 :EALQRFARAAA T0334 317 :HLDPETQPLNRIRFRVGRNRRA 2bryA 353 :QDARGRPDVAAFDFTSMMRAES T0334 339 :WVGNCVSIG 2bryA 381 :KHGARLLLG T0334 348 :TSSCFVEPLE 2bryA 391 :VGDCLVEPFW T0334 358 :STGIYFVYAALYQLVKHF 2bryA 403 :GTGVARGFLAAFDAAWMV T0334 378 :KSLNP 2bryA 425 :EGAGP T0334 397 :DDTRDFIQAHFYFSPR 2bryA 430 :LEVLAERESLYQLLSQ T0334 480 :LVPDAPSPRLAHM 2bryA 446 :TSPENMHRNVAQY Number of specific fragments extracted= 29 number of extra gaps= 0 total=237 Number of alignments=10 # 2bryA read from 2bryA/merged-good-all-a2m # found chain 2bryA in template set T0334 6 :D 2bryA 84 :N T0334 7 :KILIVGGGTAGWMAASYLGK 2bryA 86 :KCLVVGAGPCGLRAAVELAL T0334 29 :QGT 2bryA 106 :LGA T0334 33 :DITLLQAPD 2bryA 109 :RVVLVEKRI T0334 46 :GVGEATIPNLQTAF 2bryA 118 :KFSRHNVLHLWPFT T0334 69 :EWMRECNAS 2bryA 133 :HDLRALGAK T0334 109 :HSFGLL 2bryA 142 :KFYGRF T0334 152 :ANRSPRRL 2bryA 148 :CTGTLDHI T0334 172 :DAHLVADFLRRFA 2bryA 156 :SIRQLQLLLLKVA T0334 186 :EKLGVRHVED 2bryA 169 :LLLGVEIHWG T0334 196 :RVEHVQR 2bryA 180 :KFTGLQP T0334 203 :DANG 2bryA 190 :KGSG T0334 209 :ESVRTATGR 2bryA 194 :WRAQLQPNP T0334 218 :VFDADLFVDCSGF 2bryA 208 :SYEFDVLISAAGG T0334 231 :RGLLINKAMEEPFLD 2bryA 269 :FFQSLLKATGIDLEN T0334 284 :WKIPMLGRFGTGYVYSSRFATE 2bryA 284 :IVYYKDETHYFVMTAKKQCLLR T0334 306 :DEAVREFCEM 2bryA 328 :EALQRFARAA T0334 316 :WHLDP 2bryA 340 :FATHG T0334 321 :ETQPLNRIRFRVGRNR 2bryA 357 :GRPDVAAFDFTSMMRA T0334 337 :RAWVGNCVSIG 2bryA 379 :QEKHGARLLLG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHFP 2bryA 393 :DCLVEPFWPLGTGVARGFLAAFDAAWMVK T0334 377 :DKSLNPVLTAR 2bryA 425 :EGAGPLEVLAE T0334 434 :IDMYRAGMAINAPASD 2bryA 436 :RESLYQLLSQTSPENM T0334 450 :DAQLYYGNFEEEFRN 2bryA 454 :NVAQYGLDPATRYPN T0334 482 :PDAPSPRLAHMPQ 2bryA 469 :LNLRAVTPNQVQD Number of specific fragments extracted= 25 number of extra gaps= 0 total=262 Number of alignments=11 # 2bryA read from 2bryA/merged-good-all-a2m # found chain 2bryA in template set T0334 7 :KILIVGGGTAGWMAASYLGK 2bryA 86 :KCLVVGAGPCGLRAAVELAL T0334 30 :GTADITLLQAP 2bryA 106 :LGARVVLVEKR T0334 41 :DIPTLGVG 2bryA 118 :KFSRHNVL T0334 50 :ATIPNLQTAF 2bryA 126 :HLWPFTIHDL T0334 61 :DFLGI 2bryA 136 :RALGA T0334 68 :DEW 2bryA 141 :KKF T0334 98 :RELD 2bryA 144 :YGRF T0334 161 :GSKVTN 2bryA 148 :CTGTLD T0334 170 :HFDAHLVADFLRRFATEKLGVRHVEDRVEHVQRD 2bryA 154 :HISIRQLQLLLLKVALLLGVEIHWGVKFTGLQPP T0334 204 :ANGNIESVRTATGR 2bryA 189 :RKGSGWRAQLQPNP T0334 218 :VFDADLFVDCSGF 2bryA 208 :SYEFDVLISAAGG T0334 240 :EEPFLDMS 2bryA 221 :KFVPEGFT T0334 248 :DHLLNDSAVATQVPHD 2bryA 234 :GKLAIGITANFVNGRT T0334 307 :EAVREFCEMW 2bryA 328 :EALQRFARAA T0334 317 :HLDPETQPLNRIRFRVGRNR 2bryA 353 :QDARGRPDVAAFDFTSMMRA T0334 337 :RAWVGNCVSIGTSS 2bryA 379 :QEKHGARLLLGLVG T0334 351 :CFVEP 2bryA 394 :CLVEP T0334 356 :LESTGIYFVYAALYQLVKHFPDKSLNPVL 2bryA 405 :GVARGFLAAFDAAWMVKRWAEGAGPLEVL T0334 400 :RDFIQAHFYF 2bryA 434 :AERESLYQLL T0334 466 :WNNSNYYCVLAGLGL 2bryA 444 :SQTSPENMHRNVAQY Number of specific fragments extracted= 20 number of extra gaps= 0 total=282 Number of alignments=12 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1zy8A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334/1zy8A/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0334/1zy8A/merged-good-all-a2m.gz for input Trying 1zy8A/merged-good-all-a2m Error: Couldn't open file 1zy8A/merged-good-all-a2m or 1zy8A/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1s3eA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0334 read from 1s3eA/merged-good-all-a2m # 1s3eA read from 1s3eA/merged-good-all-a2m # found chain 1s3eA in training set Warning: unaligning (T0334)G3 because first residue in template chain is (1s3eA)N3 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1s3eA 4 :KCDVVVVGGGISGMAAAKLLHD T0334 30 :GTADITLLQAP 1s3eA 26 :SGLNVVVLEAR T0334 41 :DI 1s3eA 38 :RV T0334 43 :PTLGVGEATIPNLQTAF 1s3eA 56 :LGGSYVGPTQNRILRLA T0334 61 :DFLGI 1s3eA 73 :KELGL T0334 96 :EARELDGGP 1s3eA 78 :ETYKVNEVE T0334 105 :DHFYHSFGLL 1s3eA 94 :GKSYPFRGPF T0334 119 :QIPLSHYWFDR 1s3eA 115 :HNNFWRTMDDM T0334 141 :YACYKEPVILDANRSPRR 1s3eA 126 :GREIPSDAPWKAPLAEEW T0334 170 :HFDAHLVADFLRRFA 1s3eA 211 :VGGSGQVSERIMDLL T0334 186 :EKL 1s3eA 226 :GDR T0334 192 :HVED 1s3eA 229 :VKLE T0334 196 :RVEHVQRDANG 1s3eA 234 :PVIYIDQTREN T0334 209 :ESVRTATGRVFDADLFVDCSG 1s3eA 245 :VLVETLNHEMYEAKYVISAIP T0334 236 :NKA 1s3eA 266 :PTL T0334 239 :MEEPFL 1s3eA 274 :FNPPLP T0334 245 :DMSDHLLNDSAVATQVPHDDDANGVEPFTSAIAMKS 1s3eA 286 :ITRVPLGSVIKCIVYYKEPFWRKKDYCGTMIIDGEE T0334 281 :GWTWKIPMLGR 1s3eA 325 :AYTLDDTKPEG T0334 292 :FGTGYVYSSRFATE 1s3eA 338 :AAIMGFILAHKARK T0334 306 :DEAVREFCEMW 1s3eA 358 :EERLKKLCELY T0334 317 :HL 1s3eA 373 :GS T0334 320 :PETQPLNRIRFRVGRNRRA 1s3eA 375 :LEALEPVHYEEKNWCEEQY T0334 339 :WVGNCVSIG 1s3eA 417 :PVDRIYFAG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHFPD 1s3eA 427 :ETATHWSGYMEGAVEAGERAAREILHAMGK T0334 378 :KSLN 1s3eA 460 :DEIW T0334 411 :PRTDTP 1s3eA 464 :QSEPES T0334 477 :GLGLVPDAPSPRLAHMP 1s3eA 471 :DVPAQPITTTFLERHLP T0334 503 :FGAVKDRQRNLL 1s3eA 489 :VPGLLRLIGLTT Number of specific fragments extracted= 28 number of extra gaps= 0 total=310 Number of alignments=13 # 1s3eA read from 1s3eA/merged-good-all-a2m # found chain 1s3eA in training set Warning: unaligning (T0334)I5 because first residue in template chain is (1s3eA)N3 Warning: unaligning (T0334)D508 because last residue in template chain is (1s3eA)I501 T0334 6 :D 1s3eA 4 :K T0334 7 :KILIVGGGTAGWMAASYLGK 1s3eA 6 :DVVVVGGGISGMAAAKLLHD T0334 29 :QGT 1s3eA 26 :SGL T0334 33 :DITLLQAPD 1s3eA 29 :NVVVLEARD T0334 42 :IPTL 1s3eA 39 :VGGR T0334 46 :GVGEATIPNLQTAF 1s3eA 56 :LGGSYVGPTQNRIL T0334 139 :FDYACYKEPVILD 1s3eA 70 :RLAKELGLETYKV T0334 152 :ANRSPRRLDGSKVTNYAWHF 1s3eA 84 :EVERLIHHVKGKSYPFRGPF T0334 172 :DAHLVADFLRRFA 1s3eA 213 :GSGQVSERIMDLL T0334 186 :EK 1s3eA 226 :GD T0334 191 :RHVED 1s3eA 228 :RVKLE T0334 196 :RVEHVQRDANG 1s3eA 234 :PVIYIDQTREN T0334 209 :ESVRTATGRVFDADLFVDCSG 1s3eA 245 :VLVETLNHEMYEAKYVISAIP T0334 233 :LLINKAMEEPFLDM 1s3eA 266 :PTLGMKIHFNPPLP T0334 247 :SDHLLND 1s3eA 286 :ITRVPLG T0334 254 :SAVATQVPHDDDANG 1s3eA 295 :IKCIVYYKEPFWRKK T0334 271 :PFTS 1s3eA 310 :DYCG T0334 275 :AIAMK 1s3eA 315 :MIIDG T0334 280 :SGWTWKIPM 1s3eA 323 :PVAYTLDDT T0334 289 :LGRFGTGYVYSSRFATE 1s3eA 335 :GNYAAIMGFILAHKARK T0334 306 :DEAVREFCEM 1s3eA 358 :EERLKKLCEL T0334 316 :WHLDPETQPLNRIRF 1s3eA 372 :LGSLEALEPVHYEEK T0334 337 :RAWVGNCVSIG 1s3eA 415 :RQPVDRIYFAG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHFP 1s3eA 427 :ETATHWSGYMEGAVEAGERAAREILHAMG T0334 377 :DKSLN 1s3eA 459 :EDEIW T0334 443 :INAPASDDAQLYYGNFEEEFRNFWNN 1s3eA 464 :QSEPESVDVPAQPITTTFLERHLPSV T0334 497 :ESVDEVFGAVK 1s3eA 490 :PGLLRLIGLTT Number of specific fragments extracted= 27 number of extra gaps= 0 total=337 Number of alignments=14 # 1s3eA read from 1s3eA/merged-good-all-a2m # found chain 1s3eA in training set Warning: unaligning (T0334)K4 because first residue in template chain is (1s3eA)N3 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1s3eA 4 :KCDVVVVGGGISGMAAAKLLHD T0334 30 :GTADITLLQ 1s3eA 26 :SGLNVVVLE T0334 39 :APDIPT 1s3eA 36 :RDRVGG T0334 45 :LGVGEA 1s3eA 54 :VDLGGS T0334 51 :TIPNLQTAF 1s3eA 64 :TQNRILRLA T0334 61 :DFLGIP 1s3eA 73 :KELGLE T0334 76 :ASYKVAIKF 1s3eA 83 :NEVERLIHH T0334 87 :WRTAGEGTSEARELDGGPDHFYHSFGLLKYHEQIP 1s3eA 92 :VKGKSYPFRGPFPPVWNPITYLDHNNFWRTMDDMG T0334 122 :LSHYWFDRSYRGKTVEPFDYACYKEP 1s3eA 147 :TMKELLDKLCWTESAKQLATLFVNLC T0334 148 :VILDANRSPRRLDGSKVTNYAWHFDAHLVADFLRRFA 1s3eA 189 :VKQCGGTTRIISTTNGGQERKFVGGSGQVSERIMDLL T0334 191 :RHVEDRVEHVQRDANG 1s3eA 229 :VKLERPVIYIDQTREN T0334 209 :ESVRTATGRVFDADLFVDCSGFRG 1s3eA 245 :VLVETLNHEMYEAKYVISAIPPTL T0334 233 :LLINKAMEEP 1s3eA 280 :MMRNQMITRV T0334 243 :FLDMSDHLLNDSAV 1s3eA 303 :EPFWRKKDYCGTMI T0334 257 :ATQV 1s3eA 327 :TLDD T0334 264 :DDANGVEPFTSAIAMK 1s3eA 331 :TKPEGNYAAIMGFILA T0334 303 :ATEDEAVREFCEMWH 1s3eA 355 :LTKEERLKKLCELYA T0334 318 :LDPETQPLNRIRF 1s3eA 373 :GSLEALEPVHYEE T0334 331 :RVGRNRRAW 1s3eA 403 :PPGILTQYG T0334 341 :GNCVSIGT 1s3eA 419 :DRIYFAGT T0334 349 :SSCFVEPLESTGIYFVYAALYQLVKHFP 1s3eA 428 :TATHWSGYMEGAVEAGERAAREILHAMG T0334 448 :SDDAQLYYG 1s3eA 457 :IPEDEIWQS T0334 469 :SNYYCVLAGLGLVPDAPSPR 1s3eA 466 :EPESVDVPAQPITTTFLERH T0334 489 :LAHMPQATESVD 1s3eA 489 :VPGLLRLIGLTT Number of specific fragments extracted= 24 number of extra gaps= 0 total=361 Number of alignments=15 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2phh/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2phh expands to /projects/compbio/data/pdb/2phh.pdb.gz 2phh:Warning: there is no chain 2phh will retry with 2phhA # T0334 read from 2phh/merged-good-all-a2m # 2phh read from 2phh/merged-good-all-a2m # adding 2phh to template set # found chain 2phh in template set Warning: unaligning (T0334)K4 because first residue in template chain is (2phh)M1 Warning: unaligning (T0334)V47 because of BadResidue code BAD_PEPTIDE in next template residue (2phh)A45 Warning: unaligning (T0334)G48 because of BadResidue code BAD_PEPTIDE at template residue (2phh)A45 Warning: unaligning (T0334)F139 because of BadResidue code BAD_PEPTIDE in next template residue (2phh)E76 Warning: unaligning (T0334)D140 because of BadResidue code BAD_PEPTIDE at template residue (2phh)E76 Warning: unaligning (T0334)L188 because of BadResidue code BAD_PEPTIDE in next template residue (2phh)G117 Warning: unaligning (T0334)G189 because of BadResidue code BAD_PEPTIDE at template residue (2phh)G117 Warning: unaligning (T0334)T215 because of BadResidue code BAD_PEPTIDE in next template residue (2phh)G145 Warning: unaligning (T0334)G216 because of BadResidue code BAD_PEPTIDE at template residue (2phh)G145 Warning: unaligning (T0334)H406 because of BadResidue code BAD_PEPTIDE in next template residue (2phh)T347 Warning: unaligning (T0334)F407 because of BadResidue code BAD_PEPTIDE at template residue (2phh)T347 T0334 5 :IDKILIVGGGTAGWMAASYLGKA 2phh 2 :KTQVAIIGAGPSGLLLGQLLHKA T0334 31 :TADITLLQAPDI 2phh 25 :GIDNVILERQTP T0334 43 :PTLG 2phh 40 :LGRI T0334 49 :EATIPNLQTAF 2phh 46 :GVLEQGMVDLL T0334 61 :DFLGI 2phh 57 :REAGV T0334 123 :SHYWFDRSYR 2phh 62 :DRRMARDGLV T0334 136 :VEP 2phh 72 :HEG T0334 141 :YACYKEPVILD 2phh 77 :IAFAGQRRRID T0334 155 :SPRRLDG 2phh 88 :LKRLSGG T0334 166 :NYAWHFDAHLVADFLRRFA 2phh 95 :KTVTVYGQTEVTRDLMEAR T0334 186 :EK 2phh 114 :EA T0334 190 :VRHVED 2phh 118 :ATTVYQ T0334 196 :RVEHVQR 2phh 125 :AEVRLHD T0334 203 :DANG 2phh 133 :QGER T0334 209 :ESVRTA 2phh 137 :PYVTFE T0334 217 :RVFDADLFVDCSGFRGLL 2phh 148 :LRLDCDYIAGCDGFHGIS T0334 236 :NKAMEEPFL 2phh 166 :RQSIPAERL T0334 245 :DMSDHLL 2phh 176 :VFERVYP T0334 253 :DSAVATQV 2phh 183 :FGWLGLLA T0334 265 :DANGVEPFTSAIAMKSGWTWKIPMLGR 2phh 191 :DTPPVSHELIYANHPRGFALCSQRSAT T0334 292 :FGTGYVYSS 2phh 219 :SRYYVQVPL T0334 301 :RFATEDEAVREFCEMW 2phh 232 :EDWSDERFWTELKARL T0334 321 :ETQ 2phh 254 :KLV T0334 324 :PLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFPD 2phh 262 :EKSIAPLRSFVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLLK T0334 378 :KSLNPVLTARFNREIETMFDDTRDFIQA 2phh 318 :REGRGELLERYSAICLRRIWKAERFSWW T0334 408 :YFSPRTD 2phh 348 :SVLHRFP T0334 415 :TPFWR 2phh 357 :DAFSQ T0334 428 :DGMQEKIDMYRAG 2phh 362 :RIQQTELEYYLGS Number of specific fragments extracted= 28 number of extra gaps= 5 total=389 Number of alignments=16 # 2phh read from 2phh/merged-good-all-a2m # found chain 2phh in template set Warning: unaligning (T0334)I5 because first residue in template chain is (2phh)M1 Warning: unaligning (T0334)D61 because of BadResidue code BAD_PEPTIDE in next template residue (2phh)A45 Warning: unaligning (T0334)F62 because of BadResidue code BAD_PEPTIDE at template residue (2phh)A45 Warning: unaligning (T0334)L188 because of BadResidue code BAD_PEPTIDE in next template residue (2phh)G117 Warning: unaligning (T0334)G189 because of BadResidue code BAD_PEPTIDE at template residue (2phh)G117 Warning: unaligning (T0334)T215 because of BadResidue code BAD_PEPTIDE in next template residue (2phh)G145 Warning: unaligning (T0334)G216 because of BadResidue code BAD_PEPTIDE at template residue (2phh)G145 Warning: unaligning (T0334)H406 because of BadResidue code BAD_PEPTIDE in next template residue (2phh)T347 Warning: unaligning (T0334)F407 because of BadResidue code BAD_PEPTIDE at template residue (2phh)T347 T0334 6 :D 2phh 2 :K T0334 7 :KILIVGGGTAGWMAASYLGK 2phh 4 :QVAIIGAGPSGLLLGQLLHK T0334 29 :QGT 2phh 24 :AGI T0334 33 :DITLLQAPD 2phh 27 :DNVILERQT T0334 52 :IPNLQTAF 2phh 36 :PDYVLGRI T0334 63 :LG 2phh 46 :GV T0334 69 :EWMRECNAS 2phh 54 :DLLREAGVD T0334 139 :FDYACYKEP 2phh 63 :RRMARDGLV T0334 148 :VILD 2phh 77 :IAFA T0334 152 :ANRSPRRLDGSKVTNYAWH 2phh 82 :QRRRIDLKRLSGGKTVTVY T0334 172 :DAHLVADFLRRFA 2phh 101 :GQTEVTRDLMEAR T0334 186 :EK 2phh 114 :EA T0334 190 :VRHVED 2phh 118 :ATTVYQ T0334 196 :RVEHVQRDANGNIE 2phh 125 :AEVRLHDLQGERPY T0334 211 :VRTA 2phh 139 :VTFE T0334 217 :R 2phh 146 :E T0334 218 :VFDADLFVDCSGFRGLLI 2phh 149 :RLDCDYIAGCDGFHGISR T0334 237 :KAMEEPFLDM 2phh 167 :QSIPAERLKV T0334 247 :SDHLLND 2phh 178 :ERVYPFG T0334 254 :SAVATQVPHDD 2phh 186 :LGLLADTPPVS T0334 271 :PFTSAIAMKSGWTWKIPM 2phh 197 :HELIYANHPRGFALCSQR T0334 289 :LGR 2phh 216 :ATR T0334 292 :FGTGYVYSSRFATEDEAVREFCEM 2phh 223 :VQVPLTEKVEDWSDERFWTELKAR T0334 316 :WHLD 2phh 249 :AEVA T0334 321 :ETQPLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 2phh 259 :PSLEKSIAPLRSFVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLL T0334 378 :KSLNPVLTARFNREIETMFDDTRDFIQA 2phh 318 :REGRGELLERYSAICLRRIWKAERFSWW T0334 408 :YFSPRTDTP 2phh 348 :SVLHRFPDT T0334 417 :FW 2phh 359 :FS T0334 507 :KDRQRNLLETLPSLHEFLRQ 2phh 361 :QRIQQTELEYYLGSEAGLAT Number of specific fragments extracted= 29 number of extra gaps= 4 total=418 Number of alignments=17 # 2phh read from 2phh/merged-good-all-a2m # found chain 2phh in template set Warning: unaligning (T0334)G46 because of BadResidue code BAD_PEPTIDE in next template residue (2phh)A45 Warning: unaligning (T0334)V47 because of BadResidue code BAD_PEPTIDE at template residue (2phh)A45 Warning: unaligning (T0334)A81 because of BadResidue code BAD_PEPTIDE in next template residue (2phh)E76 Warning: unaligning (T0334)I82 because of BadResidue code BAD_PEPTIDE at template residue (2phh)E76 Warning: unaligning (T0334)K187 because of BadResidue code BAD_PEPTIDE in next template residue (2phh)G117 Warning: unaligning (T0334)L188 because of BadResidue code BAD_PEPTIDE at template residue (2phh)G117 Warning: unaligning (T0334)A214 because of BadResidue code BAD_PEPTIDE in next template residue (2phh)G145 Warning: unaligning (T0334)T215 because of BadResidue code BAD_PEPTIDE at template residue (2phh)G145 Warning: unaligning (T0334)F402 because of BadResidue code BAD_PEPTIDE in next template residue (2phh)T347 Warning: unaligning (T0334)I403 because of BadResidue code BAD_PEPTIDE at template residue (2phh)T347 T0334 7 :KILIVGGGTAGWMAASYLGK 2phh 4 :QVAIIGAGPSGLLLGQLLHK T0334 30 :GTADITLLQAPD 2phh 24 :AGIDNVILERQT T0334 43 :PTL 2phh 41 :GRI T0334 48 :GE 2phh 46 :GV T0334 51 :TIPNLQTAF 2phh 48 :LEQGMVDLL T0334 61 :DFLGIP 2phh 57 :REAGVD T0334 69 :EWMRECNASYKV 2phh 63 :RRMARDGLVHEG T0334 83 :KFI 2phh 77 :IAF T0334 90 :AGEGTSE 2phh 80 :AGQRRRI T0334 157 :RRLDGSKVT 2phh 87 :DLKRLSGGK T0334 167 :YAWHFDAHLVADFLRRFATE 2phh 96 :TVTVYGQTEVTRDLMEAREA T0334 189 :GVRHVE 2phh 118 :ATTVYQ T0334 195 :DRVEHVQRDANGNIESVRT 2phh 125 :AEVRLHDLQGERPYVTFER T0334 216 :GR 2phh 146 :ER T0334 218 :VFDADLFVDCSGFRG 2phh 149 :RLDCDYIAGCDGFHG T0334 241 :EPFLDMSDH 2phh 166 :RQSIPAERL T0334 250 :LLNDSAVATQV 2phh 180 :VYPFGWLGLLA T0334 265 :DANGVEPFTSAIAMKSGWTWKIPMLGRFGTGYVYS 2phh 191 :DTPPVSHELIYANHPRGFALCSQRSATRSRYYVQV T0334 300 :SRFATEDEAVREFCEMW 2phh 231 :VEDWSDERFWTELKARL T0334 318 :LDPETQPLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 2phh 256 :VTGPSLEKSIAPLRSFVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLL T0334 377 :DKSLNPVLTARFNREIETMFDDTRD 2phh 321 :RGELLERYSAICLRRIWKAERFSWW T0334 404 :QAHFYFSPRT 2phh 348 :SVLHRFPDTD T0334 428 :DGMQE 2phh 358 :AFSQR T0334 505 :AVKDRQRNLLETLPSLHEFLRQQ 2phh 363 :IQQTELEYYLGSEAGLATIAENY Number of specific fragments extracted= 24 number of extra gaps= 5 total=442 Number of alignments=18 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1rsgA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1rsgA expands to /projects/compbio/data/pdb/1rsg.pdb.gz 1rsgA:Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M # T0334 read from 1rsgA/merged-good-all-a2m # 1rsgA read from 1rsgA/merged-good-all-a2m # adding 1rsgA to template set # found chain 1rsgA in template set Warning: unaligning (T0334)G268 because of BadResidue code TOO_FEW_ATOMS+CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1rsgA)S350 Warning: unaligning (T0334)D319 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1rsgA)A427 T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1rsgA 7 :AKKKVIIIGAGIAGLKAASTLHQ T0334 30 :GTA 1rsgA 30 :NGI T0334 33 :DITLLQAP 1rsgA 34 :DCLVLEAR T0334 41 :DI 1rsgA 43 :RV T0334 47 :VGEATIPNLQTAF 1rsgA 67 :HDTLTNPLFLEEA T0334 123 :SHYWFDR 1rsgA 146 :MKYLLQR T0334 136 :VEPFD 1rsgA 153 :RQFLT T0334 141 :YACYKEPVILD 1rsgA 168 :CRYLELWHGLD T0334 152 :ANRSPRRLDGSKVTNYA 1rsgA 181 :LLSAKDTYFGHQGRNAF T0334 170 :HFDAHLVADFLR 1rsgA 198 :ALNYDSVVQRIA T0334 186 :EKLG 1rsgA 210 :QSFP T0334 192 :HVED 1rsgA 217 :LKLS T0334 196 :RVEHVQRDANGN 1rsgA 222 :EVKSITREPSKN T0334 209 :ESVRTATGRVFDADLFVDCS 1rsgA 234 :VTVNCEDGTVYNADYVIITV T0334 230 :FRGLL 1rsgA 254 :PQSVL T0334 236 :NKAMEEP 1rsgA 259 :NLSVQPE T0334 243 :FLDMSDHLLNDSAVAT 1rsgA 286 :FDKIHFGALGKVIFEF T0334 264 :DD 1rsgA 302 :EE T0334 269 :VE 1rsgA 351 :VT T0334 278 :MKSGWTWKIPM 1rsgA 353 :CWSQPLFFVNL T0334 289 :LGR 1rsgA 366 :STG T0334 292 :FGTGYVYSSRFATE 1rsgA 370 :ASFMMLMQAPLTNH T0334 306 :DEAVREFCEMW 1rsgA 392 :ERLFSFFQPVL T0334 317 :HL 1rsgA 417 :GM T0334 326 :NRIRFRVGRNRRA 1rsgA 428 :NKPVLRNIIVSNW T0334 339 :WVGNCVSIG 1rsgA 470 :QDSRIRFAG T0334 348 :TSSCF 1rsgA 484 :DGAGC T0334 361 :IYFVYAALYQLV 1rsgA 489 :AYGAWESGRREA T0334 386 :ARFNREIETM 1rsgA 501 :TRISDLLKLE Number of specific fragments extracted= 29 number of extra gaps= 0 total=471 Number of alignments=19 # 1rsgA read from 1rsgA/merged-good-all-a2m # found chain 1rsgA in template set Warning: unaligning (T0334)K4 because first residue in template chain is (1rsgA)P6 Warning: unaligning (T0334)Q323 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1rsgA)A427 Warning: unaligning (T0334)V340 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1rsgA)V460 T0334 5 :ID 1rsgA 7 :AK T0334 7 :KILIVGGGTAGWMAASYLGK 1rsgA 10 :KVIIIGAGIAGLKAASTLHQ T0334 29 :QGTADITLLQAPD 1rsgA 30 :NGIQDCLVLEARD T0334 42 :IPTL 1rsgA 44 :VGGR T0334 46 :GVGEATIPNLQTAFFDFLGIPEDEWMRECNAS 1rsgA 53 :GYQGRKYDIGASWHHDTLTNPLFLEEAQLSLN T0334 103 :GPDHFYHSFGLL 1rsgA 86 :GRTRFVFDDDNF T0334 115 :KYHE 1rsgA 102 :EERG T0334 152 :ANRSPRRL 1rsgA 106 :RVDHDKEL T0334 172 :DAHLVADFLRRFA 1rsgA 114 :LLEIVDNEMSKFA T0334 186 :EKL 1rsgA 127 :ELE T0334 189 :GVR 1rsgA 211 :SFP T0334 192 :HVED 1rsgA 217 :LKLS T0334 196 :RVEHVQRDANGNIE 1rsgA 222 :EVKSITREPSKNVT T0334 211 :VRTATGRVFDADLFVDCSG 1rsgA 236 :VNCEDGTVYNADYVIITVP T0334 233 :LLINKAMEEPFLDMSDHLLNDSAV 1rsgA 255 :QSVLNLSVQPEKNLRGRIEFQPPL T0334 271 :PFTSAIAMK 1rsgA 279 :KPVIQDAFD T0334 280 :SGWTWKIPM 1rsgA 355 :SQPLFFVNL T0334 289 :LGRFGTGYVYSSRFATE 1rsgA 367 :TGVASFMMLMQAPLTNH T0334 306 :DEAVREFCEMWHLDP 1rsgA 392 :ERLFSFFQPVLNKIM T0334 324 :PLNRIRF 1rsgA 428 :NKPVLRN T0334 337 :RAW 1rsgA 452 :ACF T0334 342 :NCVSIGTSSCF 1rsgA 473 :RIRFAGEHTIM T0334 353 :VEPL 1rsgA 485 :GAGC T0334 361 :IYFVYAALYQLVKHFP 1rsgA 489 :AYGAWESGRREATRIS Number of specific fragments extracted= 24 number of extra gaps= 0 total=495 Number of alignments=20 # 1rsgA read from 1rsgA/merged-good-all-a2m # found chain 1rsgA in template set Warning: unaligning (T0334)G3 because first residue in template chain is (1rsgA)P6 Warning: unaligning (T0334)A97 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1rsgA)D138 Warning: unaligning (T0334)D105 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1rsgA)D138 T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1rsgA 7 :AKKKVIIIGAGIAGLKAASTLHQ T0334 30 :GTAD 1rsgA 30 :NGIQ T0334 34 :ITLLQ 1rsgA 35 :CLVLE T0334 39 :APDIPT 1rsgA 41 :RDRVGG T0334 45 :LGVGEA 1rsgA 59 :YDIGAS T0334 51 :T 1rsgA 71 :T T0334 53 :PNLQTAF 1rsgA 72 :NPLFLEE T0334 68 :DEWMREC 1rsgA 79 :AQLSLND T0334 75 :NAS 1rsgA 94 :DDN T0334 78 :YKVAIKFINWRTAGEGTS 1rsgA 98 :IYIDEERGRVDHDKELLL T0334 96 :E 1rsgA 129 :E T0334 106 :HFYHSFGLLKYHEQIPLSHY 1rsgA 139 :CSFFQLVMKYLLQRRQFLTN T0334 138 :PFDYACYKEP 1rsgA 159 :DQIRYLPQLC T0334 148 :VILDANRSPRR 1rsgA 174 :WHGLDWKLLSA T0334 159 :LDGSKVTNYAWHFDAHLVADFLRR 1rsgA 187 :TYFGHQGRNAFALNYDSVVQRIAQ T0334 191 :RHVEDRVEHVQRDANGN 1rsgA 217 :LKLSCEVKSITREPSKN T0334 209 :ESVRTATGRVFDADLFVDC 1rsgA 234 :VTVNCEDGTVYNADYVIIT T0334 230 :FRGLLINKAMEEP 1rsgA 253 :VPQSVLNLSVQPE T0334 243 :FLDMSDHLLNDSAVATQVPHDDDAN 1rsgA 285 :AFDKIHFGALGKVIFEFEECCWSNE T0334 293 :GTGYVYSSR 1rsgA 310 :SSKIVTLAN T0334 303 :ATED 1rsgA 319 :STNE T0334 307 :EAVREFCEMW 1rsgA 461 :DMVVAMSNGQ T0334 340 :VGNCV 1rsgA 471 :DSRIR T0334 348 :TSSCFVEPLESTGIYFVYAALYQLV 1rsgA 476 :FAGEHTIMDGAGCAYGAWESGRREA Number of specific fragments extracted= 24 number of extra gaps= 0 total=519 Number of alignments=21 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1aogA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1aogA expands to /projects/compbio/data/pdb/1aog.pdb.gz 1aogA:# T0334 read from 1aogA/merged-good-all-a2m # 1aogA read from 1aogA/merged-good-all-a2m # adding 1aogA to template set # found chain 1aogA in template set Warning: unaligning (T0334)G3 because first residue in template chain is (1aogA)S3 Warning: unaligning (T0334)K4 because of BadResidue code BAD_PEPTIDE in next template residue (1aogA)I5 Warning: unaligning (T0334)I5 because of BadResidue code BAD_PEPTIDE at template residue (1aogA)I5 T0334 6 :DKILIVGGGTAGWMAASYLGKA 1aogA 6 :FDLVVIGAGSGGLEAAWNAATL T0334 30 :GTADITLLQAP 1aogA 28 :YKKRVAVIDVQ T0334 41 :DI 1aogA 40 :VH T0334 43 :PTLGVGEATIPNLQTAF 1aogA 43 :PPFFSALGGTCVNVGCV T0334 73 :ECNASYKVAIKFINWRTA 1aogA 60 :PKKLMVTGAQYMEHLRES T0334 96 :EARELDGGPDHFYHSFGLL 1aogA 78 :AGFGWEFDRTTLRAEWKNL T0334 115 :KYHEQI 1aogA 103 :AVLNIN T0334 121 :PLSHYWFDRS 1aogA 110 :SYDEMFRDTE T0334 141 :YACYKE 1aogA 120 :GLEFFL T0334 166 :NYAW 1aogA 126 :GWGS T0334 170 :HFD 1aogA 230 :GFD T0334 174 :HLVADFLRRFA 1aogA 233 :HTLREELTKQL T0334 186 :EKLGVRHVED 1aogA 244 :TANGIQILTK T0334 196 :RVEHVQRDANGN 1aogA 255 :NPAKVELNADGS T0334 209 :ESVRTATGRVFDADLFVDCSGFRGLL 1aogA 267 :KSVTFESGKKMDFDLVMMAIGRSPRT T0334 236 :NKA 1aogA 293 :KDL T0334 239 :MEEPFL 1aogA 350 :FGTTPR T0334 281 :GWTWKIPMLGR 1aogA 412 :VAKIITNHSDG T0334 292 :FGTGYVYSSRFA 1aogA 424 :VLGVHLLGDNAP T0334 307 :EAVREFCEMW 1aogA 436 :EIIQGIGICL T0334 320 :PETQPLNRIRFRVGRNRRAWVG 1aogA 459 :GVHPTSAEELCSMRTPSYYYVK Number of specific fragments extracted= 21 number of extra gaps= 0 total=540 Number of alignments=22 # 1aogA read from 1aogA/merged-good-all-a2m # found chain 1aogA in template set Warning: unaligning (T0334)K4 because first residue in template chain is (1aogA)S3 Warning: unaligning (T0334)I5 because of BadResidue code BAD_PEPTIDE in next template residue (1aogA)I5 Warning: unaligning (T0334)D6 because of BadResidue code BAD_PEPTIDE at template residue (1aogA)I5 Warning: unaligning (T0334)Y144 because of BadResidue code BAD_PEPTIDE in next template residue (1aogA)D215 Warning: unaligning (T0334)K145 because of BadResidue code BAD_PEPTIDE at template residue (1aogA)D215 Warning: unaligning (T0334)E146 because of BadResidue code BAD_PEPTIDE at template residue (1aogA)G216 T0334 7 :KILIVGGGTAGWMAASYLGK 1aogA 7 :DLVVIGAGSGGLEAAWNAAT T0334 28 :LQGT 1aogA 27 :LYKK T0334 33 :DITLLQAPD 1aogA 31 :RVAVIDVQM T0334 42 :IPTL 1aogA 41 :HGPP T0334 48 :GEATIPN 1aogA 79 :GFGWEFD T0334 60 :FDFLGIPEDEWMRECNASYKVAIKFINWRTAGEGTS 1aogA 86 :RTTLRAEWKNLIAVKDEAVLNINKSYDEMFRDTEGL T0334 96 :EARELDG 1aogA 164 :WPHMPNI T0334 103 :GPDHFYHSFGLL 1aogA 172 :GIEHCISSNEAF T0334 115 :KYHEQIPLSHYWFDRSYRGKTV 1aogA 187 :EPPRRVLTVGGGFISVEFAGIF T0334 139 :FDYAC 1aogA 209 :NAYKP T0334 147 :PVILD 1aogA 217 :QVTLC T0334 152 :ANRSPRRL 1aogA 223 :RGEMILRG T0334 172 :DAHLVADFLRRFA 1aogA 231 :FDHTLREELTKQL T0334 186 :EKLGVRHVED 1aogA 244 :TANGIQILTK T0334 196 :RVEHVQRDANGN 1aogA 255 :NPAKVELNADGS T0334 209 :ESVRTATGRVFDADLFVDCSGFRG 1aogA 267 :KSVTFESGKKMDFDLVMMAIGRSP T0334 233 :LLINKAMEEPFL 1aogA 294 :DLQLQNAGVMIK T0334 247 :SDHLLNDSAVATQVPHDDDANGV 1aogA 306 :NGGVQVDEYSRTNVSNIYAIGDV T0334 333 :GRNR 1aogA 367 :FSIP T0334 337 :RAWVG 1aogA 417 :TNHSD T0334 342 :NCVSIGTSS 1aogA 426 :GVHLLGDNA T0334 427 :ADGMQEKIDMYRAG 1aogA 435 :PEIIQGIGICLKLN T0334 441 :MAINAPASDDAQLYYGNFEE 1aogA 454 :FYNTIGVHPTSAEELCSMRT Number of specific fragments extracted= 23 number of extra gaps= 1 total=563 Number of alignments=23 # 1aogA read from 1aogA/merged-good-all-a2m # found chain 1aogA in template set Warning: unaligning (T0334)G30 because of BadResidue code BAD_PEPTIDE in next template residue (1aogA)D215 Warning: unaligning (T0334)T31 because of BadResidue code BAD_PEPTIDE at template residue (1aogA)D215 Warning: unaligning (T0334)A32 because of BadResidue code BAD_PEPTIDE at template residue (1aogA)G216 T0334 3 :GKIDKILIVGGGTAGWMAASYLGKALQ 1aogA 187 :EPPRRVLTVGGGFISVEFAGIFNAYKP T0334 33 :DITLLQAPDI 1aogA 217 :QVTLCYRGEM T0334 51 :TI 1aogA 227 :IL T0334 63 :LGIPE 1aogA 229 :RGFDH T0334 175 :LVADFLRRFATEKLGVRHVEDRVEHVQRDANGN 1aogA 234 :TLREELTKQLTANGIQILTKENPAKVELNADGS T0334 209 :ESVRTATGRVFDADLFVDCSGFR 1aogA 267 :KSVTFESGKKMDFDLVMMAIGRS T0334 244 :LDMSDH 1aogA 290 :PRTKDL T0334 287 :PMLGR 1aogA 296 :QLQNA T0334 292 :FGTGYVYSSRFA 1aogA 304 :IKNGGVQVDEYS T0334 337 :RAWVGNCVSIGTSSCFVEPL 1aogA 316 :RTNVSNIYAIGDVTNRVMLT T0334 362 :YFVYAALYQLVKHFPDKS 1aogA 336 :PVAINEAAALVDTVFGTT Number of specific fragments extracted= 11 number of extra gaps= 1 total=574 Number of alignments=24 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1y0pA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1y0pA expands to /projects/compbio/data/pdb/1y0p.pdb.gz 1y0pA:# T0334 read from 1y0pA/merged-good-all-a2m # 1y0pA read from 1y0pA/merged-good-all-a2m # adding 1y0pA to template set # found chain 1y0pA in template set Warning: unaligning (T0334)I34 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1y0pA)I153 Warning: unaligning (T0334)T35 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1y0pA)I153 Warning: unaligning (T0334)P43 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1y0pA)G162 Warning: unaligning (T0334)T44 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1y0pA)G162 T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1y0pA 125 :DTVDVVVVGSGGAGFSAAISATD T0334 30 :GTAD 1y0pA 148 :SGAK T0334 36 :LLQAPDI 1y0pA 154 :LIEKEPV T0334 45 :LGVGEATI 1y0pA 163 :GNAKLAAG T0334 57 :TAF 1y0pA 178 :DQQ T0334 61 :DFLGI 1y0pA 181 :KAKKI T0334 66 :PEDEWMRECNA 1y0pA 188 :SPELMFEDTMK T0334 77 :SYKVAIKFINWR 1y0pA 208 :LVKVLSSHSKDS T0334 123 :SHYWFDRSYR 1y0pA 220 :VDWMTAMGAD T0334 141 :YACYKEPVI 1y0pA 230 :LTDVGMMGG T0334 155 :SPRR 1y0pA 239 :ASVN T0334 162 :SKVTNYAW 1y0pA 244 :AHRPTGGA T0334 171 :FDAHLVADFLRRFAT 1y0pA 252 :GVGAHVVQVLYDNAV T0334 187 :KLGVRHVED 1y0pA 267 :KRNIDLRMN T0334 196 :RVEHVQRDANGNIESVRTA 1y0pA 277 :RGIEVLKDDKGTVKGILVK T0334 215 :TG 1y0pA 299 :KG T0334 217 :RVFDADLFVDCSGFRGL 1y0pA 302 :YWVKADAVILATGGFAK T0334 234 :L 1y0pA 323 :V T0334 236 :NKAM 1y0pA 324 :AKLD T0334 244 :LDMSDHLLNDS 1y0pA 328 :PSLKGFISTNQ T0334 267 :NGVE 1y0pA 339 :PGAV T0334 271 :PFTSAIAMKSGWTWKIPM 1y0pA 350 :ENAGGALKDMQYIQAHPT T0334 289 :LGRFGT 1y0pA 371 :KGGVMV T0334 295 :GYVYSSRFATE 1y0pA 384 :GAILVNREGKR T0334 306 :DEAVREFCEMW 1y0pA 459 :KALTETVARYN T0334 317 :HLDPETQ 1y0pA 475 :GKDTDFE T0334 324 :PLNRIRFRVG 1y0pA 493 :NYYAIEVTPG T0334 334 :RNRRAWVGNCVSIG 1y0pA 520 :NAKKQVIPGLYGAG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHF 1y0pA 537 :GGVHGANRLGGNAISDIITFGRLAGEEA Number of specific fragments extracted= 29 number of extra gaps= 2 total=603 Number of alignments=25 # 1y0pA read from 1y0pA/merged-good-all-a2m # found chain 1y0pA in template set Warning: unaligning (T0334)I34 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1y0pA)I153 Warning: unaligning (T0334)T35 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1y0pA)I153 Warning: unaligning (T0334)I42 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1y0pA)G162 Warning: unaligning (T0334)P43 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1y0pA)G162 Warning: unaligning (T0334)P66 because of BadResidue code BAD_PEPTIDE in next template residue (1y0pA)W176 Warning: unaligning (T0334)E67 because of BadResidue code BAD_PEPTIDE at template residue (1y0pA)W176 T0334 3 :GKID 1y0pA 122 :APHD T0334 7 :KILIVGGGTAGWMAASYLGK 1y0pA 128 :DVVVVGSGGAGFSAAISATD T0334 29 :QGT 1y0pA 148 :SGA T0334 33 :D 1y0pA 151 :K T0334 36 :LLQAPD 1y0pA 154 :LIEKEP T0334 44 :TL 1y0pA 163 :GN T0334 59 :FFDFLGI 1y0pA 168 :AAGGMNA T0334 68 :DEWMRECNASYKVAIKFINWRTAGEGTS 1y0pA 177 :TDQQKAKKITDSPELMFEDTMKGGQNIN T0334 96 :EARELDGGPDHFYHSFGLL 1y0pA 222 :WMTAMGADLTDVGMMGGAS T0334 115 :KYHE 1y0pA 246 :RPTG T0334 152 :AN 1y0pA 251 :AG T0334 172 :DAHLVADFLRRFA 1y0pA 253 :VGAHVVQVLYDNA T0334 186 :EKLGVRHVED 1y0pA 266 :VKRNIDLRMN T0334 196 :RVEHVQRDANGNIESVRTA 1y0pA 277 :RGIEVLKDDKGTVKGILVK T0334 215 :T 1y0pA 297 :M T0334 216 :GR 1y0pA 299 :KG T0334 218 :VFDADLFVDCSGFRG 1y0pA 303 :WVKADAVILATGGFA T0334 233 :LLINKAM 1y0pA 321 :ERVAKLD T0334 264 :DDANGVEPFTSAIAMK 1y0pA 328 :PSLKGFISTNQPGAVG T0334 280 :SGWTWKIPM 1y0pA 359 :MQYIQAHPT T0334 289 :LGR 1y0pA 371 :KGG T0334 292 :FGTGYVYSSRFATE 1y0pA 383 :NGAILVNREGKRFV T0334 306 :DEAVREFCEM 1y0pA 462 :TETVARYNSL T0334 316 :WHLDPETQPLNRIRF 1y0pA 473 :SSGKDTDFERPNLPR T0334 331 :RVGRNR 1y0pA 503 :VHHTMG T0334 337 :RAWVGNCVSIGTSSCFVEP 1y0pA 523 :KQVIPGLYGAGEVTGGVHG T0334 356 :LESTGIYFVYAALYQLVKHF 1y0pA 545 :LGGNAISDIITFGRLAGEEA Number of specific fragments extracted= 27 number of extra gaps= 3 total=630 Number of alignments=26 # 1y0pA read from 1y0pA/merged-good-all-a2m # found chain 1y0pA in template set Warning: unaligning (T0334)I34 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1y0pA)I153 Warning: unaligning (T0334)T35 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1y0pA)I153 Warning: unaligning (T0334)L45 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1y0pA)G162 Warning: unaligning (T0334)G46 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1y0pA)G162 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1y0pA 126 :TVDVVVVGSGGAGFSAAISATD T0334 30 :GTAD 1y0pA 148 :SGAK T0334 36 :LLQAPD 1y0pA 154 :LIEKEP T0334 44 :T 1y0pA 160 :V T0334 47 :VGEATI 1y0pA 163 :GNAKLA T0334 58 :AF 1y0pA 179 :QQ T0334 61 :DFLGI 1y0pA 181 :KAKKI T0334 66 :PEDEWMRE 1y0pA 188 :SPELMFED T0334 114 :LKYHEQIPLSHYWFDRSY 1y0pA 196 :TMKGGQNINDPALVKVLS T0334 137 :EPFDYACYKEPVILDANRSPRRLDGSKVT 1y0pA 214 :SHSKDSVDWMTAMGADLTDVGMMGGASVN T0334 168 :AWHF 1y0pA 243 :RAHR T0334 172 :DAHLVADFLRRFATEKLGVRHVEDRVEHVQRDANGNIESVRT 1y0pA 253 :VGAHVVQVLYDNAVKRNIDLRMNTRGIEVLKDDKGTVKGILV T0334 214 :ATGR 1y0pA 297 :MYKG T0334 218 :VFDADLFVDCSGFRG 1y0pA 303 :WVKADAVILATGGFA T0334 233 :LLINK 1y0pA 322 :RVAKL T0334 243 :FLDMSDHLLND 1y0pA 327 :DPSLKGFISTN T0334 307 :EAVREFCEMWHLDP 1y0pA 463 :ETVARYNSLVSSGK T0334 322 :TQ 1y0pA 477 :DT T0334 324 :PLNRIRFRVGRNRRA 1y0pA 493 :NYYAIEVTPGVHHTM T0334 339 :WVGNCVSIGTSSCFVEP 1y0pA 525 :VIPGLYGAGEVTGGVHG T0334 356 :LESTGIYFVYAALYQLVKHFP 1y0pA 545 :LGGNAISDIITFGRLAGEEAA Number of specific fragments extracted= 21 number of extra gaps= 2 total=651 Number of alignments=27 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1zmdA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1zmdA expands to /projects/compbio/data/pdb/1zmd.pdb.gz 1zmdA:Skipped atom 295, because occupancy 0.460 <= existing 0.540 in 1zmdA Skipped atom 297, because occupancy 0.460 <= existing 0.540 in 1zmdA Skipped atom 299, because occupancy 0.460 <= existing 0.540 in 1zmdA Skipped atom 301, because occupancy 0.460 <= existing 0.540 in 1zmdA Skipped atom 303, because occupancy 0.460 <= existing 0.540 in 1zmdA Skipped atom 305, because occupancy 0.460 <= existing 0.540 in 1zmdA Skipped atom 334, because occupancy 0.460 <= existing 0.540 in 1zmdA Skipped atom 336, because occupancy 0.460 <= existing 0.540 in 1zmdA Skipped atom 338, because occupancy 0.460 <= existing 0.540 in 1zmdA Skipped atom 340, because occupancy 0.460 <= existing 0.540 in 1zmdA Skipped atom 342, because occupancy 0.460 <= existing 0.540 in 1zmdA Skipped atom 344, because occupancy 0.460 <= existing 0.540 in 1zmdA Skipped atom 759, because occupancy 0.500 <= existing 0.500 in 1zmdA Skipped atom 761, because occupancy 0.500 <= existing 0.500 in 1zmdA Skipped atom 763, because occupancy 0.500 <= existing 0.500 in 1zmdA Skipped atom 765, because occupancy 0.500 <= existing 0.500 in 1zmdA Skipped atom 767, because occupancy 0.500 <= existing 0.500 in 1zmdA Skipped atom 769, because occupancy 0.500 <= existing 0.500 in 1zmdA Skipped atom 771, because occupancy 0.500 <= existing 0.500 in 1zmdA Skipped atom 773, because occupancy 0.500 <= existing 0.500 in 1zmdA Skipped atom 775, because occupancy 0.500 <= existing 0.500 in 1zmdA Skipped atom 777, because occupancy 0.500 <= existing 0.500 in 1zmdA # T0334 read from 1zmdA/merged-good-all-a2m # 1zmdA read from 1zmdA/merged-good-all-a2m # adding 1zmdA to template set # found chain 1zmdA in template set Warning: unaligning (T0334)S2 because first residue in template chain is (1zmdA)Q3 T0334 3 :GKIDKILIVGGGTAGWMAASYLGKA 1zmdA 4 :PIDADVTVIGSGPGGYVAAIKAAQL T0334 31 :TADITLLQAP 1zmdA 29 :GFKTVCIEKN T0334 41 :DIPTLGVGEATIPN 1zmdA 40 :TLGGTCLNVGCIPS T0334 57 :TAF 1zmdA 54 :KAL T0334 60 :FDFLGI 1zmdA 71 :FASRGI T0334 74 :CNASYKVAIKFINWRTAGE 1zmdA 85 :LDKMMEQKSTAVKALTGGI T0334 96 :EARELDGGP 1zmdA 104 :AHLFKQNKV T0334 105 :DHFYHSFGL 1zmdA 124 :KNQVTATKA T0334 130 :SYR 1zmdA 149 :GSE T0334 136 :VEPFDYACYKEPVILD 1zmdA 152 :VTPFPGITIDEDTIVS T0334 152 :ANRSPRRLDGSKVTNYAW 1zmdA 171 :ALSLKKVPEKMVVIGAGV T0334 170 :HFD 1zmdA 217 :GID T0334 174 :HLVADFLRRFA 1zmdA 220 :MEISKNFQRIL T0334 186 :EKLGVRHVED 1zmdA 231 :QKQGFKFKLN T0334 196 :RVEHVQRDANGNI 1zmdA 242 :KVTGATKKSDGKI T0334 209 :ESVRTATG 1zmdA 256 :VSIEAASG T0334 217 :RVFDADLFVDCSGFRGLL 1zmdA 267 :EVITCDVLLVCIGRRPFT T0334 236 :N 1zmdA 288 :G T0334 237 :KAMEEPFLD 1zmdA 290 :EELGIELDP T0334 247 :SDHLLNDS 1zmdA 299 :RGRIPVNT T0334 259 :QVPHDDD 1zmdA 307 :RFQTKIP T0334 266 :ANGVE 1zmdA 344 :GGAVH T0334 271 :PFTSAIAMKSGWTWKIPM 1zmdA 352 :NCVPSVIYTHPEVAWVGK T0334 309 :VREFCEM 1zmdA 371 :EEQLKEE T0334 322 :TQPLNRIRFRVGRNRRA 1zmdA 378 :GIEYKVGKFPFAANSRA T0334 339 :WVGNCVSIG 1zmdA 400 :TDGMVKILG T0334 348 :TSSCFVEPLESTGIYFVYAALYQ 1zmdA 416 :LGAHILGPGAGEMVNEAALALEY T0334 371 :LVKHFPDKSLNPVL 1zmdA 445 :IARVCHAHPTLSEA T0334 399 :TRDFIQAHF 1zmdA 459 :FREANLAAS Number of specific fragments extracted= 29 number of extra gaps= 0 total=680 Number of alignments=28 # 1zmdA read from 1zmdA/merged-good-all-a2m # found chain 1zmdA in template set Warning: unaligning (T0334)G3 because first residue in template chain is (1zmdA)Q3 T0334 4 :KID 1zmdA 4 :PID T0334 7 :KILIVGGGTAGWMAASYLGK 1zmdA 8 :DVTVIGSGPGGYVAAIKAAQ T0334 29 :QGT 1zmdA 28 :LGF T0334 33 :DITLLQAPD 1zmdA 31 :KTVCIEKNE T0334 42 :IPTLGVGEATIPN 1zmdA 41 :LGGTCLNVGCIPS T0334 57 :TAFFDFLGIPED 1zmdA 54 :KALLNNSHYYHM T0334 69 :EWMRECNAS 1zmdA 69 :TDFASRGIE T0334 96 :EARELDGGPDHFYHSFGLL 1zmdA 154 :PFPGITIDEDTIVSSTGAL T0334 115 :KYHEQIPLSHYWFDRSYRG 1zmdA 176 :KVPEKMVVIGAGVIGVELG T0334 139 :FDYACYKEPVILD 1zmdA 195 :SVWQRLGADVTAV T0334 152 :ANRSPRRLD 1zmdA 209 :FLGHVGGVG T0334 172 :DAHLVADFLRRFA 1zmdA 218 :IDMEISKNFQRIL T0334 186 :EKLGVRHVED 1zmdA 231 :QKQGFKFKLN T0334 196 :RVEHVQRDANGNIE 1zmdA 242 :KVTGATKKSDGKID T0334 211 :VRTA 1zmdA 256 :VSIE T0334 215 :TGR 1zmdA 262 :SGG T0334 218 :VFDADLFVDCSGFRG 1zmdA 268 :VITCDVLLVCIGRRP T0334 233 :LLINKAMEEPFLD 1zmdA 286 :NLGLEELGIELDP T0334 247 :SDHLLNDSAVATQVPHDDDANGV 1zmdA 299 :RGRIPVNTRFQTKIPNIYAIGDV T0334 270 :EPFTSAIAM 1zmdA 352 :NCVPSVIYT T0334 280 :SGWTWKIPM 1zmdA 361 :HPEVAWVGK T0334 308 :AVREFCEM 1zmdA 370 :SEEQLKEE T0334 322 :TQPLNRIRFRVGRNR 1zmdA 378 :GIEYKVGKFPFAANS T0334 337 :RAWVGNCVSIG 1zmdA 398 :ADTDGMVKILG T0334 348 :TSSCFVEPLESTGIYFVYAALYQ 1zmdA 416 :LGAHILGPGAGEMVNEAALALEY T0334 414 :DTP 1zmdA 439 :GAS T0334 417 :FWRANK 1zmdA 445 :IARVCH T0334 423 :ELRLADGMQEKIDMYR 1zmdA 452 :HPTLSEAFREANLAAS Number of specific fragments extracted= 28 number of extra gaps= 0 total=708 Number of alignments=29 # 1zmdA read from 1zmdA/merged-good-all-a2m # found chain 1zmdA in template set T0334 1 :MSGKIDKILIVGGGTAGWMAASYLGK 1zmdA 174 :LKKVPEKMVVIGAGVIGVELGSVWQR T0334 30 :GTADITLLQAPDI 1zmdA 200 :LGADVTAVEFLGH T0334 47 :VGE 1zmdA 213 :VGG T0334 63 :LGIPE 1zmdA 216 :VGIDM T0334 175 :LVADFLRRFATEKLGVRHVEDRVEHVQRDANGNIE 1zmdA 221 :EISKNFQRILQKQGFKFKLNTKVTGATKKSDGKID T0334 210 :SVRTATGR 1zmdA 257 :SIEAASGG T0334 218 :VFDADLFVDCSGFRG 1zmdA 268 :VITCDVLLVCIGRRP T0334 237 :KAMEEPFLDMS 1zmdA 290 :EELGIELDPRG T0334 285 :KIPMLGR 1zmdA 301 :RIPVNTR T0334 337 :RAWVGNCVSIGTSSCFVE 1zmdA 309 :QTKIPNIYAIGDVVAGPM T0334 357 :E 1zmdA 327 :L T0334 361 :IYFVYAALYQLVKHFPDKSLN 1zmdA 328 :AHKAEDEGIICVEGMAGGAVH Number of specific fragments extracted= 12 number of extra gaps= 0 total=720 Number of alignments=30 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1fl2A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1fl2A expands to /projects/compbio/data/pdb/1fl2.pdb.gz 1fl2A:# T0334 read from 1fl2A/merged-good-all-a2m # 1fl2A read from 1fl2A/merged-good-all-a2m # adding 1fl2A to template set # found chain 1fl2A in template set Warning: unaligning (T0334)R329 because of BadResidue code BAD_PEPTIDE in next template residue (1fl2A)L442 Warning: unaligning (T0334)F330 because of BadResidue code BAD_PEPTIDE at template residue (1fl2A)L442 T0334 6 :DKILIVGGGTAGWMAASYLGK 1fl2A 213 :YDVLIVGSGPAGAAAAIYSAR T0334 30 :GTADITLLQAP 1fl2A 234 :KGIRTGLMGER T0334 130 :S 1fl2A 246 :G T0334 141 :YACYKEPVILDANRSPR 1fl2A 247 :GQILDTVDIENYISVPK T0334 171 :FDAHLVADFLRRFA 1fl2A 264 :TEGQKLAGALKVHV T0334 186 :EKLGVRHVED 1fl2A 278 :DEYDVDVIDS T0334 196 :RVEHVQRDA 1fl2A 289 :SASKLIPAA T0334 205 :NGNIESVRTATGRVFDADLFVDCSG 1fl2A 299 :EGGLHQIETASGAVLKARSIIVATG T0334 236 :NKAMEEPFLDMSDHLLN 1fl2A 324 :AKWRNMNVPGEDQYRTK T0334 254 :S 1fl2A 341 :G T0334 269 :VE 1fl2A 342 :VT T0334 271 :PFTSA 1fl2A 346 :PHCDG T0334 287 :PM 1fl2A 351 :PL T0334 289 :LGR 1fl2A 354 :KGK T0334 292 :FGT 1fl2A 358 :VAV T0334 295 :GYVYSSRFATE 1fl2A 382 :TLLEFAPEMKA T0334 306 :DEAVREFCEMW 1fl2A 394 :QVLQDKLRSLK T0334 320 :PETQPLNRI 1fl2A 432 :RVSGDIHNI T0334 331 :RVG 1fl2A 443 :AGI T0334 334 :RNRRA 1fl2A 451 :LLPNT T0334 339 :WVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFPD 1fl2A 479 :NVKGVFAAGDCTTVPYKQIIIATGEGAKASLSAFDYLIR Number of specific fragments extracted= 21 number of extra gaps= 1 total=741 Number of alignments=31 # 1fl2A read from 1fl2A/merged-good-all-a2m # found chain 1fl2A in template set Warning: unaligning (T0334)D220 because of BadResidue code BAD_PEPTIDE in next template residue (1fl2A)L442 Warning: unaligning (T0334)A221 because of BadResidue code BAD_PEPTIDE at template residue (1fl2A)L442 T0334 7 :KILIVGGGTAGWMAASYLGK 1fl2A 214 :DVLIVGSGPAGAAAAIYSAR T0334 29 :QGT 1fl2A 234 :KGI T0334 33 :DITLLQAP 1fl2A 237 :RTGLMGER T0334 42 :IPTL 1fl2A 245 :FGGQ T0334 46 :GVGEATIPNLQTAF 1fl2A 260 :SVPKTEGQKLAGAL T0334 68 :DEWMRECNASYKVAIKFINWRTAGEGTS 1fl2A 274 :KVHVDEYDVDVIDSQSASKLIPAAVEGG T0334 96 :EARELDG 1fl2A 328 :NMNVPGE T0334 103 :GPDHFYHSFGLL 1fl2A 338 :RTKGVTYCPHCD T0334 115 :KYHEQIPLSHYWFDRSYRG 1fl2A 353 :FKGKRVAVIGGGNSGVEAA T0334 139 :FDYACYKEPVILDANRSPRRL 1fl2A 372 :IDLAGIVEHVTLLEFAPEMKA T0334 172 :DAHL 1fl2A 393 :DQVL T0334 181 :RRFATEKLGVRHVED 1fl2A 397 :QDKLRSLKNVDIILN T0334 196 :RVEHVQRDAN 1fl2A 413 :QTTEVKGDGS T0334 207 :NIESVRTA 1fl2A 423 :KVVGLEYR T0334 216 :GR 1fl2A 435 :GD T0334 218 :VF 1fl2A 439 :NI T0334 222 :DLFVDCSGFRG 1fl2A 443 :AGIFVQIGLLP T0334 233 :LLINKAMEEPF 1fl2A 456 :NWLEGAVERNR T0334 247 :SDHLLNDSAVA 1fl2A 467 :MGEIIIDAKCE T0334 338 :AWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 1fl2A 478 :TNVKGVFAAGDCTTVPYKQIIIATGEGAKASLSAFDYLI Number of specific fragments extracted= 20 number of extra gaps= 1 total=761 Number of alignments=32 # 1fl2A read from 1fl2A/merged-good-all-a2m # found chain 1fl2A in template set T0334 7 :KILIVGGGTAGWMAASYLGK 1fl2A 214 :DVLIVGSGPAGAAAAIYSAR T0334 30 :GTADITLLQAP 1fl2A 234 :KGIRTGLMGER T0334 47 :VGEAT 1fl2A 245 :FGGQI T0334 79 :KVAIKFINWRTAGEGT 1fl2A 250 :LDTVDIENYISVPKTE T0334 173 :AHLVADFLRRFATEKLGVRHVEDRVEHVQRDA 1fl2A 266 :GQKLAGALKVHVDEYDVDVIDSQSASKLIPAA T0334 205 :NGNIESVRTATGRVFDADLFVDCSGF 1fl2A 299 :EGGLHQIETASGAVLKARSIIVATGA T0334 240 :EEP 1fl2A 325 :KWR T0334 259 :QVPHDDDAN 1fl2A 328 :NMNVPGEDQ T0334 292 :FGTGYVYS 1fl2A 338 :RTKGVTYC T0334 300 :SRFA 1fl2A 350 :GPLF T0334 339 :WVGNCVSIGTS 1fl2A 354 :KGKRVAVIGGG T0334 362 :YFVYAALYQLVKHFP 1fl2A 365 :NSGVEAAIDLAGIVE T0334 421 :NKELRLADGMQEKID 1fl2A 387 :APEMKADQVLQDKLR Number of specific fragments extracted= 13 number of extra gaps= 0 total=774 Number of alignments=33 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1bhy/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334/1bhy/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0334/1bhy/merged-good-all-a2m.gz for input Trying 1bhy/merged-good-all-a2m Error: Couldn't open file 1bhy/merged-good-all-a2m or 1bhy/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1pj5A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0334 read from 1pj5A/merged-good-all-a2m # 1pj5A read from 1pj5A/merged-good-all-a2m # found chain 1pj5A in training set Warning: unaligning (T0334)I5 because first residue in template chain is (1pj5A)T4 T0334 6 :DKILIVGGGTAGWMAASYLGK 1pj5A 5 :PRIVIIGAGIVGTNLADELVT T0334 30 :GTA 1pj5A 26 :RGW T0334 33 :DITLLQAP 1pj5A 30 :NITVLDQG T0334 41 :DIPTLGVGEATI 1pj5A 40 :NMPGGSTSHAPG T0334 53 :PN 1pj5A 58 :PS T0334 57 :TAF 1pj5A 60 :KTM T0334 78 :YKVAIKFINWRTAGE 1pj5A 63 :ASFAKYTVEKLLSLT T0334 97 :ARELD 1pj5A 78 :EDGVS T0334 105 :DHFYHSFGLLKYHEQIPLSHYWFDRSYR 1pj5A 88 :GGLEVATTETRLADLKRKLGYAAAWGIE T0334 136 :VEPFDYACYKEPVI 1pj5A 116 :GRLLSPAECQELYP T0334 152 :ANRSPRRLDGSKVTNYAW 1pj5A 130 :LLDGENILGGLHVPSDGL T0334 171 :FDAHLVADFLRRFA 1pj5A 148 :ASAARAVQLLIKRT T0334 186 :EKLGVRHVED 1pj5A 162 :ESAGVTYRGS T0334 196 :RVEHVQR 1pj5A 173 :TVTGIEQ T0334 204 :ANGNIESVRTATG 1pj5A 180 :SGGRVTGVQTADG T0334 218 :VFDADLFVDCSGFRGLLINKAMEEPFLD 1pj5A 193 :VIPADIVVSCAGFWGAKIGAMIGMAVPL T0334 250 :LLNDSAVATQVPHDDDANGVE 1pj5A 221 :LPLAHQYVKTTPVPAQQGRND T0334 271 :PFTSA 1pj5A 249 :PILRH T0334 279 :KSGWTWKIPMLGRFGTGYVY 1pj5A 254 :QDQDLYYREHGDRYGIGSYA T0334 299 :SSRFATE 1pj5A 280 :DVDTLGA T0334 306 :DEAVREFCEMW 1pj5A 309 :LPAWEATKQLL T0334 320 :PETQPLNRIRFRVGRNR 1pj5A 320 :PALADSEIEDGFNGIFS T0334 338 :AWVGNCVSIG 1pj5A 337 :FTPDGGPLLG T0334 348 :TSSCFVEPLES 1pj5A 352 :DGFYVAEAVWV T0334 362 :YFVYAALYQLVKHFPD 1pj5A 363 :THSAGVAKAMAELLTT T0334 378 :KSLNPVLTARF 1pj5A 396 :VQLTPEYVSET T0334 399 :TRDFIQAHFYFSPRTDTP 1pj5A 407 :SQQNFVEIYDVLHPLQPR Number of specific fragments extracted= 27 number of extra gaps= 0 total=801 Number of alignments=34 # 1pj5A read from 1pj5A/merged-good-all-a2m # found chain 1pj5A in training set Warning: unaligning (T0334)D6 because first residue in template chain is (1pj5A)T4 T0334 7 :KILIVGGGTAGWMAASYLGK 1pj5A 6 :RIVIIGAGIVGTNLADELVT T0334 29 :QGTADITLLQAPDI 1pj5A 26 :RGWNNITVLDQGPL T0334 46 :GVGEATIPNLQTAFFDFLGIPEDEWMRECNASYKVAIK 1pj5A 40 :NMPGGSTSHAPGLVFQTNPSKTMASFAKYTVEKLLSLT T0334 103 :GPDHFYHSFGLL 1pj5A 79 :DGVSCFNQVGGL T0334 115 :KYHEQIPLSHYWF 1pj5A 94 :TTETRLADLKRKL T0334 139 :FDYACYKEPVILDANRSPRRLDGSKVTNYAWHF 1pj5A 107 :GYAAAWGIEGRLLSPAECQELYPLLDGENILGG T0334 172 :DAHLVADFLRRFA 1pj5A 149 :SAARAVQLLIKRT T0334 186 :EKLGVRHVED 1pj5A 162 :ESAGVTYRGS T0334 196 :RVEHVQRDAN 1pj5A 173 :TVTGIEQSGG T0334 207 :NIESVRTATG 1pj5A 183 :RVTGVQTADG T0334 218 :VFDADLFVDCSGFRGLLINKAMEEP 1pj5A 193 :VIPADIVVSCAGFWGAKIGAMIGMA T0334 247 :SDHLLNDSAVATQVPHDDDANGVEPFTS 1pj5A 218 :VPLLPLAHQYVKTTPVPAQQGRNDQPNG T0334 275 :AIAMKSGWTWKIPMLGRFGTGYVYSSRFATE 1pj5A 250 :ILRHQDQDLYYREHGDRYGIGSYAHRPMPVD T0334 306 :DEAVREFCEMWHLDPETQPLNRIRFRVGRNR 1pj5A 306 :EDFLPAWEATKQLLPALADSEIEDGFNGIFS T0334 338 :AWVGNCVSIG 1pj5A 337 :FTPDGGPLLG T0334 348 :TSSCFVEP 1pj5A 352 :DGFYVAEA T0334 356 :LES 1pj5A 362 :VTH T0334 364 :VYAALYQLVKHFP 1pj5A 365 :SAGVAKAMAELLT T0334 378 :KSL 1pj5A 379 :GRS T0334 414 :DTP 1pj5A 382 :ETD T0334 427 :ADGMQEKI 1pj5A 400 :PEYVSETS T0334 435 :DMYRAGMAINAPASDDAQL 1pj5A 409 :QNFVEIYDVLHPLQPRLSP T0334 454 :YYGNFEEEFRNF 1pj5A 431 :RVSPFHARHKEL Number of specific fragments extracted= 23 number of extra gaps= 0 total=824 Number of alignments=35 # 1pj5A read from 1pj5A/merged-good-all-a2m # found chain 1pj5A in training set Warning: unaligning (T0334)I5 because first residue in template chain is (1pj5A)T4 T0334 6 :DKILIVGGGTAGWMAASYLGK 1pj5A 5 :PRIVIIGAGIVGTNLADELVT T0334 30 :GTAD 1pj5A 26 :RGWN T0334 34 :ITLLQAPDIPTLGVGEATIP 1pj5A 31 :ITVLDQGPLNMPGGSTSHAP T0334 55 :LQTAFFDFL 1pj5A 61 :TMASFAKYT T0334 68 :DEWMREC 1pj5A 70 :VEKLLSL T0334 75 :NASYKVAIKFINWRTAGEG 1pj5A 80 :GVSCFNQVGGLEVATTETR T0334 114 :LKYHEQIPLSHYWFDRSYRGKTVEPFDYA 1pj5A 99 :LADLKRKLGYAAAWGIEGRLLSPAECQEL T0334 156 :PRRLDGSKVTN 1pj5A 128 :YPLLDGENILG T0334 168 :AWHF 1pj5A 139 :GLHV T0334 172 :DAHLVADFLRRFATEKLGVRHVEDRVEHVQRDANG 1pj5A 149 :SAARAVQLLIKRTESAGVTYRGSTTVTGIEQSGGR T0334 208 :IESVRTATG 1pj5A 184 :VTGVQTADG T0334 218 :VFDADLFVDCSGFRGLLINKAMEEPFL 1pj5A 193 :VIPADIVVSCAGFWGAKIGAMIGMAVP T0334 249 :HLLNDSAVATQVPHD 1pj5A 220 :LLPLAHQYVKTTPVP T0334 264 :DDANGVEPFTSAIAMKSG 1pj5A 240 :NDQPNGARLPILRHQDQD T0334 283 :TWKIPMLGRFGTGYVY 1pj5A 258 :LYYREHGDRYGIGSYA T0334 307 :EAVREFCEMWHLDP 1pj5A 310 :PAWEATKQLLPALA T0334 322 :TQPL 1pj5A 324 :DSEI T0334 329 :RFRVGRNRRAWVGNCVSIGTS 1pj5A 328 :EDGFNGIFSFTPDGGPLLGES T0334 350 :SCFVEPLESTGIYFVYA 1pj5A 357 :AEAVWVTHSAGVAKAMA T0334 370 :QLVK 1pj5A 374 :ELLT T0334 374 :HF 1pj5A 392 :RF T0334 445 :APASDDAQLYYGNFEEEFRNFWNNSNYYCVLA 1pj5A 394 :EDVQLTPEYVSETSQQNFVEIYDVLHPLQPRL Number of specific fragments extracted= 22 number of extra gaps= 0 total=846 Number of alignments=36 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ojaA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ojaA expands to /projects/compbio/data/pdb/1oja.pdb.gz 1ojaA:# T0334 read from 1ojaA/merged-good-all-a2m # 1ojaA read from 1ojaA/merged-good-all-a2m # adding 1ojaA to template set # found chain 1ojaA in template set Warning: unaligning (T0334)G3 because first residue in template chain is (1ojaA)N3 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1ojaA 4 :KCDVVVVGGGISGMAAAKLLHD T0334 30 :GTADITLLQAP 1ojaA 26 :SGLNVVVLEAR T0334 41 :DI 1ojaA 38 :RV T0334 43 :PTLGVGEATIPNLQTAF 1ojaA 56 :LGGSYVGPTQNRILRLA T0334 61 :DFLGI 1ojaA 73 :KELGL T0334 96 :EARELDGGP 1ojaA 78 :ETYKVNEVE T0334 105 :DHFYHSFGLL 1ojaA 94 :GKSYPFRGPF T0334 118 :EQIPLSHYWFDR 1ojaA 114 :DHNNFWRTMDDM T0334 141 :YACYKEPVILDANRSPRR 1ojaA 126 :GREIPSDAPWKAPLAEEW T0334 170 :HFDAHLVADFLRRFA 1ojaA 211 :VGGSGQVSERIMDLL T0334 186 :EKL 1ojaA 226 :GDR T0334 192 :HVED 1ojaA 229 :VKLE T0334 196 :RVEHVQRDANG 1ojaA 234 :PVIYIDQTREN T0334 209 :ESVRTATGRVFDADLFVDCSG 1ojaA 245 :VLVETLNHEMYEAKYVISAIP T0334 236 :NKA 1ojaA 266 :PTL T0334 239 :MEEPFL 1ojaA 274 :FNPPLP T0334 246 :MSDHLLNDSAVATQVPHDDDANGV 1ojaA 287 :TRVPLGSVIKCIVYYKEPFWRKKD T0334 271 :PFTSAIAMKS 1ojaA 311 :YCGTMIIDGE T0334 281 :GWTWKIPMLGR 1ojaA 325 :AYTLDDTKPEG T0334 292 :FGTGYVYSSRFATE 1ojaA 338 :AAIMGFILAHKARK T0334 306 :DEAVREFCEMW 1ojaA 358 :EERLKKLCELY T0334 317 :HL 1ojaA 373 :GS T0334 320 :PETQPLNRIRFRVGRNRRA 1ojaA 375 :LEALEPVHYEEKNWCEEQY T0334 339 :WVGNCVSIG 1ojaA 417 :PVDRIYFAG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHFPD 1ojaA 427 :ETATHWSGYMEGAVEAGERAAREILHAMGK T0334 378 :KSLNP 1ojaA 460 :DEIWQ T0334 412 :RTDT 1ojaA 465 :SEPE T0334 478 :LGLVPDAPSPRLAHMPQ 1ojaA 472 :VPAQPITTTFLERHLPS T0334 503 :FGAVKDRQRNLL 1ojaA 489 :VPGLLRLIGLTT Number of specific fragments extracted= 29 number of extra gaps= 0 total=875 Number of alignments=37 # 1ojaA read from 1ojaA/merged-good-all-a2m # found chain 1ojaA in template set Warning: unaligning (T0334)I5 because first residue in template chain is (1ojaA)N3 Warning: unaligning (T0334)L45 because of BadResidue code BAD_PEPTIDE in next template residue (1ojaA)T43 Warning: unaligning (T0334)D508 because last residue in template chain is (1ojaA)I501 T0334 6 :D 1ojaA 4 :K T0334 7 :KILIVGGGTAGWMAASYLGK 1ojaA 6 :DVVVVGGGISGMAAAKLLHD T0334 29 :QGT 1ojaA 26 :SGL T0334 33 :DITLLQAPD 1ojaA 29 :NVVVLEARD T0334 42 :IPT 1ojaA 39 :VGG T0334 46 :GVGEATIPNLQTAF 1ojaA 56 :LGGSYVGPTQNRIL T0334 139 :FDYACYKEPVILD 1ojaA 70 :RLAKELGLETYKV T0334 152 :ANRSPRRLDGSKVTNYAWHF 1ojaA 84 :EVERLIHHVKGKSYPFRGPF T0334 172 :DAHLVADFLRRFA 1ojaA 213 :GSGQVSERIMDLL T0334 186 :EK 1ojaA 226 :GD T0334 191 :RHVED 1ojaA 228 :RVKLE T0334 196 :RVEHVQRDANG 1ojaA 234 :PVIYIDQTREN T0334 209 :ESVRTATGRVFDADLFVDCSG 1ojaA 245 :VLVETLNHEMYEAKYVISAIP T0334 233 :LLINKAMEEPFLDM 1ojaA 266 :PTLGMKIHFNPPLP T0334 247 :SDHLLND 1ojaA 286 :ITRVPLG T0334 254 :SAVATQVPHDDDANG 1ojaA 295 :IKCIVYYKEPFWRKK T0334 271 :PFTS 1ojaA 310 :DYCG T0334 275 :AIAMK 1ojaA 315 :MIIDG T0334 280 :SGWTWKIPM 1ojaA 323 :PVAYTLDDT T0334 289 :LGRFGTGYVYSSRFATE 1ojaA 335 :GNYAAIMGFILAHKARK T0334 306 :DEAVREFCEM 1ojaA 358 :EERLKKLCEL T0334 316 :WHLDPETQPLNRIRF 1ojaA 372 :LGSLEALEPVHYEEK T0334 337 :RAWVGNCVSIG 1ojaA 415 :RQPVDRIYFAG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHFP 1ojaA 427 :ETATHWSGYMEGAVEAGERAAREILHAMG T0334 377 :DKSLN 1ojaA 459 :EDEIW T0334 443 :INAPASDDAQLYYGNFEEEFRNFWNN 1ojaA 464 :QSEPESVDVPAQPITTTFLERHLPSV T0334 497 :ESVDEVFGAVK 1ojaA 490 :PGLLRLIGLTT Number of specific fragments extracted= 27 number of extra gaps= 1 total=902 Number of alignments=38 # 1ojaA read from 1ojaA/merged-good-all-a2m # found chain 1ojaA in template set Warning: unaligning (T0334)K4 because first residue in template chain is (1ojaA)N3 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1ojaA 4 :KCDVVVVGGGISGMAAAKLLHD T0334 30 :GTADITLLQ 1ojaA 26 :SGLNVVVLE T0334 39 :APDIPT 1ojaA 36 :RDRVGG T0334 45 :LGVGEA 1ojaA 54 :VDLGGS T0334 51 :TIPNLQTAF 1ojaA 64 :TQNRILRLA T0334 61 :DFLGIP 1ojaA 73 :KELGLE T0334 77 :SYKVAI 1ojaA 79 :TYKVNE T0334 83 :KFINWRTAGEGTSEARELDGGPDHFYHSFGLLKYHEQI 1ojaA 88 :LIHHVKGKSYPFRGPFPPVWNPITYLDHNNFWRTMDDM T0334 121 :PLSHYWFDRSYRGKTVEPFDYACYKEP 1ojaA 146 :MTMKELLDKLCWTESAKQLATLFVNLC T0334 148 :VILDANRSPRRLDGSKVTNYAWHFDAHLVADFLRRFA 1ojaA 189 :VKQCGGTTRIISTTNGGQERKFVGGSGQVSERIMDLL T0334 191 :RHVEDRVEHVQRDANG 1ojaA 229 :VKLERPVIYIDQTREN T0334 209 :ESVRTATGRVFDADLFVDCSGFRG 1ojaA 245 :VLVETLNHEMYEAKYVISAIPPTL T0334 233 :LLINKAMEEP 1ojaA 280 :MMRNQMITRV T0334 243 :FLDMSDHLLNDSAV 1ojaA 303 :EPFWRKKDYCGTMI T0334 257 :ATQV 1ojaA 327 :TLDD T0334 264 :DDANGVEPFTSAIAMK 1ojaA 331 :TKPEGNYAAIMGFILA T0334 301 :RFATEDEAVREFCEMWH 1ojaA 353 :ARLTKEERLKKLCELYA T0334 318 :LDPETQPLNRIRF 1ojaA 373 :GSLEALEPVHYEE T0334 331 :RVGRNRRAWV 1ojaA 403 :PPGILTQYGR T0334 341 :GNCVSIGT 1ojaA 419 :DRIYFAGT T0334 349 :SSCFVEPLESTGIYFVYAALYQLVKHFP 1ojaA 428 :TATHWSGYMEGAVEAGERAAREILHAMG T0334 448 :SDDAQLYY 1ojaA 457 :IPEDEIWQ T0334 468 :NSNYYCVLAGLGLVPDAPSPR 1ojaA 465 :SEPESVDVPAQPITTTFLERH T0334 489 :LAHMPQATESVD 1ojaA 489 :VPGLLRLIGLTT Number of specific fragments extracted= 24 number of extra gaps= 0 total=926 Number of alignments=39 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1qjdA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1qjdA expands to /projects/compbio/data/pdb/1qjd.pdb.gz 1qjdA:# T0334 read from 1qjdA/merged-good-all-a2m # 1qjdA read from 1qjdA/merged-good-all-a2m # adding 1qjdA to template set # found chain 1qjdA in template set Warning: unaligning (T0334)N207 because of BadResidue code BAD_PEPTIDE in next template residue (1qjdA)V289 Warning: unaligning (T0334)I208 because of BadResidue code BAD_PEPTIDE at template residue (1qjdA)V289 Warning: unaligning (T0334)V211 because of BadResidue code BAD_PEPTIDE in next template residue (1qjdA)L293 Warning: unaligning (T0334)R212 because of BadResidue code BAD_PEPTIDE at template residue (1qjdA)L293 T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1qjdA 125 :DTVDVVVVGSGGAGFSAAISATD T0334 30 :GTADITLLQAPDIPTLGVGEATI 1qjdA 148 :SGAKVILIEKEPVIGGNAKLAAG T0334 57 :TAF 1qjdA 178 :DQQ T0334 61 :DFLGI 1qjdA 181 :KAKKI T0334 66 :PEDEWMREC 1qjdA 188 :SPELMFEDT T0334 75 :NASYKVAIKFINWR 1qjdA 206 :PALVKVLSSHSKDS T0334 123 :SHYWFDRSYR 1qjdA 220 :VDWMTAMGAD T0334 144 :YKEPVI 1qjdA 230 :LTDVGM T0334 152 :ANRSPRRL 1qjdA 236 :MGGASVNR T0334 162 :SKVTNYAW 1qjdA 244 :AHRPTGGA T0334 171 :FDAHLVADFLRRFAT 1qjdA 252 :GVGAHVVQVLYDNAV T0334 187 :KLGVRHVED 1qjdA 267 :KRNIDLRMN T0334 196 :RVEHVQRDANG 1qjdA 277 :RGIEVLKDDKG T0334 209 :ES 1qjdA 290 :KG T0334 213 :TA 1qjdA 294 :VK T0334 215 :TG 1qjdA 299 :KG T0334 217 :RVFDADLFVDCSGFRGL 1qjdA 302 :YWVKADAVILATGGFAK T0334 234 :L 1qjdA 323 :V T0334 236 :NKAM 1qjdA 324 :AKLD T0334 244 :LDMSDHLLNDS 1qjdA 328 :PSLKGFISTNQ T0334 267 :NGVE 1qjdA 339 :PGAV T0334 272 :FTSAIAMKSGWTWKIPM 1qjdA 351 :NAGGALKDMQYIQAHPT T0334 289 :LGRFGT 1qjdA 371 :KGGVMV T0334 295 :GYVYSSRFATE 1qjdA 384 :GAILVNREGKR T0334 306 :DEAVREFCEMW 1qjdA 459 :KALTETVARYN T0334 317 :HLDPETQ 1qjdA 475 :GKDTDFE T0334 324 :PLNRIRFRVG 1qjdA 493 :NYYAIEVTPG T0334 334 :RNRRAWVGNCVSIG 1qjdA 520 :NAKKQVIPGLYGAG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHF 1qjdA 537 :GGVHGANRLGGNAISDIITFGRLAGEEA Number of specific fragments extracted= 29 number of extra gaps= 2 total=955 Number of alignments=40 # 1qjdA read from 1qjdA/merged-good-all-a2m # found chain 1qjdA in template set Warning: unaligning (T0334)F62 because of BadResidue code BAD_PEPTIDE in next template residue (1qjdA)M172 Warning: unaligning (T0334)L63 because of BadResidue code BAD_PEPTIDE at template residue (1qjdA)M172 Warning: unaligning (T0334)P66 because of BadResidue code BAD_PEPTIDE in next template residue (1qjdA)W176 Warning: unaligning (T0334)E67 because of BadResidue code BAD_PEPTIDE at template residue (1qjdA)W176 Warning: unaligning (T0334)N207 because of BadResidue code BAD_PEPTIDE in next template residue (1qjdA)V289 Warning: unaligning (T0334)I208 because of BadResidue code BAD_PEPTIDE at template residue (1qjdA)V289 Warning: unaligning (T0334)V211 because of BadResidue code BAD_PEPTIDE in next template residue (1qjdA)L293 Warning: unaligning (T0334)R212 because of BadResidue code BAD_PEPTIDE at template residue (1qjdA)L293 T0334 3 :GKID 1qjdA 122 :APHD T0334 7 :KILIVGGGTAGWMAASYLGK 1qjdA 128 :DVVVVGSGGAGFSAAISATD T0334 29 :QGT 1qjdA 148 :SGA T0334 33 :DITLLQAPD 1qjdA 151 :KVILIEKEP T0334 42 :IPTL 1qjdA 161 :IGGN T0334 57 :TAFFD 1qjdA 166 :KLAAG T0334 64 :GI 1qjdA 173 :NA T0334 68 :DEWMRECNASYKVAIKFINWRTAGEGTS 1qjdA 177 :TDQQKAKKITDSPELMFEDTMKGGQNIN T0334 96 :EARELDGGPDHFYHSFGLL 1qjdA 222 :WMTAMGADLTDVGMMGGAS T0334 115 :KYHE 1qjdA 246 :RPTG T0334 152 :AN 1qjdA 251 :AG T0334 172 :DAHLVADFLRRFA 1qjdA 253 :VGAHVVQVLYDNA T0334 186 :EKLGVRHVED 1qjdA 266 :VKRNIDLRMN T0334 196 :RVEHVQRDANG 1qjdA 277 :RGIEVLKDDKG T0334 209 :ES 1qjdA 290 :KG T0334 213 :TA 1qjdA 294 :VK T0334 215 :T 1qjdA 297 :M T0334 216 :GR 1qjdA 299 :KG T0334 218 :VFDADLFVDCSGFRG 1qjdA 303 :WVKADAVILATGGFA T0334 233 :LLINKAM 1qjdA 321 :ERVAKLD T0334 264 :DDANGVEPFTSAIAMK 1qjdA 328 :PSLKGFISTNQPGAVG T0334 280 :SGWTWKIPM 1qjdA 359 :MQYIQAHPT T0334 289 :LGR 1qjdA 371 :KGG T0334 292 :FGTGYVYSSRFATE 1qjdA 383 :NGAILVNREGKRFV T0334 306 :DEAVREFCEM 1qjdA 462 :TETVARYNSL T0334 316 :WHLD 1qjdA 473 :SSGK T0334 321 :ETQPLNRIRF 1qjdA 478 :TDFERPNLPR T0334 331 :RVGRNR 1qjdA 503 :VHHTMG T0334 337 :RAWVGNCVSIGTSSCFVEP 1qjdA 523 :KQVIPGLYGAGEVTGGVHG T0334 356 :LESTGIYFVYAALYQLVKHFP 1qjdA 545 :LGGNAISDIITFGRLAGEEAA Number of specific fragments extracted= 30 number of extra gaps= 4 total=985 Number of alignments=41 # 1qjdA read from 1qjdA/merged-good-all-a2m # found chain 1qjdA in template set Warning: unaligning (T0334)N207 because of BadResidue code BAD_PEPTIDE in next template residue (1qjdA)V289 Warning: unaligning (T0334)I208 because of BadResidue code BAD_PEPTIDE at template residue (1qjdA)V289 Warning: unaligning (T0334)V211 because of BadResidue code BAD_PEPTIDE in next template residue (1qjdA)L293 Warning: unaligning (T0334)R212 because of BadResidue code BAD_PEPTIDE at template residue (1qjdA)L293 T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1qjdA 125 :DTVDVVVVGSGGAGFSAAISATD T0334 30 :GTADITLLQAPD 1qjdA 148 :SGAKVILIEKEP T0334 44 :TLGVGEATI 1qjdA 160 :VIGGNAKLA T0334 57 :TAF 1qjdA 178 :DQQ T0334 61 :DFLGIPE 1qjdA 181 :KAKKITD T0334 68 :D 1qjdA 189 :P T0334 108 :YHSFGLLKYHEQIPLSHYWFDRSY 1qjdA 190 :ELMFEDTMKGGQNINDPALVKVLS T0334 137 :EPFDYACYKEPVILDANRSPRRLDGSKVTN 1qjdA 214 :SHSKDSVDWMTAMGADLTDVGMMGGASVNR T0334 169 :WHF 1qjdA 244 :AHR T0334 172 :DAHLVADFLRRFATEKLGVRHVEDRVEHVQRDANG 1qjdA 253 :VGAHVVQVLYDNAVKRNIDLRMNTRGIEVLKDDKG T0334 209 :ES 1qjdA 290 :KG T0334 213 :T 1qjdA 294 :V T0334 214 :ATGR 1qjdA 297 :MYKG T0334 218 :VFDADLFVDCSGFRG 1qjdA 303 :WVKADAVILATGGFA T0334 233 :LLINK 1qjdA 322 :RVAKL T0334 243 :FLDMSDHLLND 1qjdA 327 :DPSLKGFISTN T0334 307 :EAVREFCEMWHLDP 1qjdA 463 :ETVARYNSLVSSGK T0334 322 :TQ 1qjdA 477 :DT T0334 324 :PLNRIRFRVGRNRRA 1qjdA 493 :NYYAIEVTPGVHHTM T0334 339 :WVGNCVSIGTSSCFVEP 1qjdA 525 :VIPGLYGAGEVTGGVHG T0334 356 :LESTGIYFVYAALYQLVKHFPD 1qjdA 545 :LGGNAISDIITFGRLAGEEAAK Number of specific fragments extracted= 21 number of extra gaps= 2 total=1006 Number of alignments=42 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ng4A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ng4A expands to /projects/compbio/data/pdb/1ng4.pdb.gz 1ng4A:# T0334 read from 1ng4A/merged-good-all-a2m # 1ng4A read from 1ng4A/merged-good-all-a2m # adding 1ng4A to template set # found chain 1ng4A in template set Warning: unaligning (T0334)G295 because of BadResidue code BAD_PEPTIDE in next template residue (1ng4A)A259 Warning: unaligning (T0334)Y296 because of BadResidue code BAD_PEPTIDE at template residue (1ng4A)A259 Warning: unaligning (T0334)V297 because of BadResidue code BAD_PEPTIDE at template residue (1ng4A)T260 T0334 1 :MSG 1ng4A 1 :MKR T0334 5 :IDKILIVGGGTAGWMAASYLGK 1ng4A 4 :HYEAVVIGGGIIGSAIAYYLAK T0334 30 :GTADITLLQAPDIPTLGVGEATIPNL 1ng4A 26 :ENKNTALFESGTMGGRTTSAAAGMLG T0334 61 :DFLGIPED 1ng4A 52 :AHAECEER T0334 75 :NASYKVAIKFINWRTAGEGTS 1ng4A 60 :DAFFDFAMHSQRLYKGLGEEL T0334 96 :EARELDGGP 1ng4A 82 :ALSGVDIRQ T0334 105 :DHFYHSFGLLK 1ng4A 94 :GMFKLAFSEED T0334 123 :SHYWFDRS 1ng4A 105 :VLQLRQMD T0334 132 :RGKTVEPFDYACYKEPV 1ng4A 113 :DLDSVSWYSKEEVLEKE T0334 156 :PRRLDGSK 1ng4A 130 :PYASGDIF T0334 166 :NYA 1ng4A 138 :GAS T0334 170 :HFDAHLVADFLRRFA 1ng4A 147 :HVEPYFVCKAYVKAA T0334 186 :EKLGVRHVED 1ng4A 162 :KMLGAEIFEH T0334 196 :RVEHVQRDANG 1ng4A 173 :PVLHVERDGEA T0334 209 :ESVRTATGR 1ng4A 184 :LFIKTPSGD T0334 219 :FDADLFVDCSGFRGLLINKAMEEPFLDMSDH 1ng4A 193 :VWANHVVVASGVWSGMFFKQLGLNNAFLPVK T0334 253 :DSAVATQVPH 1ng4A 224 :GECLSVWNDD T0334 266 :A 1ng4A 234 :I T0334 268 :GVEPFTSA 1ng4A 235 :PLTKTLYH T0334 279 :KSG 1ng4A 243 :DHC T0334 284 :WKIPMLGR 1ng4A 246 :YIVPRKSG T0334 292 :FGT 1ng4A 255 :LVV T0334 298 :YSSRFATE 1ng4A 261 :MKPGDWSE T0334 306 :DEAVREFCEMW 1ng4A 272 :LGGLESVMKKA T0334 317 :HLDPETQPLNRIRFRVGRNR 1ng4A 284 :TMLPPIQNMKVDRFWAGLRP T0334 338 :AWVGNCVSIG 1ng4A 304 :GTKDGKPYIG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHFPDKSLNPVLTARFN 1ng4A 319 :SRILFAAGHFRNGILLAPATGALISDLIMNKEVNQDWLHAFR Number of specific fragments extracted= 27 number of extra gaps= 1 total=1033 Number of alignments=43 # 1ng4A read from 1ng4A/merged-good-all-a2m # found chain 1ng4A in template set Warning: unaligning (T0334)G3 because first residue in template chain is (1ng4A)M1 Warning: unaligning (T0334)G295 because of BadResidue code BAD_PEPTIDE in next template residue (1ng4A)A259 Warning: unaligning (T0334)Y296 because of BadResidue code BAD_PEPTIDE at template residue (1ng4A)A259 Warning: unaligning (T0334)V297 because of BadResidue code BAD_PEPTIDE at template residue (1ng4A)T260 T0334 4 :KID 1ng4A 2 :KRH T0334 7 :KILIVGGGTAGWMAASYLGK 1ng4A 6 :EAVVIGGGIIGSAIAYYLAK T0334 29 :QGT 1ng4A 26 :ENK T0334 33 :DITLLQAP 1ng4A 29 :NTALFESG T0334 46 :GVGEATIPNLQTAFFDFLGIPEDEWMRECNAS 1ng4A 37 :TMGGRTTSAAAGMLGAHAECEERDAFFDFAMH T0334 115 :KYHE 1ng4A 75 :GLGE T0334 139 :FDYACYKEPVILDANRSPRRLDGSKVTNYAWHF 1ng4A 79 :ELYALSGVDIRQHNGGMFKLAFSEEDVLQLRQM T0334 172 :DAHLVADFLRRFA 1ng4A 149 :EPYFVCKAYVKAA T0334 186 :EKLGVRHVED 1ng4A 162 :KMLGAEIFEH T0334 196 :RVEHVQRDANG 1ng4A 173 :PVLHVERDGEA T0334 209 :ESVRTATG 1ng4A 184 :LFIKTPSG T0334 218 :VFDADLFVDCSGFRGLLINKAMEEP 1ng4A 192 :DVWANHVVVASGVWSGMFFKQLGLN T0334 247 :SDHLLNDSAVATQVPHDD 1ng4A 217 :NAFLPVKGECLSVWNDDI T0334 271 :PFTSAIAMKS 1ng4A 235 :PLTKTLYHDH T0334 283 :TWKIPM 1ng4A 245 :CYIVPR T0334 289 :LGRFGT 1ng4A 252 :SGRLVV T0334 298 :YSSRFATE 1ng4A 261 :MKPGDWSE T0334 306 :DEAVREFCEM 1ng4A 272 :LGGLESVMKK T0334 316 :WHLDPETQPLNRIRFRVGRNR 1ng4A 283 :KTMLPPIQNMKVDRFWAGLRP T0334 338 :AWVGNCVSIG 1ng4A 304 :GTKDGKPYIG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHFPDKSLNPVLTARF 1ng4A 319 :SRILFAAGHFRNGILLAPATGALISDLIMNKEVNQDWLHAF Number of specific fragments extracted= 21 number of extra gaps= 1 total=1054 Number of alignments=44 # 1ng4A read from 1ng4A/merged-good-all-a2m # found chain 1ng4A in template set Warning: unaligning (T0334)S2 because first residue in template chain is (1ng4A)M1 Warning: unaligning (T0334)Y298 because of BadResidue code BAD_PEPTIDE in next template residue (1ng4A)A259 T0334 3 :GKIDKILIVGGGTAGWMAASYLGK 1ng4A 2 :KRHYEAVVIGGGIIGSAIAYYLAK T0334 30 :GTADITLLQAPDIPT 1ng4A 26 :ENKNTALFESGTMGG T0334 45 :LGVGEATI 1ng4A 48 :GMLGAHAE T0334 53 :PNLQTAFFDFLG 1ng4A 63 :FDFAMHSQRLYK T0334 66 :PEDEWMREC 1ng4A 75 :GLGEELYAL T0334 75 :NASYKVAIKFINWRTAGE 1ng4A 87 :DIRQHNGGMFKLAFSEED T0334 114 :LKYHEQIPLSHYWFDRSY 1ng4A 105 :VLQLRQMDDLDSVSWYSK T0334 142 :ACY 1ng4A 123 :EEV T0334 154 :RSPRRLDGSKVTNYAW 1ng4A 126 :LEKEPYASGDIFGASF T0334 170 :HFDAHLVADFLRRFATEKLGVRHVEDRVEHVQRDANG 1ng4A 147 :HVEPYFVCKAYVKAAKMLGAEIFEHTPVLHVERDGEA T0334 209 :ESVRTAT 1ng4A 184 :LFIKTPS T0334 217 :RVFDADLFVDCSGFRGLLINKAMEEPFL 1ng4A 191 :GDVWANHVVVASGVWSGMFFKQLGLNNA T0334 249 :HLLN 1ng4A 219 :FLPV T0334 253 :DSAVATQV 1ng4A 224 :GECLSVWN T0334 268 :GVEPFTSAIAMKS 1ng4A 232 :DDIPLTKTLYHDH T0334 283 :TWKIPMLGRF 1ng4A 245 :CYIVPRKSGR T0334 295 :GYV 1ng4A 255 :LVV T0334 299 :SSRFATEDEAVREFCEMW 1ng4A 265 :DWSETPDLGGLESVMKKA T0334 317 :HLDPETQPLNRIRFRVGRNRRAWVGNCVS 1ng4A 284 :TMLPPIQNMKVDRFWAGLRPGTKDGKPYI T0334 346 :IGTSSCFVEPLE 1ng4A 322 :LFAAGHFRNGIL T0334 363 :FVYAALYQLVKHFPDKSLNPVLTARF 1ng4A 334 :LAPATGALISDLIMNKEVNQDWLHAF Number of specific fragments extracted= 21 number of extra gaps= 1 total=1075 Number of alignments=45 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1v59A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334/1v59A/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0334/1v59A/merged-good-all-a2m.gz for input Trying 1v59A/merged-good-all-a2m Error: Couldn't open file 1v59A/merged-good-all-a2m or 1v59A/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1l9fA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1l9fA expands to Error: no filename for 1l9fA 1l9fA expands to Error: no filename for 1l9fA 1l9fA expands to Error: no filename for 1l9fA # T0334 read from 1l9fA/merged-good-all-a2m # 1l9fA read from 1l9fA/merged-good-all-a2m # adding 1l9fA to template set Error: can't find template for 1l9fA or 1l9fA, so skipping it. # 1l9fA read from 1l9fA/merged-good-all-a2m # adding 1l9fA to template set Error: can't find template for 1l9fA or 1l9fA, so skipping it. # 1l9fA read from 1l9fA/merged-good-all-a2m # adding 1l9fA to template set Error: can't find template for 1l9fA or 1l9fA, so skipping it. # Reading fragments from alignment file # Attempting to read fragment alignments from file 1lj1A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1lj1A expands to /projects/compbio/data/pdb/1lj1.pdb.gz 1lj1A:# T0334 read from 1lj1A/merged-good-all-a2m # 1lj1A read from 1lj1A/merged-good-all-a2m # adding 1lj1A to template set # found chain 1lj1A in template set T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1lj1A 125 :DTVDVVVVGSGGAGFSAAISATD T0334 30 :GTADITLLQAPDIPTLGVGEATI 1lj1A 148 :SGAKVILIEKEPVIGGNAKLAAG T0334 57 :TAF 1lj1A 178 :DQQ T0334 61 :DFLGI 1lj1A 181 :KAKKI T0334 66 :PEDEWMRECNA 1lj1A 188 :SPELMFEDTMK T0334 77 :SYKVAIK 1lj1A 208 :LVKVLSS T0334 84 :FINW 1lj1A 216 :SKDS T0334 123 :SHYWFDRSYR 1lj1A 220 :VDWMTAMGAD T0334 144 :YKEPVI 1lj1A 230 :LTDVGM T0334 152 :ANRSPRRL 1lj1A 236 :MGGASVNR T0334 162 :SKVTNYAW 1lj1A 244 :AHRPTGGA T0334 171 :FDAHLVADFLRRFAT 1lj1A 252 :GVGAHVVQVLYDNAV T0334 187 :KLGVRHVED 1lj1A 267 :KRNIDLRMN T0334 196 :RVEHVQRDANGNIESVRTA 1lj1A 277 :RGIEVLKDDKGTVKGILVK T0334 215 :TG 1lj1A 299 :KG T0334 217 :RVFDADLFVDCSGFRGL 1lj1A 302 :YWVKADAVILATGGFAK T0334 234 :L 1lj1A 323 :V T0334 236 :NKAM 1lj1A 324 :AKLD T0334 244 :LDMSDHLLNDS 1lj1A 328 :PSLKGFISTNQ T0334 267 :NGVE 1lj1A 339 :PGAV T0334 271 :PFTSAIAMKSGWTWKIPM 1lj1A 350 :ENAGGALKDMQYIFAHPT T0334 289 :LGRFGT 1lj1A 371 :KGGVMV T0334 295 :GYVYSSRFATE 1lj1A 384 :GAILVNREGKR T0334 306 :DEAVREFCEMW 1lj1A 459 :KALTETVARYN T0334 317 :HLDPETQ 1lj1A 475 :GKDTDFE T0334 324 :PLNRIRFRVG 1lj1A 493 :NYYAIEVTPG T0334 334 :RNRRAWVGNCVSIG 1lj1A 520 :NAKKQVIPGLYGAG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHF 1lj1A 537 :GGVHGANRLGGNAISDIITFGRLAGEEA Number of specific fragments extracted= 28 number of extra gaps= 0 total=1103 Number of alignments=46 # 1lj1A read from 1lj1A/merged-good-all-a2m # found chain 1lj1A in template set Warning: unaligning (T0334)P66 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1lj1A)W176 Warning: unaligning (T0334)E67 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1lj1A)W176 T0334 3 :GKID 1lj1A 122 :APHD T0334 7 :KILIVGGGTAGWMAASYLGK 1lj1A 128 :DVVVVGSGGAGFSAAISATD T0334 29 :QGT 1lj1A 148 :SGA T0334 33 :DITLLQAPD 1lj1A 151 :KVILIEKEP T0334 42 :IPTL 1lj1A 161 :IGGN T0334 59 :FFDFLGI 1lj1A 168 :AAGGMNA T0334 68 :DEWMRECNASYKVAIKFINWRTAGEGTS 1lj1A 177 :TDQQKAKKITDSPELMFEDTMKGGQNIN T0334 96 :EARELDGGPDHFYHSFGLL 1lj1A 222 :WMTAMGADLTDVGMMGGAS T0334 115 :KYHE 1lj1A 246 :RPTG T0334 152 :AN 1lj1A 251 :AG T0334 172 :DAHLVADFLRRFA 1lj1A 253 :VGAHVVQVLYDNA T0334 186 :EKLGVRHVED 1lj1A 266 :VKRNIDLRMN T0334 196 :RVEHVQRDANGNIESVRTA 1lj1A 277 :RGIEVLKDDKGTVKGILVK T0334 215 :T 1lj1A 297 :M T0334 216 :GR 1lj1A 299 :KG T0334 218 :VFDADLFVDCSGFRG 1lj1A 303 :WVKADAVILATGGFA T0334 233 :LLINKAM 1lj1A 321 :ERVAKLD T0334 264 :DDANGVEPFTSAIAMK 1lj1A 328 :PSLKGFISTNQPGAVG T0334 280 :SGWTWKIPM 1lj1A 359 :MQYIFAHPT T0334 289 :LGR 1lj1A 371 :KGG T0334 292 :FGTGYVYSSRFATE 1lj1A 383 :NGAILVNREGKRFV T0334 306 :DEAVREFCEM 1lj1A 462 :TETVARYNSL T0334 316 :WHLDPETQPLNRIRF 1lj1A 473 :SSGKDTDFERPNLPR T0334 334 :RNR 1lj1A 503 :VHH T0334 337 :RAWVGNCVSIGTSSCFVEP 1lj1A 523 :KQVIPGLYGAGEVTGGVHG T0334 356 :LESTGIYFVYAALYQLVKHFP 1lj1A 545 :LGGNAISDIITFGRLAGEEAA Number of specific fragments extracted= 26 number of extra gaps= 1 total=1129 Number of alignments=47 # 1lj1A read from 1lj1A/merged-good-all-a2m # found chain 1lj1A in template set T0334 5 :IDKILIVGGGTAGWMAASYLGK 1lj1A 126 :TVDVVVVGSGGAGFSAAISATD T0334 30 :GTADITLLQAPD 1lj1A 148 :SGAKVILIEKEP T0334 44 :TLGVGEATI 1lj1A 160 :VIGGNAKLA T0334 57 :TAF 1lj1A 178 :DQQ T0334 61 :DFLGI 1lj1A 181 :KAKKI T0334 66 :PED 1lj1A 188 :SPE T0334 109 :HSFGLLKYHEQIPLSHYWFDRSY 1lj1A 191 :LMFEDTMKGGQNINDPALVKVLS T0334 137 :EPFDYACYKEPVILDANRSPRRLDGSKVTN 1lj1A 214 :SHSKDSVDWMTAMGADLTDVGMMGGASVNR T0334 169 :WHF 1lj1A 244 :AHR T0334 172 :DAHLVADFLRRFATEKLGVRHVEDRVEHVQRDANGNIESVRT 1lj1A 253 :VGAHVVQVLYDNAVKRNIDLRMNTRGIEVLKDDKGTVKGILV T0334 214 :ATGR 1lj1A 297 :MYKG T0334 218 :VFDADLFVDCSGFRG 1lj1A 303 :WVKADAVILATGGFA T0334 233 :LLINK 1lj1A 322 :RVAKL T0334 243 :FLDMSDHLLND 1lj1A 327 :DPSLKGFISTN T0334 307 :EAVREFCEMWHLDP 1lj1A 463 :ETVARYNSLVSSGK T0334 322 :TQ 1lj1A 477 :DT T0334 324 :PLNRIRFRVGRNRRA 1lj1A 493 :NYYAIEVTPGVHHTM T0334 339 :WVGNCVSIGTSSCFVEP 1lj1A 525 :VIPGLYGAGEVTGGVHG T0334 356 :LESTGIYFVYAALYQLVKHFPD 1lj1A 545 :LGGNAISDIITFGRLAGEEAAK Number of specific fragments extracted= 19 number of extra gaps= 0 total=1148 Number of alignments=48 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ryiA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0334 read from 1ryiA/merged-good-all-a2m # 1ryiA read from 1ryiA/merged-good-all-a2m # found chain 1ryiA in training set Warning: unaligning (T0334)Q201 because of BadResidue code BAD_PEPTIDE in next template residue (1ryiA)R179 Warning: unaligning (T0334)R202 because of BadResidue code BAD_PEPTIDE at template residue (1ryiA)R179 Warning: unaligning (T0334)G295 because of BadResidue code BAD_PEPTIDE in next template residue (1ryiA)A259 Warning: unaligning (T0334)Y296 because of BadResidue code BAD_PEPTIDE at template residue (1ryiA)A259 T0334 1 :MSG 1ryiA 1 :MKR T0334 5 :IDKILIVGGGTAGWMAASYLGK 1ryiA 4 :HYEAVVIGGGIIGSAIAYYLAK T0334 30 :GTADITLLQAPDIPTLGVGEATIPNL 1ryiA 26 :ENKNTALFESGTMGGRTTSAAAGMLG T0334 76 :ASYKVAIKFINWRTAGEGTS 1ryiA 61 :AFFDFAMHSQRLYKGLGEEL T0334 96 :EARELDGGP 1ryiA 82 :ALSGVDIRQ T0334 105 :DHFYHSFGLLK 1ryiA 94 :GMFKLAFSEED T0334 123 :SHYWFDRS 1ryiA 105 :VLQLRQMD T0334 132 :RGKTVEPFDYACYKEP 1ryiA 113 :DLDSVSWYSKEEVLEK T0334 155 :SPRRLDGSK 1ryiA 129 :EPYASGDIF T0334 166 :NYAW 1ryiA 138 :GASF T0334 170 :HFDAHLVADFLRRFA 1ryiA 147 :HVEPYFVCKAYVKAA T0334 186 :EKLGVRHVED 1ryiA 162 :KMLGAEIFEH T0334 196 :RVEHV 1ryiA 173 :PVLHV T0334 203 :DANG 1ryiA 180 :DGEA T0334 209 :ESVRTATGR 1ryiA 184 :LFIKTPSGD T0334 219 :FDADLFVDCSGFRGLLINKAMEEPFLDMSDH 1ryiA 193 :VWANHVVVASGVWSGMFFKQLGLNNAFLPVK T0334 253 :DSAVATQVPH 1ryiA 224 :GECLSVWNDD T0334 266 :A 1ryiA 234 :I T0334 268 :GVEPFTSA 1ryiA 235 :PLTKTLYH T0334 279 :KSG 1ryiA 243 :DHC T0334 284 :WKIPMLGR 1ryiA 246 :YIVPRKSG T0334 292 :FGT 1ryiA 255 :LVV T0334 297 :VYSSRFATE 1ryiA 260 :TMKPGDWSE T0334 306 :DEAVREFCEMW 1ryiA 272 :LGGLESVMKKA T0334 317 :HLDPETQPLNRIRFRVGRNR 1ryiA 284 :TMLPAIQNMKVDRFWAGLRP T0334 338 :AWVGNCVSIG 1ryiA 304 :GTKDGKPYIG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHFPDKSLNPVLTARFN 1ryiA 319 :SRILFAAGHFRNGILLAPATGALISDLIMNKEVNQDWLHAFR Number of specific fragments extracted= 27 number of extra gaps= 2 total=1175 Number of alignments=49 # 1ryiA read from 1ryiA/merged-good-all-a2m # found chain 1ryiA in training set Warning: unaligning (T0334)G3 because first residue in template chain is (1ryiA)M1 Warning: unaligning (T0334)F62 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1ryiA)A54 Warning: unaligning (T0334)L63 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1ryiA)A54 Warning: unaligning (T0334)I65 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1ryiA)E57 Warning: unaligning (T0334)P66 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1ryiA)E57 Warning: unaligning (T0334)Q201 because of BadResidue code BAD_PEPTIDE in next template residue (1ryiA)R179 Warning: unaligning (T0334)R202 because of BadResidue code BAD_PEPTIDE at template residue (1ryiA)R179 Warning: unaligning (T0334)G295 because of BadResidue code BAD_PEPTIDE in next template residue (1ryiA)A259 Warning: unaligning (T0334)Y296 because of BadResidue code BAD_PEPTIDE at template residue (1ryiA)A259 T0334 4 :KID 1ryiA 2 :KRH T0334 7 :KILIVGGGTAGWMAASYLGK 1ryiA 6 :EAVVIGGGIIGSAIAYYLAK T0334 29 :QGT 1ryiA 26 :ENK T0334 33 :DITLLQAP 1ryiA 29 :NTALFESG T0334 46 :GVGEATIPNLQTAFFD 1ryiA 37 :TMGGRTTSAAAGMLGA T0334 64 :G 1ryiA 55 :E T0334 67 :EDEWMRECNAS 1ryiA 58 :ERDAFFDFAMH T0334 115 :KYHE 1ryiA 75 :GLGE T0334 139 :FDYACYKEPVILDANRSPRRLDGSKVTNYAWHF 1ryiA 79 :ELYALSGVDIRQHNGGMFKLAFSEEDVLQLRQM T0334 172 :DAHLVADFLRRFA 1ryiA 149 :EPYFVCKAYVKAA T0334 186 :EKLGVRHVED 1ryiA 162 :KMLGAEIFEH T0334 196 :RVEHV 1ryiA 173 :PVLHV T0334 203 :DANG 1ryiA 180 :DGEA T0334 209 :ESVRTATG 1ryiA 184 :LFIKTPSG T0334 218 :VFDADLFVDCSGFRGLLINKAMEEP 1ryiA 192 :DVWANHVVVASGVWSGMFFKQLGLN T0334 247 :SDHLLNDSAVATQVPHDD 1ryiA 217 :NAFLPVKGECLSVWNDDI T0334 271 :PFTSAIAMKS 1ryiA 235 :PLTKTLYHDH T0334 283 :TWKIPM 1ryiA 245 :CYIVPR T0334 289 :LGRFGT 1ryiA 252 :SGRLVV T0334 297 :VYSSRFATE 1ryiA 260 :TMKPGDWSE T0334 306 :DEAVREFCEM 1ryiA 272 :LGGLESVMKK T0334 316 :WHLDPETQPLNRIRFRVGRNR 1ryiA 283 :KTMLPAIQNMKVDRFWAGLRP T0334 338 :AWVGNCVSIG 1ryiA 304 :GTKDGKPYIG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHFPDKSLNPVLTARF 1ryiA 319 :SRILFAAGHFRNGILLAPATGALISDLIMNKEVNQDWLHAF Number of specific fragments extracted= 24 number of extra gaps= 4 total=1199 Number of alignments=50 # 1ryiA read from 1ryiA/merged-good-all-a2m # found chain 1ryiA in training set Warning: unaligning (T0334)S2 because first residue in template chain is (1ryiA)M1 Warning: unaligning (T0334)A50 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1ryiA)A54 Warning: unaligning (T0334)T51 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1ryiA)A54 Warning: unaligning (T0334)Q201 because of BadResidue code BAD_PEPTIDE in next template residue (1ryiA)R179 Warning: unaligning (T0334)R202 because of BadResidue code BAD_PEPTIDE at template residue (1ryiA)R179 Warning: unaligning (T0334)Y298 because of BadResidue code BAD_PEPTIDE in next template residue (1ryiA)A259 T0334 3 :GKIDKILIVGGGTAGWMAASYLGK 1ryiA 2 :KRHYEAVVIGGGIIGSAIAYYLAK T0334 30 :GTADITLLQAPDIPT 1ryiA 26 :ENKNTALFESGTMGG T0334 45 :LGVGE 1ryiA 48 :GMLGA T0334 52 :I 1ryiA 55 :E T0334 53 :PNLQTAF 1ryiA 64 :DFAMHSQ T0334 61 :DFLG 1ryiA 71 :RLYK T0334 66 :PEDEWMREC 1ryiA 75 :GLGEELYAL T0334 75 :NASYKVAIKFINWRTAGE 1ryiA 87 :DIRQHNGGMFKLAFSEED T0334 114 :LKYHEQIPLSHYWFDRS 1ryiA 105 :VLQLRQMDDLDSVSWYS T0334 141 :YACY 1ryiA 122 :KEEV T0334 154 :RSPRRLDGSKVTNYAW 1ryiA 126 :LEKEPYASGDIFGASF T0334 170 :HFDAHLVADFLRRFATEKLGVRHVEDRVEHV 1ryiA 147 :HVEPYFVCKAYVKAAKMLGAEIFEHTPVLHV T0334 203 :DANG 1ryiA 180 :DGEA T0334 209 :ESVRTAT 1ryiA 184 :LFIKTPS T0334 217 :RVFDADLFVDCSGFRGLLINKAMEEPFL 1ryiA 191 :GDVWANHVVVASGVWSGMFFKQLGLNNA T0334 249 :HLLN 1ryiA 219 :FLPV T0334 253 :DSAVATQV 1ryiA 224 :GECLSVWN T0334 268 :GVEPFTSAIAMKS 1ryiA 232 :DDIPLTKTLYHDH T0334 283 :TWKIPMLGRF 1ryiA 245 :CYIVPRKSGR T0334 295 :GYV 1ryiA 255 :LVV T0334 299 :SSRFATEDEAVREFCEMW 1ryiA 265 :DWSETPDLGGLESVMKKA T0334 317 :HLDPETQPLNRIRFRVGRNRRAWVGNCV 1ryiA 284 :TMLPAIQNMKVDRFWAGLRPGTKDGKPY T0334 345 :SIGTSSCFVEPLE 1ryiA 321 :ILFAAGHFRNGIL T0334 363 :FVYAALYQLVKHFPDKSLNPVLTARF 1ryiA 334 :LAPATGALISDLIMNKEVNQDWLHAF Number of specific fragments extracted= 24 number of extra gaps= 3 total=1223 Number of alignments=51 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2a8xA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334/2a8xA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0334/2a8xA/merged-good-all-a2m.gz for input Trying 2a8xA/merged-good-all-a2m Error: Couldn't open file 2a8xA/merged-good-all-a2m or 2a8xA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1gesA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1gesA expands to /projects/compbio/data/pdb/1ges.pdb.gz 1gesA:Skipped atom 2956, because occupancy 0.500 <= existing 0.500 in 1gesA # T0334 read from 1gesA/merged-good-all-a2m # 1gesA read from 1gesA/merged-good-all-a2m # adding 1gesA to template set # found chain 1gesA in template set Warning: unaligning (T0334)K4 because first residue in template chain is (1gesA)K3 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1gesA 4 :HYDYIAIGGGSGGIASINRAAM T0334 30 :GTADITLLQAPDIPTLGVGEATIPN 1gesA 26 :YGQKCALIEAKELGGTCVNVGCVPK T0334 57 :TAF 1gesA 51 :KVM T0334 78 :YKVAIKFINW 1gesA 54 :WHAAQIREAI T0334 96 :EARELDGGP 1gesA 64 :HMYGPDYGF T0334 106 :HFYHSFGLL 1gesA 74 :TTINKFNWE T0334 115 :KYHEQI 1gesA 91 :YIDRIH T0334 121 :PLSHYWFDRSYRG 1gesA 98 :SYENVLGKNNVDV T0334 134 :KTVEPFDYA 1gesA 113 :GFARFVDAK T0334 152 :ANRSPRRLDGS 1gesA 141 :GRPSHPDIPGV T0334 166 :NYAW 1gesA 152 :EYGI T0334 170 :HFD 1gesA 205 :SFD T0334 174 :HLVADFLRRFA 1gesA 208 :PMISETLVEVM T0334 186 :EKLGVRHVED 1gesA 219 :NAEGPQLHTN T0334 196 :RVEHVQRDANGN 1gesA 230 :IPKAVVKNTDGS T0334 209 :ESVRTATGRVFDADLFVDCSGFRGL 1gesA 242 :LTLELEDGRSETVDCLIWAIGREPA T0334 236 :NKAMEEPFL 1gesA 272 :LEAAGVKTN T0334 246 :MSDHLLND 1gesA 281 :EKGYIVVD T0334 264 :DD 1gesA 289 :KY T0334 266 :ANGVE 1gesA 329 :KPDEH T0334 271 :PFTSAIAMKSGWTWKIPM 1gesA 337 :SNIPTVVFSHPPIGTVGL T0334 309 :VREFCEMWH 1gesA 356 :EPQAREQYG T0334 320 :PETQPLNRIRFRVG 1gesA 365 :DDQVKVYKSSFTAM T0334 334 :RNRRA 1gesA 386 :RQPCR T0334 346 :IG 1gesA 396 :VG T0334 378 :KSLNPVLTARFNREIETMFD 1gesA 409 :GFGMDEMLQGFAVALKMGAT T0334 434 :IDMYRAGMAINAPASDDAQ 1gesA 429 :KKDFDNTVAIHPTAAEEFV Number of specific fragments extracted= 27 number of extra gaps= 0 total=1250 Number of alignments=52 # 1gesA read from 1gesA/merged-good-all-a2m # found chain 1gesA in template set Warning: unaligning (T0334)I5 because first residue in template chain is (1gesA)K3 Warning: unaligning (T0334)H124 because of BadResidue code BAD_PEPTIDE in next template residue (1gesA)A175 Warning: unaligning (T0334)Y125 because of BadResidue code BAD_PEPTIDE at template residue (1gesA)A175 Warning: unaligning (T0334)W126 because of BadResidue code BAD_PEPTIDE at template residue (1gesA)G176 Warning: unaligning (T0334)F127 because of BadResidue code BAD_PEPTIDE at template residue (1gesA)Y177 T0334 6 :D 1gesA 4 :H T0334 7 :KILIVGGGTAGWMAASYLGK 1gesA 6 :DYIAIGGGSGGIASINRAAM T0334 29 :QGT 1gesA 26 :YGQ T0334 33 :DITLLQAPDIPTL 1gesA 29 :KCALIEAKELGGT T0334 46 :GVGEATIPNLQTAFFDFLGIPEDEWMRECNAS 1gesA 78 :KFNWETLIASRTAYIDRIHTSYENVLGKNNVD T0334 96 :EARELDG 1gesA 142 :RPSHPDI T0334 103 :GPDHFYHSFGLL 1gesA 150 :GVEYGIDSDGFF T0334 115 :KYHEQIPLS 1gesA 165 :ALPERVAVV T0334 128 :DRSYRG 1gesA 178 :IGVELG T0334 139 :FDYACYKEPVILD 1gesA 184 :GVINGLGAKTHLF T0334 152 :ANRSPRRL 1gesA 198 :MFDAPLPS T0334 172 :DAHLVADFLRRFA 1gesA 206 :FDPMISETLVEVM T0334 186 :EKLGVRHVED 1gesA 219 :NAEGPQLHTN T0334 196 :RVEHVQRDANGN 1gesA 230 :IPKAVVKNTDGS T0334 209 :ESVRTATGRVFDADLFVDCSGFRG 1gesA 242 :LTLELEDGRSETVDCLIWAIGREP T0334 233 :LLINKAMEEPFLD 1gesA 269 :NINLEAAGVKTNE T0334 247 :SDHLLNDSAVA 1gesA 282 :KGYIVVDKYQN T0334 338 :AWVGNCVSIGTSSCF 1gesA 293 :TNIEGIYAVGDNTGA T0334 358 :STGIYFVYAALYQLVKHFP 1gesA 308 :VELTPVAVAAGRRLSERLF T0334 377 :DKSLNPVL 1gesA 329 :KPDEHLDY T0334 385 :TARFNREI 1gesA 356 :EPQAREQY T0334 414 :DTP 1gesA 364 :GDD T0334 417 :FWRANKELRL 1gesA 378 :MYTAVTTHRQ T0334 427 :ADGMQEKIDMYRAGMA 1gesA 413 :DEMLQGFAVALKMGAT Number of specific fragments extracted= 24 number of extra gaps= 1 total=1274 Number of alignments=53 # 1gesA read from 1gesA/merged-good-all-a2m # found chain 1gesA in template set Warning: unaligning (T0334)G12 because of BadResidue code BAD_PEPTIDE in next template residue (1gesA)A175 Warning: unaligning (T0334)G13 because of BadResidue code BAD_PEPTIDE at template residue (1gesA)A175 Warning: unaligning (T0334)G14 because of BadResidue code BAD_PEPTIDE at template residue (1gesA)G176 Warning: unaligning (T0334)T15 because of BadResidue code BAD_PEPTIDE at template residue (1gesA)Y177 T0334 5 :IDKILIV 1gesA 167 :PERVAVV T0334 16 :AGWMAASYLGK 1gesA 178 :IGVELGGVING T0334 30 :GTADITLLQAPDIPTL 1gesA 189 :LGAKTHLFEMFDAPLP T0334 50 :ATIPNLQTAF 1gesA 205 :SFDPMISETL T0334 181 :RRFATEKLGVRHVEDRVEHVQRDANGN 1gesA 215 :VEVMNAEGPQLHTNAIPKAVVKNTDGS T0334 209 :ESVRTATGRVFDADLFVDCSGF 1gesA 242 :LTLELEDGRSETVDCLIWAIGR T0334 237 :KAMEEPFLD 1gesA 273 :EAAGVKTNE T0334 294 :TGYVYSSRFAT 1gesA 282 :KGYIVVDKYQN T0334 338 :AWVGNCVSIGTSSCFVEPL 1gesA 293 :TNIEGIYAVGDNTGAVELT T0334 362 :YFVYAALYQLVKHFP 1gesA 312 :PVAVAAGRRLSERLF T0334 378 :K 1gesA 328 :N Number of specific fragments extracted= 11 number of extra gaps= 1 total=1285 Number of alignments=54 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1nhp/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1nhp expands to /projects/compbio/data/pdb/1nhp.pdb.gz 1nhp:Warning: there is no chain 1nhp will retry with 1nhpA # T0334 read from 1nhp/merged-good-all-a2m # 1nhp read from 1nhp/merged-good-all-a2m # adding 1nhp to template set # found chain 1nhp in template set Warning: unaligning (T0334)D6 because first residue in template chain is (1nhp)M1 Warning: unaligning (T0334)G161 because of BadResidue code BAD_PEPTIDE in next template residue (1nhp)L125 Warning: unaligning (T0334)S162 because of BadResidue code BAD_PEPTIDE at template residue (1nhp)L125 T0334 7 :KILIVGGGTAGWMAASYLGKA 1nhp 2 :KVIVLGSSHGGYEAVEELLNL T0334 29 :QGTADITLLQAPDIPTLG 1nhp 23 :HPDAEIQWYEKGDFISFL T0334 52 :IPNLQTAF 1nhp 41 :SAGMQLYL T0334 123 :SHYWFDRS 1nhp 63 :GEKMESRG T0334 136 :VEPFDYACYKEPVILD 1nhp 71 :VNVFSNTEITAIQPKE T0334 152 :ANRSPRRLD 1nhp 115 :PFELDIPGK T0334 166 :NYAW 1nhp 126 :DNIY T0334 170 :HFD 1nhp 188 :YLD T0334 174 :HLVADFLRRFA 1nhp 191 :KEFTDVLTEEM T0334 186 :EKLGVRHVED 1nhp 202 :EANNITIATG T0334 196 :RVEHVQ 1nhp 213 :TVERYE T0334 204 :ANGNIESVRTATG 1nhp 219 :GDGRVQKVVTDKN T0334 218 :VFDADLFVDCSGFRGLL 1nhp 232 :AYDADLVVVAVGVRPNT T0334 236 :NKAMEE 1nhp 249 :AWLKGT T0334 242 :PFLD 1nhp 256 :ELHP T0334 247 :SDHLLNDSAVAT 1nhp 260 :NGLIKTDEYMRT T0334 263 :DDD 1nhp 272 :SEP T0334 267 :NGVE 1nhp 318 :KPFP T0334 271 :PFTSAIAMKSGWTWKIPM 1nhp 324 :QGSSGLAVFDYKFASTGI T0334 310 :REFCEMWHL 1nhp 343 :EVMAQKLGK T0334 324 :PLNRIRFRVG 1nhp 352 :ETKAVTVVED Number of specific fragments extracted= 21 number of extra gaps= 1 total=1306 Number of alignments=55 # 1nhp read from 1nhp/merged-good-all-a2m # found chain 1nhp in template set Warning: unaligning (T0334)G103 because of BadResidue code BAD_PEPTIDE in next template residue (1nhp)L125 Warning: unaligning (T0334)P104 because of BadResidue code BAD_PEPTIDE at template residue (1nhp)L125 T0334 7 :KILIVGGGTAGWMAASYLGK 1nhp 2 :KVIVLGSSHGGYEAVEELLN T0334 28 :L 1nhp 22 :L T0334 29 :QGT 1nhp 24 :PDA T0334 33 :DITLLQAPD 1nhp 27 :EIQWYEKGD T0334 47 :VGEATIPNL 1nhp 36 :FISFLSAGM T0334 57 :TAFFDFLGIPED 1nhp 45 :QLYLEGKVKDVN T0334 69 :EWMRECNASYKVAIKFINWRTAGEGTS 1nhp 64 :EKMESRGVNVFSNTEITAIQPKEHQVT T0334 96 :EARELDG 1nhp 117 :ELDIPGK T0334 105 :DHFYHSFGLL 1nhp 126 :DNIYLMRGRQ T0334 115 :KYHEQIPLSHYWFDRSYRG 1nhp 147 :PEVNNVVVIGSGYIGIEAA T0334 139 :FDYACYKEPVILD 1nhp 166 :EAFAKAGKKVTVI T0334 152 :ANRSPRRLD 1nhp 180 :ILDRPLGVY T0334 172 :DAHLVADFLRRFA 1nhp 189 :LDKEFTDVLTEEM T0334 186 :EKLGVRHVED 1nhp 202 :EANNITIATG T0334 196 :RVEHV 1nhp 213 :TVERY T0334 203 :DANGNIESVRTATG 1nhp 218 :EGDGRVQKVVTDKN T0334 218 :VFDADLFVDCSGFRG 1nhp 232 :AYDADLVVVAVGVRP T0334 233 :LLINKAMEEPF 1nhp 249 :AWLKGTLELHP T0334 247 :SDHLLNDSAVATQV 1nhp 260 :NGLIKTDEYMRTSE T0334 341 :GNCVSIGTSSCF 1nhp 274 :PDVFAVGDATLI T0334 353 :VEP 1nhp 287 :YNP T0334 356 :LESTGIYFVYAALYQLVKHFPDKSLN 1nhp 294 :VNIALATNARKQGRFAVKNLEEPVKP Number of specific fragments extracted= 22 number of extra gaps= 1 total=1328 Number of alignments=56 # 1nhp read from 1nhp/merged-good-all-a2m # found chain 1nhp in template set T0334 2 :SGKIDKILIVGGGTAGWMAASYLGK 1nhp 146 :DPEVNNVVVIGSGYIGIEAAEAFAK T0334 30 :GTADITLLQAPDIP 1nhp 171 :AGKKVTVIDILDRP T0334 63 :LGI 1nhp 185 :LGV T0334 171 :FDAHLVADFLRRFATEKLGVRHVEDRVEHVQ 1nhp 188 :YLDKEFTDVLTEEMEANNITIATGETVERYE T0334 204 :ANGNIESVRT 1nhp 219 :GDGRVQKVVT T0334 215 :TGRVFDADLFVDCSGFR 1nhp 229 :DKNAYDADLVVVAVGVR T0334 258 :TQVPH 1nhp 246 :PNTAW T0334 288 :M 1nhp 251 :L T0334 317 :HLDPETQPLNRIRFRVGR 1nhp 252 :KGTLELHPNGLIKTDEYM T0334 337 :RAWVGNCVSIGTSS 1nhp 270 :RTSEPDVFAVGDAT T0334 361 :IYFVYAALYQLVKHFPDKS 1nhp 299 :ATNARKQGRFAVKNLEEPV Number of specific fragments extracted= 11 number of extra gaps= 0 total=1339 Number of alignments=57 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1lpfA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334/1lpfA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0334/1lpfA/merged-good-all-a2m.gz for input Trying 1lpfA/merged-good-all-a2m Error: Couldn't open file 1lpfA/merged-good-all-a2m or 1lpfA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1y56B/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334/1y56B/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0334/1y56B/merged-good-all-a2m.gz for input Trying 1y56B/merged-good-all-a2m Error: Couldn't open file 1y56B/merged-good-all-a2m or 1y56B/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1pxb/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334/1pxb/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0334/1pxb/merged-good-all-a2m.gz for input Trying 1pxb/merged-good-all-a2m Error: Couldn't open file 1pxb/merged-good-all-a2m or 1pxb/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1nhs/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1nhs expands to /projects/compbio/data/pdb/1nhs.pdb.gz 1nhs:Warning: there is no chain 1nhs will retry with 1nhsA # T0334 read from 1nhs/merged-good-all-a2m # 1nhs read from 1nhs/merged-good-all-a2m # adding 1nhs to template set # found chain 1nhs in template set Warning: unaligning (T0334)D6 because first residue in template chain is (1nhs)M1 Warning: unaligning (T0334)L159 because of BadResidue code BAD_PEPTIDE in next template residue (1nhs)K123 Warning: unaligning (T0334)D160 because of BadResidue code BAD_PEPTIDE at template residue (1nhs)K123 Warning: unaligning (T0334)G161 because of BadResidue code BAD_PEPTIDE at template residue (1nhs)D124 Warning: unaligning (T0334)S162 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1nhs)L125 T0334 7 :KILIVGGGTAGWMAASYLGKA 1nhs 2 :KVIVLGSSHGGYEAVEELLNL T0334 29 :QGTADITLLQAPDIPTL 1nhs 23 :HPDAEIQWYEKGDFISF T0334 46 :GVG 1nhs 41 :CCG T0334 55 :LQTAF 1nhs 44 :MQLYL T0334 123 :SHYWFDRS 1nhs 63 :GEKMESRG T0334 136 :VEPFDYACYKEPVILD 1nhs 71 :VNVFSNTEITAIQPKE T0334 152 :ANRSPRR 1nhs 115 :PFELDIP T0334 166 :NYAW 1nhs 126 :DNIY T0334 170 :HFD 1nhs 188 :YLD T0334 174 :HLVADFLRRFA 1nhs 191 :KEFTDVLTEEM T0334 186 :EKLGVRHVED 1nhs 202 :EANNITIATG T0334 196 :RVEHVQ 1nhs 213 :TVERYE T0334 204 :ANGNIESVRTATG 1nhs 219 :GDGRVQKVVTDKN T0334 218 :VFDADLFVDCSGFRGLL 1nhs 232 :AYDADLVVVAVGVRPNT T0334 236 :NKAMEE 1nhs 249 :AWLKGT T0334 242 :PFLD 1nhs 256 :ELHP T0334 247 :SDHLLNDSAVAT 1nhs 260 :NGLIKTDEYMRT T0334 263 :DDD 1nhs 272 :SEP T0334 268 :GVE 1nhs 319 :PFP T0334 271 :PFTSAIAMKSGWTWKIPM 1nhs 324 :QGSSGLAVFDYKFASTGI T0334 310 :REFCEMWHL 1nhs 343 :EVMAQKLGK T0334 324 :PLNRIRFRVGRNRRAWVG 1nhs 352 :ETKAVTVVEDYLMDFNPD Number of specific fragments extracted= 22 number of extra gaps= 1 total=1361 Number of alignments=58 # 1nhs read from 1nhs/merged-good-all-a2m # found chain 1nhs in template set Warning: unaligning (T0334)D101 because of BadResidue code BAD_PEPTIDE in next template residue (1nhs)K123 Warning: unaligning (T0334)G102 because of BadResidue code BAD_PEPTIDE at template residue (1nhs)K123 Warning: unaligning (T0334)G103 because of BadResidue code BAD_PEPTIDE at template residue (1nhs)D124 Warning: unaligning (T0334)P104 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1nhs)L125 T0334 7 :KILIVGGGTAGWMAASYLGK 1nhs 2 :KVIVLGSSHGGYEAVEELLN T0334 28 :L 1nhs 22 :L T0334 29 :QGT 1nhs 24 :PDA T0334 33 :DITLLQAPD 1nhs 27 :EIQWYEKGD T0334 42 :IPTLGVG 1nhs 37 :ISFLCCG T0334 57 :TAFFDFLGIPED 1nhs 44 :MQLYLEGKVKDV T0334 69 :EWMRECNASYKVAIKFINWRTAGEGTS 1nhs 64 :EKMESRGVNVFSNTEITAIQPKEHQVT T0334 96 :EAREL 1nhs 117 :ELDIP T0334 105 :DHFYHSFGLL 1nhs 126 :DNIYLMRGRQ T0334 115 :KYHEQIPLSHYWFDRSYRG 1nhs 147 :PEVNNVVVIGSGYIGIEAA T0334 139 :FDYACYKEPVILD 1nhs 166 :EAFAKAGKKVTVI T0334 152 :ANRSPRRLD 1nhs 180 :ILDRPLGVY T0334 172 :DAHLVADFLRRFA 1nhs 189 :LDKEFTDVLTEEM T0334 186 :EKLGVRHVED 1nhs 202 :EANNITIATG T0334 196 :RVEHV 1nhs 213 :TVERY T0334 203 :DANGNIESVRTATG 1nhs 218 :EGDGRVQKVVTDKN T0334 218 :VFDADLFVDCSGFRG 1nhs 232 :AYDADLVVVAVGVRP T0334 233 :LLINKAMEEPF 1nhs 249 :AWLKGTLELHP T0334 247 :SDHLLNDSAVATQVPHDDDANGV 1nhs 260 :NGLIKTDEYMRTSEPDVFAVGDA T0334 270 :EPF 1nhs 323 :VQG T0334 275 :AIAMKSGWTWKIPML 1nhs 328 :GLAVFDYKFASTGIN T0334 306 :DEAVREF 1nhs 343 :EVMAQKL T0334 322 :TQPLNRIRFRVGRNRRAWVG 1nhs 350 :GKETKAVTVVEDYLMDFNPD T0334 342 :NCVSIG 1nhs 388 :GAQLMS T0334 378 :KSLNPVLTARFNREIE 1nhs 394 :KADLTANINAISLAIQ T0334 414 :DTPFWRANKELRL 1nhs 410 :AKMTIEDLAYADF Number of specific fragments extracted= 26 number of extra gaps= 1 total=1387 Number of alignments=59 # 1nhs read from 1nhs/merged-good-all-a2m # found chain 1nhs in template set T0334 2 :SGKIDKILIVGGGTAGWMAASYLGK 1nhs 146 :DPEVNNVVVIGSGYIGIEAAEAFAK T0334 30 :GTADITLLQAPDIP 1nhs 171 :AGKKVTVIDILDRP T0334 63 :LGI 1nhs 185 :LGV T0334 101 :D 1nhs 188 :Y T0334 172 :DAHLVADFLRRFATEKLGVRHVEDRVEHVQ 1nhs 189 :LDKEFTDVLTEEMEANNITIATGETVERYE T0334 204 :ANGNIESVRT 1nhs 219 :GDGRVQKVVT T0334 215 :TGRVFDADLFVDCSGFR 1nhs 229 :DKNAYDADLVVVAVGVR T0334 258 :TQVPH 1nhs 246 :PNTAW T0334 316 :WHLDPETQPLNRIRFRVGR 1nhs 251 :LKGTLELHPNGLIKTDEYM T0334 337 :RAWVGNCVSIGTSS 1nhs 270 :RTSEPDVFAVGDAT T0334 361 :IYFVYAALYQLVKHFPDK 1nhs 299 :ATNARKQGRFAVKNLEEP Number of specific fragments extracted= 11 number of extra gaps= 0 total=1398 Number of alignments=60 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1pxc/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334/1pxc/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0334/1pxc/merged-good-all-a2m.gz for input Trying 1pxc/merged-good-all-a2m Error: Couldn't open file 1pxc/merged-good-all-a2m or 1pxc/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1w4xA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1w4xA expands to /projects/compbio/data/pdb/1w4x.pdb.gz 1w4xA:Skipped atom 2639, because occupancy 0.500 <= existing 0.500 in 1w4xA Skipped atom 2641, because occupancy 0.500 <= existing 0.500 in 1w4xA Skipped atom 2643, because occupancy 0.500 <= existing 0.500 in 1w4xA Skipped atom 2645, because occupancy 0.500 <= existing 0.500 in 1w4xA Skipped atom 2647, because occupancy 0.500 <= existing 0.500 in 1w4xA Skipped atom 2649, because occupancy 0.500 <= existing 0.500 in 1w4xA # T0334 read from 1w4xA/merged-good-all-a2m # 1w4xA read from 1w4xA/merged-good-all-a2m # adding 1w4xA to template set # found chain 1w4xA in template set T0334 3 :GKIDKILIVGGGTAGWMAASYLGKA 1w4xA 14 :PEEVDVLVVGAGFSGLYALYRLREL T0334 31 :TADITLLQAP 1w4xA 39 :GRSVHVIETA T0334 41 :DIPT 1w4xA 50 :DVGG T0334 57 :TAF 1w4xA 54 :VWY T0334 128 :DRSYR 1w4xA 57 :WNRYP T0334 141 :YACYKEPVILD 1w4xA 62 :GARCDIESIEY T0334 152 :ANRSPRRLDGSKVTNY 1w4xA 74 :YSFSEEVLQEWNWTER T0334 169 :W 1w4xA 90 :Y T0334 171 :FDAHLVADFLRRFA 1w4xA 91 :ASQPEILRYINFVA T0334 186 :EKLG 1w4xA 105 :DKFD T0334 192 :HVED 1w4xA 113 :ITFH T0334 196 :RVEHVQRDANGNIESVRTATGRVFDADLFVDCSGFRG 1w4xA 118 :TVTAAAFDEATNTWTVDTNHGDRIRARYLIMASGQLS T0334 243 :FLDMSDH 1w4xA 155 :VPQLPNF T0334 264 :DDANGVEPFTSAIA 1w4xA 162 :PGLKDFAGNLYHTG T0334 278 :MKS 1w4xA 177 :WPH T0334 333 :GRNR 1w4xA 180 :EPVD T0334 338 :AWVGNCVSIG 1w4xA 184 :FSGQRVGVIG T0334 362 :YFVYAALYQLVKHFPD 1w4xA 196 :SSGIQVSPQIAKQAAE T0334 378 :KSLNPVLTARFNREIETMFDDTRD 1w4xA 228 :APLDPEFLADLKKRYAEFREESRN T0334 440 :GM 1w4xA 252 :TP T0334 478 :LGLVPDAPSPRLAHMPQ 1w4xA 254 :GGTHRYQGPKSALEVSD T0334 497 :ESVDEVFGAVKDR 1w4xA 271 :EELVETLERYWQE Number of specific fragments extracted= 22 number of extra gaps= 0 total=1420 Number of alignments=61 # 1w4xA read from 1w4xA/merged-good-all-a2m # found chain 1w4xA in template set T0334 3 :GKI 1w4xA 13 :PPE T0334 7 :KILIVGGGTAGWMAASYLGK 1w4xA 18 :DVLVVGAGFSGLYALYRLRE T0334 29 :QGT 1w4xA 38 :LGR T0334 33 :DITLLQAPD 1w4xA 41 :SVHVIETAG T0334 46 :GVGEATIP 1w4xA 50 :DVGGVWYW T0334 57 :TAF 1w4xA 58 :NRY T0334 61 :DFLGIPED 1w4xA 61 :PGARCDIE T0334 103 :GPDHFYHSFGLL 1w4xA 70 :IEYCYSFSEEVL T0334 116 :YHE 1w4xA 83 :EWN T0334 152 :ANRSPR 1w4xA 86 :WTERYA T0334 172 :DAHLVADFLRRFA 1w4xA 92 :SQPEILRYINFVA T0334 186 :EKLGVR 1w4xA 105 :DKFDLR T0334 192 :HVED 1w4xA 113 :ITFH T0334 196 :RVEHVQRDANGNIESVRTATGRVFDADLFVDCSGFRG 1w4xA 118 :TVTAAAFDEATNTWTVDTNHGDRIRARYLIMASGQLS T0334 233 :LLI 1w4xA 156 :PQL T0334 261 :PHDDDANGVEPFTS 1w4xA 159 :PNFPGLKDFAGNLY T0334 275 :AIAMKSGWTW 1w4xA 175 :GNWPHEPVDF T0334 289 :LGR 1w4xA 185 :SGQ T0334 292 :FGTGYVYSSRFATE 1w4xA 219 :PHFAVPARNAPLDP T0334 306 :DEAVREFCEM 1w4xA 271 :EELVETLERY T0334 316 :WHLDP 1w4xA 282 :QEGGP T0334 321 :ETQPLNRIRFRVGRNR 1w4xA 349 :NRDNVHLVDTLSAPIE T0334 337 :RAWVGNCVSI 1w4xA 425 :TAGFPNLFFI T0334 350 :SCFVEPLESTGIYFVYAA 1w4xA 435 :AGPGSPSALSNMLVSIEQ T0334 395 :MFDDTRDFIQAHFY 1w4xA 453 :HVEWVTDHIAYMFK T0334 422 :KEL 1w4xA 467 :NGL T0334 427 :ADGMQEKIDMYRAGM 1w4xA 476 :LEKEDEWVEHVNEIA T0334 442 :AINAPASDDAQLYYGNFE 1w4xA 500 :SWYTGANVPGKPRVFMLY T0334 489 :L 1w4xA 518 :V T0334 497 :ESVD 1w4xA 519 :GGFH T0334 505 :AVKDRQRNLLE 1w4xA 523 :RYRQICDEVAA Number of specific fragments extracted= 31 number of extra gaps= 0 total=1451 Number of alignments=62 # 1w4xA read from 1w4xA/merged-good-all-a2m # found chain 1w4xA in template set T0334 3 :GKIDKILIVGGGTAGWMAASYLGK 1w4xA 14 :PEEVDVLVVGAGFSGLYALYRLRE T0334 30 :GTADITLLQ 1w4xA 38 :LGRSVHVIE T0334 39 :APDIPT 1w4xA 48 :AGDVGG T0334 57 :TAF 1w4xA 54 :VWY T0334 64 :GI 1w4xA 57 :WN T0334 78 :YKVAIK 1w4xA 59 :RYPGAR T0334 103 :GPDHFY 1w4xA 65 :CDIESI T0334 130 :S 1w4xA 71 :E T0334 149 :ILDANRSPRRLDGSKVTNY 1w4xA 72 :YCYSFSEEVLQEWNWTERY T0334 171 :FDAHLVADFLRRFATEKLGV 1w4xA 91 :ASQPEILRYINFVADKFDLR T0334 191 :RHVEDRVEHVQRDANGNIESVRTATGRVFDADLFVDCSGFRG 1w4xA 113 :ITFHTTVTAAAFDEATNTWTVDTNHGDRIRARYLIMASGQLS T0334 240 :EEPFLDMSDHLLNDSAVATQ 1w4xA 155 :VPQLPNFPGLKDFAGNLYHT T0334 262 :HDDDANGVE 1w4xA 175 :GNWPHEPVD T0334 271 :PF 1w4xA 186 :GQ T0334 342 :NCVSIG 1w4xA 188 :RVGVIG T0334 356 :LESTGIYFVYAALYQL 1w4xA 194 :TGSSGIQVSPQIAKQA T0334 378 :KSLNPVLTARFNREIETMFDDTR 1w4xA 228 :APLDPEFLADLKKRYAEFREESR T0334 410 :SPRTDTP 1w4xA 256 :THRYQGP T0334 424 :LR 1w4xA 263 :KS T0334 426 :LADGMQEKIDMYRAGMAI 1w4xA 269 :SDEELVETLERYWQEGGP T0334 471 :YYCVLAGLGLVPDAPSPR 1w4xA 287 :DILAAYRDILRDRDANER T0334 492 :MPQATESVDEVFGAVKDRQRNL 1w4xA 305 :VAEFIRNKIRNTVRDPEVAERL Number of specific fragments extracted= 22 number of extra gaps= 0 total=1473 Number of alignments=63 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2fbwA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2fbwA expands to /projects/compbio/data/pdb/2fbw.pdb.gz 2fbwA:# T0334 read from 2fbwA/merged-good-all-a2m # 2fbwA read from 2fbwA/merged-good-all-a2m # adding 2fbwA to template set # found chain 2fbwA in template set Warning: unaligning (T0334)T348 because of BadResidue code BAD_PEPTIDE in next template residue (2fbwA)S402 Warning: unaligning (T0334)S349 because of BadResidue code BAD_PEPTIDE at template residue (2fbwA)S402 T0334 4 :KIDKILIVGGGTAGWMAASYLGK 2fbwA 17 :HEFDAVVVGAGGAGLRAAFGLSE T0334 30 :GTADITLLQAPDIPTLGVGEATI 2fbwA 40 :AGFNTACVTKLFPTRSHTVAAQG T0334 53 :PNLQTAFFDFLGI 2fbwA 78 :WHFYDTVKGSDWL T0334 71 :MRECNASYKVAIKF 2fbwA 93 :QDAIHYMTEQAPAA T0334 123 :SHYWFDRSYR 2fbwA 107 :VIELENYGMP T0334 136 :VEPFDYACYKEPVILD 2fbwA 117 :FSRTEEGKIYQRAFGG T0334 155 :SPR 2fbwA 135 :LQF T0334 160 :DGSKVTNYAWHF 2fbwA 138 :GKGGQAHRCCCV T0334 172 :DAHLVADFLRRFA 2fbwA 153 :TGHSLLHTLYGRS T0334 186 :EKLGVRHVED 2fbwA 166 :LRYDTSYFVE T0334 196 :RVEHVQR 2fbwA 177 :FALDLLM T0334 204 :ANGNIESVR 2fbwA 184 :ENGECRGVI T0334 213 :TATG 2fbwA 196 :IEDG T0334 217 :RVFDADLFVDCSGFR 2fbwA 202 :HRFRAKNTVIATGGY T0334 236 :NKA 2fbwA 217 :GRT T0334 239 :MEEPFLDMSDHLLNDSAV 2fbwA 240 :AGLPCQDLEFVQFHPTGI T0334 264 :DD 2fbwA 258 :YG T0334 267 :NGVEPF 2fbwA 310 :EGRGCG T0334 279 :KSGWTWKIPML 2fbwA 316 :PEKDHVYLQLH T0334 302 :FATE 2fbwA 327 :HLPP T0334 306 :DEAVREFCEMWHLDPETQ 2fbwA 338 :PGISETAMIFAGVDVTKE T0334 327 :RIRFRVG 2fbwA 356 :PIPVLPT T0334 339 :WVGNCVSIG 2fbwA 388 :VVPGLYACG T0334 350 :SCFVEPLESTGIYFVYAALYQLVKHFPD 2fbwA 403 :VHGANRLGANSLLDLVVFGRACALTIAE T0334 378 :KSLNPVLTARFNREIE 2fbwA 443 :PNAGEESVANLDKLRF T0334 394 :TMFDDTRDFIQAHFYFS 2fbwA 467 :EARLNMQKTMQSHAAVF T0334 445 :AP 2fbwA 484 :RT T0334 496 :TESVDEVFGAVKDRQR 2fbwA 486 :GSILQEGCEKLSQIYR Number of specific fragments extracted= 28 number of extra gaps= 1 total=1501 Number of alignments=64 # 2fbwA read from 2fbwA/merged-good-all-a2m # found chain 2fbwA in template set Warning: unaligning (T0334)F352 because of BadResidue code BAD_PEPTIDE in next template residue (2fbwA)S402 T0334 7 :KILIVGGGTAGWMAASYLGK 2fbwA 20 :DAVVVGAGGAGLRAAFGLSE T0334 29 :QGT 2fbwA 40 :AGF T0334 33 :DITLLQAP 2fbwA 43 :NTACVTKL T0334 46 :GVGEATIPNLQTAFFDFLGIPED 2fbwA 51 :FPTRSHTVAAQGGINAALGNMED T0334 76 :ASYKVAIKFINW 2fbwA 74 :DNWRWHFYDTVK T0334 103 :GPDHFYHSFGLL 2fbwA 86 :GSDWLGDQDAIH T0334 115 :KYHEQI 2fbwA 102 :QAPAAV T0334 139 :FDYACYKEP 2fbwA 108 :IELENYGMP T0334 148 :VILD 2fbwA 125 :IYQR T0334 152 :ANRSPRRLDGSKVTNYAWHF 2fbwA 130 :FGGQSLQFGKGGQAHRCCCV T0334 172 :DAHLVADFLRRFA 2fbwA 153 :TGHSLLHTLYGRS T0334 186 :EKLGVRHVED 2fbwA 166 :LRYDTSYFVE T0334 196 :RVEHVQRDAN 2fbwA 177 :FALDLLMENG T0334 207 :NIESVRTA 2fbwA 187 :ECRGVIAL T0334 215 :TGR 2fbwA 198 :DGT T0334 218 :VFDADLFVDCSGF 2fbwA 203 :RFRAKNTVIATGG T0334 233 :LLINKAMEEPFL 2fbwA 234 :TAMVTRAGLPCQ T0334 271 :PFTSAIAMK 2fbwA 246 :DLEFVQFHP T0334 280 :SGWTWKIPMLGR 2fbwA 271 :EGGILINSQGER T0334 292 :FGTGYVYSSRFATE 2fbwA 317 :EKDHVYLQLHHLPP T0334 306 :DEAVREFCEMWHLDPETQPLNRIRFRVGRNR 2fbwA 338 :PGISETAMIFAGVDVTKEPIPVLPTVHYNMG T0334 337 :RAWVGNCVSIGTSSC 2fbwA 386 :DKVVPGLYACGEAAS T0334 353 :VEP 2fbwA 403 :VHG T0334 356 :LESTGIYFVYAALYQLVKHFP 2fbwA 409 :LGANSLLDLVVFGRACALTIA T0334 377 :DKSLNPVLTARFNREI 2fbwA 442 :KPNAGEESVANLDKLR T0334 393 :ETMFDDTRDFIQAHFYFSPR 2fbwA 466 :SEARLNMQKTMQSHAAVFRT T0334 496 :TESVDEVFGAVKDRQRNLLE 2fbwA 486 :GSILQEGCEKLSQIYRDLAH T0334 516 :TLPSLHEFLR 2fbwA 512 :GIVWNTDLVE Number of specific fragments extracted= 28 number of extra gaps= 1 total=1529 Number of alignments=65 # 2fbwA read from 2fbwA/merged-good-all-a2m # found chain 2fbwA in template set T0334 7 :KILIVGGGTAGWMAASYLGK 2fbwA 20 :DAVVVGAGGAGLRAAFGLSE T0334 30 :GTADITLLQAPDIPTLGV 2fbwA 40 :AGFNTACVTKLFPTRSHT T0334 77 :SYKVAIKFI 2fbwA 58 :VAAQGGINA T0334 97 :ARELDGGPDHFYHSFGLLKYHEQIPLSHYWFD 2fbwA 67 :ALGNMEDDNWRWHFYDTVKGSDWLGDQDAIHY T0334 138 :PFDYACYKEPVILDANRSPRRLDGSKVTNYAWH 2fbwA 99 :MTEQAPAAVIELENYGMPFSRTEEGKIYQRAFG T0334 171 :F 2fbwA 149 :V T0334 172 :DAHLVADFLRRFATEKLGVRHVEDRVEHVQRDANGN 2fbwA 153 :TGHSLLHTLYGRSLRYDTSYFVEYFALDLLMENGEC T0334 208 :IESVRTATGR 2fbwA 191 :VIALCIEDGT T0334 218 :VFDADLFVDCSGFRG 2fbwA 203 :RFRAKNTVIATGGYG T0334 247 :SDHLLNDS 2fbwA 218 :RTYFSCTS T0334 307 :EAVREFCEMWHLDPETQ 2fbwA 335 :TRLPGISETAMIFAGVD T0334 336 :RRAWVGNCVSIGTSS 2fbwA 385 :EDKVVPGLYACGEAA T0334 351 :CFVEPLESTGIYFVYAALYQLVKHFP 2fbwA 404 :HGANRLGANSLLDLVVFGRACALTIA T0334 377 :DKSLNPVLTARFNREI 2fbwA 442 :KPNAGEESVANLDKLR T0334 422 :K 2fbwA 460 :D T0334 423 :ELRLADGMQEKIDMYRAGMAI 2fbwA 462 :TIRTSEARLNMQKTMQSHAAV T0334 479 :GLVPDAPSPRLAHMPQATE 2fbwA 483 :FRTGSILQEGCEKLSQIYR Number of specific fragments extracted= 17 number of extra gaps= 0 total=1546 Number of alignments=66 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1zovA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334/1zovA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0334/1zovA/merged-good-all-a2m.gz for input Trying 1zovA/merged-good-all-a2m Error: Couldn't open file 1zovA/merged-good-all-a2m or 1zovA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1cj3A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1cj3A expands to /projects/compbio/data/pdb/1cj3.pdb.gz 1cj3A:# T0334 read from 1cj3A/merged-good-all-a2m # 1cj3A read from 1cj3A/merged-good-all-a2m # adding 1cj3A to template set # found chain 1cj3A in template set Warning: unaligning (T0334)K4 because first residue in template chain is (1cj3A)M1 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1cj3A 2 :KTQVAIIGAGPSGLLLGQLLHK T0334 30 :GTADITLLQAPDI 1cj3A 24 :AGIDNVILERQTP T0334 43 :PTLGVGEATIPNLQTAF 1cj3A 40 :LGRIRAGVLEQGMVDLL T0334 61 :DFLGI 1cj3A 57 :REAGV T0334 123 :SHYWFDRSYR 1cj3A 62 :DRRMARDGLV T0334 136 :VEPFDYACYKEPVILD 1cj3A 72 :HEGVEIAFAGQRRRID T0334 155 :SPRRLDG 1cj3A 88 :LKRLSGG T0334 166 :NYAWHFDAHLVADFLRRFA 1cj3A 95 :KTVTVYGQTEVTRDLMEAR T0334 186 :EKLGVRHVED 1cj3A 114 :EASGATTVYQ T0334 196 :RVEHVQR 1cj3A 125 :AEVRLHD T0334 203 :DANG 1cj3A 133 :QGER T0334 209 :ESVRTA 1cj3A 137 :PYVTFE T0334 215 :TG 1cj3A 144 :DG T0334 217 :RVFDADLFVDCSGFRGLL 1cj3A 148 :LRLDCDYIAGCDGFHGIS T0334 236 :NKAMEEPFL 1cj3A 166 :RQSIPAERL T0334 245 :DMSDHLLNDSAVAT 1cj3A 176 :VFERVYPFGWLGLL T0334 264 :DDANGVEPFTSAIAMKSGWTWKIPMLGR 1cj3A 190 :ADTPPVSHELIYANHPRGFALCSQRSAT T0334 292 :FGTGYVYSS 1cj3A 219 :SRYYVQVPL T0334 301 :RFATEDEAVREFCEMW 1cj3A 232 :EDWSDERFWTELKARL T0334 318 :L 1cj3A 254 :K T0334 322 :TQ 1cj3A 255 :LV T0334 324 :PLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFPD 1cj3A 262 :EKSIAPLRSFVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLLK T0334 378 :KSLNPVLTARFNREIETMFDDTRDFIQAHFY 1cj3A 318 :REGRGELLERYSAICLRRIWKAERFSWWMTS T0334 409 :FSPRTDTPFWR 1cj3A 351 :HRFPDTDAFSQ T0334 504 :GAVKDRQRNLLETLPSLHEFL 1cj3A 362 :RIQQTELEYYLGSEAGLATIA Number of specific fragments extracted= 25 number of extra gaps= 0 total=1571 Number of alignments=67 # 1cj3A read from 1cj3A/merged-good-all-a2m # found chain 1cj3A in template set Warning: unaligning (T0334)I5 because first residue in template chain is (1cj3A)M1 T0334 6 :D 1cj3A 2 :K T0334 7 :KILIVGGGTAGWMAASYLGK 1cj3A 4 :QVAIIGAGPSGLLLGQLLHK T0334 29 :QGT 1cj3A 24 :AGI T0334 33 :DITLLQAPD 1cj3A 27 :DNVILERQT T0334 52 :IPNLQ 1cj3A 36 :PDEVL T0334 61 :DFLGIPED 1cj3A 41 :GRIRAGVL T0334 69 :EWMRECNASYKVAIKFINW 1cj3A 54 :DLLREAGVDRRMARDGLVH T0334 103 :GPDHFYHSFGLL 1cj3A 73 :EGVEIAFAGQRR T0334 115 :KYHE 1cj3A 87 :DLKR T0334 152 :ANRSPRRLD 1cj3A 92 :SGGKTVTVY T0334 172 :DAHLVADFLRRFA 1cj3A 101 :GQTEVTRDLMEAR T0334 186 :EKLGVRHVED 1cj3A 114 :EASGATTVYQ T0334 196 :RVEHVQRDANGNIE 1cj3A 125 :AEVRLHDLQGERPY T0334 211 :VRTA 1cj3A 139 :VTFE T0334 215 :TGR 1cj3A 144 :DGE T0334 218 :VFDADLFVDCSGFRGLLI 1cj3A 149 :RLDCDYIAGCDGFHGISR T0334 237 :KAMEEPFLDM 1cj3A 167 :QSIPAERLKV T0334 247 :SDHLLND 1cj3A 178 :ERVYPFG T0334 254 :SAVATQVPHDD 1cj3A 186 :LGLLADTPPVS T0334 271 :PFTSAIAMKSGWTWKIPM 1cj3A 197 :HELIYANHPRGFALCSQR T0334 289 :LGR 1cj3A 216 :ATR T0334 292 :FGTGYVYSSRFATEDEAVREFCEM 1cj3A 223 :VQVPLTEKVEDWSDERFWTELKAR T0334 317 :HLDP 1cj3A 248 :PAEV T0334 321 :ETQPLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 1cj3A 259 :PSLEKSIAPLRSFVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLL T0334 377 :DKSLNPVLTARFNREIETMFDDTRDFIQAHFYFSPRTDTP 1cj3A 317 :YREGRGELLERYSAICLRRIWKAERFSWWMTSVLHRFPDT T0334 417 :FWR 1cj3A 359 :FSQ T0334 508 :DRQRNLLETLPSLHEFLRQ 1cj3A 362 :RIQQTELEYYLGSEAGLAT Number of specific fragments extracted= 27 number of extra gaps= 0 total=1598 Number of alignments=68 # 1cj3A read from 1cj3A/merged-good-all-a2m # found chain 1cj3A in template set T0334 7 :KILIVGGGTAGWMAASYLGK 1cj3A 4 :QVAIIGAGPSGLLLGQLLHK T0334 30 :GTADITLLQAPD 1cj3A 24 :AGIDNVILERQT T0334 43 :PTLGVGE 1cj3A 41 :GRIRAGV T0334 51 :TIPNLQTAF 1cj3A 48 :LEQGMVDLL T0334 61 :DFLGIP 1cj3A 57 :REAGVD T0334 68 :D 1cj3A 63 :R T0334 70 :WMRECNASY 1cj3A 64 :RMARDGLVH T0334 79 :KVAIKFINWRT 1cj3A 74 :GVEIAFAGQRR T0334 95 :SE 1cj3A 85 :RI T0334 157 :RRLDGSKVT 1cj3A 87 :DLKRLSGGK T0334 167 :YAWHFDAHLVADFLRRFATEKLGVRHVE 1cj3A 96 :TVTVYGQTEVTRDLMEAREASGATTVYQ T0334 197 :VEHVQRD 1cj3A 124 :AAEVRLH T0334 204 :ANGNIESVRTATGR 1cj3A 134 :GERPYVTFERDGER T0334 218 :VFDADLFVDCSGFRGLLINK 1cj3A 149 :RLDCDYIAGCDGFHGISRQS T0334 244 :LDMSDH 1cj3A 169 :IPAERL T0334 250 :LLNDSAVATQV 1cj3A 180 :VYPFGWLGLLA T0334 265 :DANGVEPFTSAIAMKSGWTWKIPMLGRFGTGYVYS 1cj3A 191 :DTPPVSHELIYANHPRGFALCSQRSATRSRYYVQV T0334 300 :SRFATEDEAVREFCEMW 1cj3A 231 :VEDWSDERFWTELKARL T0334 318 :LDPETQPLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 1cj3A 256 :VTGPSLEKSIAPLRSFVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLL T0334 377 :DKSLNPVLTARFNREIETMFDDTRDFIQAHFYFSPR 1cj3A 321 :RGELLERYSAICLRRIWKAERFSWWMTSVLHRFPDT T0334 481 :VPDAPS 1cj3A 357 :DAFSQR T0334 505 :AVKDRQRNLLETLPSLHEFLRQQ 1cj3A 363 :IQQTELEYYLGSEAGLATIAENY Number of specific fragments extracted= 22 number of extra gaps= 0 total=1620 Number of alignments=69 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1dob/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334/1dob/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0334/1dob/merged-good-all-a2m.gz for input Trying 1dob/merged-good-all-a2m Error: Couldn't open file 1dob/merged-good-all-a2m or 1dob/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1mo9A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0334 read from 1mo9A/merged-good-all-a2m # 1mo9A read from 1mo9A/merged-good-all-a2m # found chain 1mo9A in training set Warning: unaligning (T0334)T413 because of BadResidue code BAD_PEPTIDE in next template residue (1mo9A)L502 Warning: unaligning (T0334)D414 because of BadResidue code BAD_PEPTIDE at template residue (1mo9A)L502 T0334 2 :SGKIDKILIVGGGTAGWMAASYLGK 1mo9A 40 :DPREYDAIFIGGGAAGRFGSAYLRA T0334 30 :GTADITLLQAPDIPTLGVGEA 1mo9A 65 :MGGRQLIVDRWPFLGGSCPHN T0334 52 :IPNLQTAFFDFL 1mo9A 86 :ACVPHHLFSDCA T0334 78 :YKVAIKFINWRTAGEGTS 1mo9A 98 :AELMLARTFSGQYWFPDM T0334 113 :LLKYHEQIPLSHYWFDR 1mo9A 116 :TEKVVGIKEVVDLFRAG T0334 170 :HFDAHLVADFLRRFA 1mo9A 251 :LIKDNETRAYVLDRM T0334 186 :EKLGVRHVED 1mo9A 266 :KEQGMEIISG T0334 196 :RVEHVQRDANGNIESVR 1mo9A 277 :NVTRIEEDANGRVQAVV T0334 213 :TATG 1mo9A 296 :TPNG T0334 217 :RVFDADLFVDCSG 1mo9A 301 :MRIETDFVFLGLG T0334 230 :FRGLLINKAMEEPFLD 1mo9A 316 :PRSAELAKILGLDLGP T0334 247 :SDHLLNDSAVATQV 1mo9A 332 :KGEVLVNEYLQTSV T0334 264 :D 1mo9A 346 :P T0334 266 :ANGVE 1mo9A 376 :MGEKI T0334 271 :PFTSAIAMKSGWTWKIPML 1mo9A 385 :KNYPDFLHTHYEVSFLGMG T0334 290 :GRFGTGYVYSSRFATE 1mo9A 411 :GHEIVTIKMPPDTENG T0334 318 :LDPETQPLNRIR 1mo9A 442 :FGKGTAHMSGFQ T0334 330 :FRVGRNR 1mo9A 457 :IDAKTRK T0334 338 :AW 1mo9A 464 :VL T0334 342 :NCVSIGTSS 1mo9A 466 :GAHHVGYGA T0334 382 :PVLTARFNREIETMF 1mo9A 475 :KDAFQYLNVLIKQGL T0334 403 :IQAHFYFSPR 1mo9A 491 :VDELGDMDEL T0334 415 :TP 1mo9A 503 :NP T0334 519 :SLHEFLRQQHG 1mo9A 506 :HFIQLSRLRAG Number of specific fragments extracted= 24 number of extra gaps= 1 total=1644 Number of alignments=70 # 1mo9A read from 1mo9A/merged-good-all-a2m # found chain 1mo9A in training set T0334 2 :SGKID 1mo9A 39 :NDPRE T0334 7 :KILIVGGGTAGWMAASYLGK 1mo9A 45 :DAIFIGGGAAGRFGSAYLRA T0334 29 :QGT 1mo9A 65 :MGG T0334 33 :DITLLQAPD 1mo9A 68 :RQLIVDRWP T0334 42 :IPTL 1mo9A 78 :LGGS T0334 46 :GVGEATIP 1mo9A 106 :FSGQYWFP T0334 61 :DFLGIPED 1mo9A 114 :DMTEKVVG T0334 69 :EWMRECNASYKVAIKFINWRTAGEGTS 1mo9A 124 :EVVDLFRAGRNGPHGIMNFQSKEQLNL T0334 96 :EARELDGGPDHFYHSFGLL 1mo9A 188 :TLDVPGVNAKGVFDHATLV T0334 115 :KYHEQIPLSHYWFDRSYRG 1mo9A 212 :EPGSTVVVVGGSKTAVEYG T0334 139 :FDYACYKEPVILD 1mo9A 231 :CFFNATGRRTVML T0334 152 :ANRSPRRL 1mo9A 245 :RTEPLKLI T0334 172 :DAHLVADFLRRFA 1mo9A 253 :KDNETRAYVLDRM T0334 186 :EKLGVRHVED 1mo9A 266 :KEQGMEIISG T0334 196 :RVEHVQRDANGNIESVRTA 1mo9A 277 :NVTRIEEDANGRVQAVVAM T0334 215 :TGR 1mo9A 298 :NGE T0334 218 :VFDADLFVDCSGFRG 1mo9A 302 :RIETDFVFLGLGEQP T0334 233 :LLINKAMEEPFLD 1mo9A 319 :AELAKILGLDLGP T0334 247 :SDHLLNDSAVATQVPHDDDANGV 1mo9A 332 :KGEVLVNEYLQTSVPNVYAVGDL T0334 270 :EPFTS 1mo9A 410 :AGHEI T0334 275 :AIAMK 1mo9A 416 :TIKMP T0334 280 :SGWTWKIPMLGRFGTGYVYSSRFATE 1mo9A 451 :GFQKIVIDAKTRKVLGAHHVGYGAKD T0334 306 :DEAVREFCE 1mo9A 479 :QYLNVLIKQ T0334 378 :KSLNPVL 1mo9A 488 :GLTVDEL Number of specific fragments extracted= 24 number of extra gaps= 0 total=1668 Number of alignments=71 # 1mo9A read from 1mo9A/merged-good-all-a2m # found chain 1mo9A in training set T0334 5 :IDKILIVGGGTAGWMAASYLGK 1mo9A 214 :GSTVVVVGGSKTAVEYGCFFNA T0334 30 :GTADITLLQAPDI 1mo9A 236 :TGRRTVMLVRTEP T0334 62 :FLGIPEDE 1mo9A 249 :LKLIKDNE T0334 176 :VADFLRRFATEKLGVRHVEDRVEHVQRDANGNIESVR 1mo9A 257 :TRAYVLDRMKEQGMEIISGSNVTRIEEDANGRVQAVV T0334 213 :TATGR 1mo9A 296 :TPNGE T0334 218 :VFDADLFVDCSGF 1mo9A 302 :RIETDFVFLGLGE T0334 231 :RG 1mo9A 317 :RS T0334 310 :REFCEMWHLDPETQPLNRIRFR 1mo9A 319 :AELAKILGLDLGPKGEVLVNEY T0334 336 :RRAWVGNCVSIGTSSCFVE 1mo9A 341 :LQTSVPNVYAVGDLIGGPM T0334 361 :IYFVYAALYQLVKHFPDKS 1mo9A 361 :MFKARKSGCYAARNVMGEK Number of specific fragments extracted= 10 number of extra gaps= 0 total=1678 Number of alignments=72 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ykjA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ykjA expands to /projects/compbio/data/pdb/1ykj.pdb.gz 1ykjA:# T0334 read from 1ykjA/merged-good-all-a2m # 1ykjA read from 1ykjA/merged-good-all-a2m # adding 1ykjA to template set # found chain 1ykjA in template set Warning: unaligning (T0334)K4 because first residue in template chain is (1ykjA)M1001 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1ykjA 1002 :KTQVAIIGAGPSGLLLGQLLHK T0334 30 :GTADITLLQAPDI 1ykjA 1024 :AGIDNVILERQTP T0334 43 :PTLGVGEATIPNLQTAF 1ykjA 1040 :LGRIRGGVLEQGMVDLL T0334 61 :DFLGI 1ykjA 1057 :REAGV T0334 123 :SHYWFDRSYR 1ykjA 1062 :DRRMARDGLV T0334 136 :VEPFDYACYKEPVIL 1ykjA 1072 :HEGVEIAFAGQRRRI T0334 154 :RSPRRLDG 1ykjA 1087 :DLKRLSGG T0334 166 :NYAWHFDAHLVADFLRRFA 1ykjA 1095 :KTVTVYGQTEVTRDLMEAR T0334 186 :EKLGVRHVED 1ykjA 1114 :EACGATTVYQ T0334 196 :RVEHVQR 1ykjA 1125 :AEVRLHD T0334 203 :DANG 1ykjA 1133 :QGER T0334 209 :ESVRTA 1ykjA 1137 :PYVTFE T0334 215 :TG 1ykjA 1144 :DG T0334 217 :RVFDADLFVDCSGFRGLL 1ykjA 1148 :LRLDCDYIAGCDGFHGIS T0334 236 :NKAMEEP 1ykjA 1166 :RQSIPAE T0334 243 :FLDMSDHLLNDSAVAT 1ykjA 1174 :LKVFERVYPFGWLGLL T0334 264 :DDANGVEPFTSAIAMKSGWTWKIPMLGR 1ykjA 1190 :ADTPPVSHELIYANHPRGFALCSQRSAT T0334 292 :FGTGYVYSS 1ykjA 1219 :SRYYVQVPL T0334 301 :RFATEDEAVREFCEMW 1ykjA 1232 :EDWSDERFWTELKARL T0334 319 :DPETQPLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFPD 1ykjA 1257 :TGPSLEKSIAPLRSFVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLLK T0334 378 :KSLNPVLTARFNREIETMFDDTRDFIQAHFYFSPRTD 1ykjA 1318 :REGRGELLERYSAICLRRIWKAERFSWWMTSVLHRFP T0334 415 :TPFWR 1ykjA 1357 :DAFSQ T0334 504 :GAVKDRQRNLLETLPSLHEFLRQQH 1ykjA 1362 :RIQQTELEYYLGSEAGLATIAENYV Number of specific fragments extracted= 23 number of extra gaps= 0 total=1701 Number of alignments=73 # 1ykjA read from 1ykjA/merged-good-all-a2m # found chain 1ykjA in template set Warning: unaligning (T0334)I5 because first residue in template chain is (1ykjA)M1001 T0334 6 :D 1ykjA 1002 :K T0334 7 :KILIVGGGTAGWMAASYLGK 1ykjA 1004 :QVAIIGAGPSGLLLGQLLHK T0334 29 :QGT 1ykjA 1024 :AGI T0334 33 :DITLLQAPD 1ykjA 1027 :DNVILERQT T0334 52 :IPNLQTAF 1ykjA 1036 :PDYVLGRI T0334 61 :DFLG 1ykjA 1044 :RGGV T0334 69 :EWMRECNASYKVAIKFINW 1ykjA 1054 :DLLREAGVDRRMARDGLVH T0334 103 :GPDHFYHSFGLL 1ykjA 1073 :EGVEIAFAGQRR T0334 115 :KYHE 1ykjA 1087 :DLKR T0334 152 :ANRSPRRLD 1ykjA 1092 :SGGKTVTVY T0334 172 :DAHLVADFLRRFA 1ykjA 1101 :GQTEVTRDLMEAR T0334 186 :EKLGVRHVED 1ykjA 1114 :EACGATTVYQ T0334 196 :RVEHVQRDANGNIE 1ykjA 1125 :AEVRLHDLQGERPY T0334 211 :VRTA 1ykjA 1139 :VTFE T0334 215 :TGR 1ykjA 1144 :DGE T0334 218 :VFDADLFVDCSGFRGLLI 1ykjA 1149 :RLDCDYIAGCDGFHGISR T0334 237 :KAMEEPFLDM 1ykjA 1167 :QSIPAERLKV T0334 247 :SDHLLND 1ykjA 1178 :ERVYPFG T0334 254 :SAVATQVPHDD 1ykjA 1186 :LGLLADTPPVS T0334 271 :PFTSAIAMKSGWTWKIPM 1ykjA 1197 :HELIYANHPRGFALCSQR T0334 289 :LGR 1ykjA 1216 :ATR T0334 292 :FGTGYVYSSRFATEDEAVREFCEMWHLDP 1ykjA 1223 :VQVPLSEKVEDWSDERFWTELKARLPSEV T0334 321 :ETQPLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 1ykjA 1259 :PSLEKSIAPLRSFVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLL T0334 377 :DKSLNPVLTARFNREIETMFDDTRDFIQAHFYFSPRTDTP 1ykjA 1317 :YREGRGELLERYSAICLRRIWKAERFSWWMTSVLHRFPDT T0334 417 :FWR 1ykjA 1359 :FSQ T0334 504 :GAVKDRQRNLLETLPSLHEFLRQ 1ykjA 1362 :RIQQTELEYYLGSEAGLATIAEN Number of specific fragments extracted= 26 number of extra gaps= 0 total=1727 Number of alignments=74 # 1ykjA read from 1ykjA/merged-good-all-a2m # found chain 1ykjA in template set T0334 7 :KILIVGGGTAGWMAASYLGK 1ykjA 1004 :QVAIIGAGPSGLLLGQLLHK T0334 30 :GTADITLLQAPD 1ykjA 1024 :AGIDNVILERQT T0334 43 :PTL 1ykjA 1041 :GRI T0334 47 :VGEATIPNLQTAF 1ykjA 1044 :RGGVLEQGMVDLL T0334 61 :DFLGIP 1ykjA 1057 :REAGVD T0334 69 :EWMRE 1ykjA 1063 :RRMAR T0334 75 :NASYKVAIKFINWRTAGE 1ykjA 1068 :DGLVHEGVEIAFAGQRRR T0334 95 :SE 1ykjA 1086 :ID T0334 158 :RLDGS 1ykjA 1088 :LKRLS T0334 164 :VTNYAWHFDAHLVADFLRRFATEKLGVRHVEDRVEHVQRD 1ykjA 1093 :GGKTVTVYGQTEVTRDLMEAREACGATTVYQAAEVRLHDL T0334 204 :ANGNIESVRTATGR 1ykjA 1134 :GERPYVTFERDGER T0334 218 :VFDADLFVDCSGFRG 1ykjA 1149 :RLDCDYIAGCDGFHG T0334 241 :EPFLDMSDH 1ykjA 1166 :RQSIPAERL T0334 250 :LLNDSAVATQV 1ykjA 1180 :VYPFGWLGLLA T0334 265 :DANGVEPFTSAIAMKSGWTWKIPMLGRFGTGYVYS 1ykjA 1191 :DTPPVSHELIYANHPRGFALCSQRSATRSRYYVQV T0334 300 :SRFATEDEAVREFCEMW 1ykjA 1231 :VEDWSDERFWTELKARL T0334 318 :LDPETQPLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 1ykjA 1256 :VTGPSLEKSIAPLRSFVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLL T0334 377 :DKSLNPVLTARFNREIETMFDDTRDFIQAHFYFSPRT 1ykjA 1321 :RGELLERYSAICLRRIWKAERFSWWMTSVLHRFPDTD T0334 486 :SPRLAHMPQATESVDEVFGAVKDRQRNLL 1ykjA 1358 :AFSQRIQQTELEYYLGSEAGLATIAENYV Number of specific fragments extracted= 19 number of extra gaps= 0 total=1746 Number of alignments=75 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1iut/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334/1iut/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0334/1iut/merged-good-all-a2m.gz for input Trying 1iut/merged-good-all-a2m Error: Couldn't open file 1iut/merged-good-all-a2m or 1iut/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1kdgA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0334 read from 1kdgA/merged-good-all-a2m # 1kdgA read from 1kdgA/merged-good-all-a2m # found chain 1kdgA in training set Warning: unaligning (T0334)K4 because first residue in template chain is (1kdgA)T215 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1kdgA 216 :PYDYIIVGAGPGGIIAADRLSE T0334 30 :GTADITLLQAPDI 1kdgA 238 :AGKKVLLLERGGP T0334 46 :GVGEATIPNL 1kdgA 255 :TGGTYVAPWA T0334 61 :DFLGI 1kdgA 265 :TSSGL T0334 87 :WRTAGEGTSEARELDGGP 1kdgA 270 :TKFDIPGLFESLFTDSNP T0334 106 :HFYHSFG 1kdgA 293 :DITVFAG T0334 129 :RSY 1kdgA 302 :VGG T0334 141 :YACYKEPVILD 1kdgA 305 :GTSVNGALYWY T0334 154 :RSPRR 1kdgA 316 :PNDGD T0334 159 :LDGSKVTNYAW 1kdgA 322 :SSSVGWPSSWT T0334 170 :HFDAHLVADFLRRFA 1kdgA 401 :GKRAGPVATYLQTAL T0334 186 :EKLGVRHVED 1kdgA 416 :ARPNFTFKTN T0334 196 :RVEHVQR 1kdgA 427 :MVSNVVR T0334 204 :ANGNIESVRTA 1kdgA 434 :NGSQILGVQTN T0334 215 :T 1kdgA 447 :T T0334 217 :RVFDAD 1kdgA 452 :GFIPVT T0334 223 :LFVDCSGFRGLL 1kdgA 461 :RVILSAGAFGTS T0334 236 :NKA 1kdgA 473 :RIL T0334 243 :FLDMSDH 1kdgA 499 :LPPQNQW T0334 250 :LLN 1kdgA 508 :LPV T0334 253 :DSAVATQVPHDDD 1kdgA 519 :SINLVFTHPSIDA T0334 266 :ANGVE 1kdgA 539 :WSNPR T0334 271 :PFTSAIAMKSGWTW 1kdgA 555 :SGVFAGASPKLNFW T0334 285 :KIPMLGR 1kdgA 570 :AYSGSDG T0334 292 :FGTGYVYSSRFATE 1kdgA 579 :RYAQGTVRPGAASV T0334 306 :DEAVREFCEMW 1kdgA 639 :PVDKTVLLQAL T0334 317 :HLDPETQ 1kdgA 657 :GSIPGLT T0334 324 :PLNRIRFRVGRNRRAWVGNC 1kdgA 690 :WVSSTTIGSSPQSAVVDSNV T0334 344 :VSIGTSSCFVEPLESTGIYFVYAALYQLVKHFPD 1kdgA 717 :LFIVDAGIIPHLPTGNPQGTLMSAAEQAAAKILA T0334 378 :KSL 1kdgA 752 :AGG Number of specific fragments extracted= 30 number of extra gaps= 0 total=1776 Number of alignments=76 # 1kdgA read from 1kdgA/merged-good-all-a2m # found chain 1kdgA in training set Warning: unaligning (T0334)I5 because first residue in template chain is (1kdgA)T215 Warning: unaligning (T0334)L380 because last residue in template chain is (1kdgA)P755 T0334 6 :D 1kdgA 216 :P T0334 7 :KILIVGGGTAGWMAASYLGK 1kdgA 218 :DYIIVGAGPGGIIAADRLSE T0334 29 :QGT 1kdgA 238 :AGK T0334 33 :DITLLQAPDIPTLGVGEATIP 1kdgA 241 :KVLLLERGGPSTKQTGGTYVA T0334 57 :TAFFDFLGIPED 1kdgA 262 :PWATSSGLTKFD T0334 96 :EARELDG 1kdgA 274 :IPGLFES T0334 103 :GPDHFYHSFGLLKYHEQIPLSHYWFDRSYRGKTVEP 1kdgA 284 :DSNPFWWCKDITVFAGCLVGGGTSVNGALYWYPNDG T0334 139 :FDYACYKEP 1kdgA 368 :QLLKGQGYN T0334 172 :DAHLVADFLRRFA 1kdgA 403 :RAGPVATYLQTAL T0334 186 :EKLGVRHVED 1kdgA 416 :ARPNFTFKTN T0334 196 :RVEHVQRDAN 1kdgA 427 :MVSNVVRNGS T0334 207 :NIESVRTAT 1kdgA 437 :QILGVQTND T0334 218 :VFDA 1kdgA 453 :FIPV T0334 222 :DLFVDCSGFRG 1kdgA 460 :GRVILSAGAFG T0334 233 :LLINKAMEEPFLDM 1kdgA 472 :SRILFQSGIGPTDM T0334 254 :SAVATQVPHDDDANGVEPFTSAIAMK 1kdgA 502 :QNQWINLPVGMNAQDNPSINLVFTHP T0334 280 :SGWTWKIPM 1kdgA 563 :PKLNFWRAY T0334 289 :LGR 1kdgA 575 :DGF T0334 294 :TGYVYSSRFATE 1kdgA 581 :AQGTVRPGAASV T0334 306 :DEAVREFCEM 1kdgA 639 :PVDKTVLLQA T0334 316 :WHLDP 1kdgA 650 :HDVVS T0334 321 :ETQPLNRIRF 1kdgA 658 :SIPGLTMITP T0334 342 :NCVSIGTSSCFVEPL 1kdgA 716 :NLFIVDAGIIPHLPT T0334 358 :STGIYFVYAALYQLVKHFP 1kdgA 731 :GNPQGTLMSAAEQAAAKIL T0334 377 :DKS 1kdgA 752 :AGG Number of specific fragments extracted= 25 number of extra gaps= 0 total=1801 Number of alignments=77 # 1kdgA read from 1kdgA/merged-good-all-a2m # found chain 1kdgA in training set Warning: unaligning (T0334)K4 because first residue in template chain is (1kdgA)T215 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1kdgA 216 :PYDYIIVGAGPGGIIAADRLSE T0334 30 :GTADITLLQAPDIPTLGVGEATIPNLQ 1kdgA 238 :AGKKVLLLERGGPSTKQTGGTYVAPWA T0334 61 :DFLGI 1kdgA 265 :TSSGL T0334 76 :ASYKVAIKFINWRTAGEGTSEAREL 1kdgA 270 :TKFDIPGLFESLFTDSNPFWWCKDI T0334 101 :DGGPDHFYHSFGLLKYHEQIPLSHYWFD 1kdgA 325 :VGWPSSWTNHAPYTSKLSSRLPSTDHPS T0334 130 :SYRGKTVEPFDYACYKEPVILDANRSPRRLDGSKVTNY 1kdgA 353 :TDGQRYLEQSFNVVSQLLKGQGYNQATINDNPNYKDHV T0334 168 :AWHF 1kdgA 395 :AFDF T0334 172 :DAHLVADFLRRFATEKLGVRHVEDRVEHVQRDANG 1kdgA 403 :RAGPVATYLQTALARPNFTFKTNVMVSNVVRNGSQ T0334 208 :IESVRTATGR 1kdgA 438 :ILGVQTNDPT T0334 218 :VFDAD 1kdgA 453 :FIPVT T0334 223 :LFVDCSGFRG 1kdgA 461 :RVILSAGAFG T0334 233 :LLINKAMEEP 1kdgA 484 :DMIQTVQSNP T0334 293 :GTGYVYSSRFAT 1kdgA 519 :SINLVFTHPSID T0334 307 :EAVREFCEMWHLDPETQ 1kdgA 671 :QTLEEYVDAYDPATMNS T0334 338 :AWVGNCVSI 1kdgA 712 :FGTNNLFIV T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHFPDK 1kdgA 721 :DAGIIPHLPTGNPQGTLMSAAEQAAAKILAL Number of specific fragments extracted= 16 number of extra gaps= 0 total=1817 Number of alignments=78 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1fcdA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1fcdA expands to /projects/compbio/data/pdb/1fcd.pdb.gz 1fcdA:# T0334 read from 1fcdA/merged-good-all-a2m # 1fcdA read from 1fcdA/merged-good-all-a2m # adding 1fcdA to template set # found chain 1fcdA in template set Warning: unaligning (T0334)P40 because of BadResidue code BAD_PEPTIDE in next template residue (1fcdA)T37 Warning: unaligning (T0334)D41 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)T37 Warning: unaligning (T0334)V47 because of BadResidue code BAD_PEPTIDE in next template residue (1fcdA)L44 Warning: unaligning (T0334)N54 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)L44 Warning: unaligning (T0334)T273 because of BadResidue code BAD_PEPTIDE in next template residue (1fcdA)K129 Warning: unaligning (T0334)S274 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)K129 Warning: unaligning (T0334)K279 because of BadResidue code BAD_PEPTIDE in next template residue (1fcdA)E132 Warning: unaligning (T0334)S280 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)E132 Warning: unaligning (T0334)Y298 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1fcdA)P155 Warning: unaligning (T0334)S299 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1fcdA)P155 Warning: unaligning (T0334)T304 because of BadResidue code BAD_PEPTIDE in next template residue (1fcdA)C161 Warning: unaligning (T0334)E305 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)C161 Warning: unaligning (T0334)T322 because of BadResidue code BAD_PEPTIDE in next template residue (1fcdA)N214 Warning: unaligning (T0334)Q323 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)N214 Warning: unaligning (T0334)I328 because of BadResidue code BAD_PEPTIDE in next template residue (1fcdA)P275 Warning: unaligning (T0334)R329 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)P275 Warning: unaligning (T0334)I346 because of BadResidue code BAD_PEPTIDE in next template residue (1fcdA)G293 Warning: unaligning (T0334)G347 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)G293 Warning: unaligning (T0334)T348 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)D294 Warning: unaligning (T0334)V353 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1fcdA)P300 Warning: unaligning (T0334)E354 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1fcdA)P300 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1fcdA 2 :GRKVVVVGGGTGGATAAKYIKL T0334 28 :LQGTADITLLQA 1fcdA 24 :ADPSIEVTLIEP T0334 42 :IPTLG 1fcdA 38 :DYYTC T0334 55 :LQTAF 1fcdA 45 :SNEVI T0334 141 :YACYKEPVI 1fcdA 50 :GGDRKLESI T0334 166 :NYAW 1fcdA 59 :KHGY T0334 182 :RFA 1fcdA 63 :DGL T0334 186 :EKLGVRHVEDRVEHV 1fcdA 66 :RAHGIQVVHDSATGI T0334 203 :DANG 1fcdA 81 :DPDK T0334 209 :ESVRTATGRVFDADLFVDCSGF 1fcdA 85 :KLVKTAGGAEFGYDRCVVAPGI T0334 244 :L 1fcdA 107 :E T0334 245 :DMSDH 1fcdA 109 :IYDKI T0334 253 :DS 1fcdA 114 :EG T0334 261 :PHDDDANGVEPF 1fcdA 116 :YSEEAAAKLPHA T0334 275 :A 1fcdA 130 :A T0334 288 :MLGRFGTGYV 1fcdA 144 :MADGGTVVIA T0334 300 :SRFA 1fcdA 156 :AAPF T0334 306 :DEAVREFCEMWHL 1fcdA 198 :SQFSKGWERLYGF T0334 320 :PE 1fcdA 211 :GT T0334 324 :PLNR 1fcdA 270 :DAGW T0334 330 :FRVGRNRRAWVGNCVS 1fcdA 276 :VDIKTFESSIHKGIHV T0334 349 :SSCF 1fcdA 295 :ASIA T0334 355 :PLESTGIYF 1fcdA 302 :PKSGYSANS T0334 364 :VYAALYQLVKHFPD 1fcdA 312 :GKVAAAAVVVLLKG T0334 409 :FSPRTDTP 1fcdA 371 :VTPVDAPD T0334 497 :ESVDEVFGAVKDRQRNLLETL 1fcdA 379 :WVLEREVQYAYSWYNNIVHDT Number of specific fragments extracted= 26 number of extra gaps= 10 total=1843 Number of alignments=79 # 1fcdA read from 1fcdA/merged-good-all-a2m # found chain 1fcdA in template set Warning: unaligning (T0334)P40 because of BadResidue code BAD_PEPTIDE in next template residue (1fcdA)T37 Warning: unaligning (T0334)D41 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)T37 Warning: unaligning (T0334)I52 because of BadResidue code BAD_PEPTIDE in next template residue (1fcdA)L44 Warning: unaligning (T0334)P53 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)L44 Warning: unaligning (T0334)L250 because of BadResidue code BAD_PEPTIDE in next template residue (1fcdA)P275 Warning: unaligning (T0334)L251 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)P275 Warning: unaligning (T0334)I346 because of BadResidue code BAD_PEPTIDE in next template residue (1fcdA)G293 Warning: unaligning (T0334)G347 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)G293 Warning: unaligning (T0334)T348 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)D294 Warning: unaligning (T0334)V353 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1fcdA)P300 T0334 7 :KILIVGGGTAGWMAASYLGK 1fcdA 4 :KVVVVGGGTGGATAAKYIKL T0334 28 :L 1fcdA 24 :A T0334 29 :QGT 1fcdA 26 :PSI T0334 33 :DITLLQA 1fcdA 29 :EVTLIEP T0334 46 :GVG 1fcdA 38 :DYY T0334 50 :AT 1fcdA 41 :TC T0334 54 :N 1fcdA 45 :S T0334 57 :TAF 1fcdA 46 :NEV T0334 61 :DFLGIPED 1fcdA 49 :IGGDRKLE T0334 69 :EWM 1fcdA 63 :DGL T0334 186 :EKLGVRHVEDRVEHV 1fcdA 66 :RAHGIQVVHDSATGI T0334 203 :DANG 1fcdA 81 :DPDK T0334 209 :ESVRTATGRVFDADLFVDCSGF 1fcdA 85 :KLVKTAGGAEFGYDRCVVAPGI T0334 231 :RGLLINKAMEEPFL 1fcdA 257 :RAGKIAQIAGLTND T0334 247 :SDH 1fcdA 271 :AGW T0334 252 :ND 1fcdA 276 :VD T0334 254 :SAVAT 1fcdA 279 :KTFES T0334 338 :AWVGNCVS 1fcdA 284 :SIHKGIHV T0334 349 :SSCF 1fcdA 295 :ASIA T0334 354 :EPLESTGIYFVYAALYQLV 1fcdA 301 :MPKSGYSANSQGKVAAAAV T0334 418 :WRANKELRL 1fcdA 320 :VVLLKGEEP T0334 427 :AD 1fcdA 377 :PD T0334 497 :ESVDEVFGAVKDRQRNLLETL 1fcdA 379 :WVLEREVQYAYSWYNNIVHDT Number of specific fragments extracted= 23 number of extra gaps= 5 total=1866 Number of alignments=80 # 1fcdA read from 1fcdA/merged-good-all-a2m # found chain 1fcdA in template set Warning: unaligning (T0334)P40 because of BadResidue code BAD_PEPTIDE in next template residue (1fcdA)T37 Warning: unaligning (T0334)D41 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)T37 Warning: unaligning (T0334)V47 because of BadResidue code BAD_PEPTIDE in next template residue (1fcdA)L44 Warning: unaligning (T0334)N54 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)L44 Warning: unaligning (T0334)I328 because of BadResidue code BAD_PEPTIDE in next template residue (1fcdA)P275 Warning: unaligning (T0334)R329 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)P275 Warning: unaligning (T0334)I346 because of BadResidue code BAD_PEPTIDE in next template residue (1fcdA)G293 Warning: unaligning (T0334)G347 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)G293 Warning: unaligning (T0334)T348 because of BadResidue code BAD_PEPTIDE at template residue (1fcdA)D294 Warning: unaligning (T0334)C351 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1fcdA)P300 Warning: unaligning (T0334)F352 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1fcdA)P300 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1fcdA 2 :GRKVVVVGGGTGGATAAKYIKL T0334 28 :LQGTADITLLQA 1fcdA 24 :ADPSIEVTLIEP T0334 42 :IPTLG 1fcdA 38 :DYYTC T0334 55 :LQTA 1fcdA 45 :SNEV T0334 148 :VILDANRSPRRLDGSK 1fcdA 49 :IGGDRKLESIKHGYDG T0334 184 :ATEKLGVRHVE 1fcdA 65 :LRAHGIQVVHD T0334 196 :RVEHVQ 1fcdA 76 :SATGID T0334 204 :ANG 1fcdA 82 :PDK T0334 209 :ESVRTATGRVFDADLFVDCSGF 1fcdA 85 :KLVKTAGGAEFGYDRCVVAPGI T0334 258 :TQVPHD 1fcdA 107 :ELIYDK T0334 300 :SRFATED 1fcdA 113 :IEGYSEE T0334 322 :TQPLNR 1fcdA 268 :TNDAGW T0334 330 :FRVGRNRRAWVGNCVS 1fcdA 276 :VDIKTFESSIHKGIHV T0334 349 :S 1fcdA 295 :A T0334 350 :S 1fcdA 298 :A T0334 353 :VEPLESTGIYFVYAALYQLVKHFPDKSLN 1fcdA 301 :MPKSGYSANSQGKVAAAAVVVLLKGEEPG T0334 407 :FYFSPRTDT 1fcdA 353 :YRPNADGSA T0334 467 :NNSNYYCVLAGLGLVPDAPSPRLAHMPQATESVDEV 1fcdA 363 :ESVPDSGGVTPVDAPDWVLEREVQYAYSWYNNIVHD Number of specific fragments extracted= 18 number of extra gaps= 5 total=1884 Number of alignments=81 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1c0pA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0334 read from 1c0pA/merged-good-all-a2m # 1c0pA read from 1c0pA/merged-good-all-a2m # found chain 1c0pA in training set Warning: unaligning (T0334)I5 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)K1005 Warning: unaligning (T0334)D6 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)K1005 Warning: unaligning (T0334)G48 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)A1053 Warning: unaligning (T0334)E49 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)A1053 Warning: unaligning (T0334)Y116 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1c0pA)L1104 Warning: unaligning (T0334)H117 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1c0pA)L1104 Warning: unaligning (T0334)V197 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)T1163 Warning: unaligning (T0334)E198 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)T1163 Warning: unaligning (T0334)N205 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)D1170 Warning: unaligning (T0334)G290 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)G1230 Warning: unaligning (T0334)R291 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)G1230 Warning: unaligning (T0334)G295 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)G1236 Warning: unaligning (T0334)Y296 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)G1236 Warning: unaligning (T0334)L318 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)T1271 Warning: unaligning (T0334)D319 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)T1271 T0334 1 :MSGK 1c0pA 1000 :MMHS T0334 7 :KILIVGGGTAGWMAASYLGK 1c0pA 1006 :RVVVLGSGVIGLSSALILAR T0334 30 :GTADITLLQAPDI 1c0pA 1026 :KGYSVHILARDLP T0334 43 :P 1c0pA 1049 :P T0334 46 :GV 1c0pA 1050 :WA T0334 50 :ATIPN 1c0pA 1054 :NWTPF T0334 60 :FDFLGI 1c0pA 1059 :MTLTDG T0334 75 :NASYKVAIKFINWRTAGE 1c0pA 1065 :PRQAKWEESTFKKWVELV T0334 101 :DGGP 1c0pA 1083 :PTGH T0334 105 :DHFYHSFGLLK 1c0pA 1092 :GTRRFAQNEDG T0334 141 :YACYKEPVILD 1c0pA 1105 :GHWYKDITPNY T0334 152 :ANRSPRRLDGSKVTN 1c0pA 1117 :PLPSSECPPGAIGVT T0334 170 :HFDAHLVADFLRRFA 1c0pA 1136 :SVHAPKYCQYLAREL T0334 186 :EKLGVRHVEDR 1c0pA 1151 :QKLGATFERRT T0334 199 :HVQRD 1c0pA 1164 :SLEQA T0334 206 :G 1c0pA 1171 :G T0334 221 :ADLFVDCSG 1c0pA 1172 :ADLVVNATG T0334 236 :NKAMEEPFLDMSDHLLN 1c0pA 1181 :LGAKSIAGIDDQAAEPI T0334 253 :DSAVATQVPH 1c0pA 1199 :GQTVLVKSPC T0334 270 :EPFTSAIAMKSGWTWKIPML 1c0pA 1209 :KRCTMDSSDPASPAYIIPRP T0334 292 :FGT 1c0pA 1232 :VIC T0334 297 :VYSSRFATE 1c0pA 1237 :TYGVGDWDL T0334 306 :DEAVREFCEMW 1c0pA 1249 :PETVQRILKHC T0334 317 :H 1c0pA 1269 :D T0334 320 :PETQ 1c0pA 1272 :IEGI T0334 324 :PLNRIRFRVG 1c0pA 1295 :EAERIVLPLD T0334 343 :CVSIG 1c0pA 1325 :VTLVH T0334 353 :VEPLESTGIYFVYAALYQLVKHFP 1c0pA 1330 :AYGFSSAGYQQSWGAAEDVAQLVD T0334 386 :ARFNR 1c0pA 1354 :EAFQR Number of specific fragments extracted= 29 number of extra gaps= 8 total=1913 Number of alignments=82 # 1c0pA read from 1c0pA/merged-good-all-a2m # found chain 1c0pA in training set Warning: unaligning (T0334)D6 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)K1005 Warning: unaligning (T0334)D61 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)A1053 Warning: unaligning (T0334)F62 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)A1053 Warning: unaligning (T0334)E99 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1c0pA)L1104 Warning: unaligning (T0334)L100 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1c0pA)L1104 Warning: unaligning (T0334)V197 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)T1163 Warning: unaligning (T0334)E198 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)T1163 Warning: unaligning (T0334)A204 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)D1170 Warning: unaligning (T0334)N205 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)D1170 Warning: unaligning (T0334)L289 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)G1230 Warning: unaligning (T0334)G290 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)G1230 Warning: unaligning (T0334)G295 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)G1236 Warning: unaligning (T0334)Y296 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)G1236 Warning: unaligning (T0334)E321 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)T1271 T0334 2 :SGKI 1c0pA 1000 :MMHS T0334 7 :KILIVGGGTAGWMAASYLGK 1c0pA 1006 :RVVVLGSGVIGLSSALILAR T0334 29 :QGT 1c0pA 1026 :KGY T0334 33 :DITLLQAP 1c0pA 1029 :SVHILARD T0334 46 :GVGEATIPNLQTAFF 1c0pA 1037 :LPEDVSSQTFASPWA T0334 63 :LGIPED 1c0pA 1054 :NWTPFM T0334 69 :EWMRECNASYKVAIK 1c0pA 1065 :PRQAKWEESTFKKWV T0334 96 :EAR 1c0pA 1100 :EDG T0334 101 :DG 1c0pA 1105 :GH T0334 109 :HSFGLLKYHE 1c0pA 1107 :WYKDITPNYR T0334 152 :ANRSPRRLDGSKVTNYAWHF 1c0pA 1117 :PLPSSECPPGAIGVTYDTLS T0334 172 :DAHLVADFLRRFA 1c0pA 1138 :HAPKYCQYLAREL T0334 186 :EKLGVRHVEDR 1c0pA 1151 :QKLGATFERRT T0334 199 :HVQRD 1c0pA 1164 :SLEQA T0334 206 :G 1c0pA 1171 :G T0334 221 :ADLFVDCSGFRGLLI 1c0pA 1172 :ADLVVNATGLGAKSI T0334 239 :MEEPF 1c0pA 1187 :AGIDD T0334 247 :SDHLLND 1c0pA 1192 :QAAEPIR T0334 254 :SAVATQVP 1c0pA 1200 :QTVLVKSP T0334 270 :EPFTSAIAMKSGWTWKIPM 1c0pA 1209 :KRCTMDSSDPASPAYIIPR T0334 291 :RFGT 1c0pA 1231 :EVIC T0334 297 :VYSSRFATE 1c0pA 1237 :TYGVGDWDL T0334 306 :DEAVREFCEM 1c0pA 1249 :PETVQRILKH T0334 316 :WHLDP 1c0pA 1260 :LRLDP T0334 322 :TQPLNRIRFRVGRNR 1c0pA 1272 :IEGIEVLRHNVGLRP T0334 337 :RAWVG 1c0pA 1298 :RIVLP T0334 342 :NCVS 1c0pA 1324 :EVTL T0334 351 :CFVEPLESTGIYFVYAALYQLVKHF 1c0pA 1328 :VHAYGFSSAGYQQSWGAAEDVAQLV T0334 389 :NREIET 1c0pA 1353 :DEAFQR Number of specific fragments extracted= 29 number of extra gaps= 8 total=1942 Number of alignments=83 # 1c0pA read from 1c0pA/merged-good-all-a2m # found chain 1c0pA in training set Warning: unaligning (T0334)I5 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)K1005 Warning: unaligning (T0334)D6 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)K1005 Warning: unaligning (T0334)G48 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)A1053 Warning: unaligning (T0334)E49 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)A1053 Warning: unaligning (T0334)T94 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1c0pA)L1104 Warning: unaligning (T0334)S95 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1c0pA)L1104 Warning: unaligning (T0334)V197 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)T1163 Warning: unaligning (T0334)E198 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)T1163 Warning: unaligning (T0334)A204 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)D1170 Warning: unaligning (T0334)N205 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)D1170 Warning: unaligning (T0334)G290 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)G1230 Warning: unaligning (T0334)R291 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)G1230 Warning: unaligning (T0334)Y298 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)G1236 Warning: unaligning (T0334)H317 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)T1271 Warning: unaligning (T0334)L318 because of BadResidue code BAD_PEPTIDE at template residue (1c0pA)T1271 Warning: unaligning (T0334)N342 because of BadResidue code BAD_PEPTIDE in next template residue (1c0pA)S1316 T0334 1 :MSGK 1c0pA 1000 :MMHS T0334 7 :KILIVGGGTAGWMAASYLGK 1c0pA 1006 :RVVVLGSGVIGLSSALILAR T0334 30 :GTADITLLQAP 1c0pA 1026 :KGYSVHILARD T0334 41 :DIPTLGV 1c0pA 1045 :TFASPWA T0334 50 :ATI 1c0pA 1054 :NWT T0334 53 :PNLQTAFFDF 1c0pA 1065 :PRQAKWEEST T0334 68 :DEWMREC 1c0pA 1075 :FKKWVEL T0334 75 :NASYKVAIKF 1c0pA 1087 :AMWLKGTRRF T0334 88 :RTAGEG 1c0pA 1097 :AQNEDG T0334 96 :EARELDGGP 1c0pA 1105 :GHWYKDITP T0334 149 :ILDANRSPRRLDGSKVTNY 1c0pA 1114 :NYRPLPSSECPPGAIGVTY T0334 168 :AWHFDAHLVADFLRRFATEKLGV 1c0pA 1134 :TLSVHAPKYCQYLARELQKLGAT T0334 192 :HVEDR 1c0pA 1157 :FERRT T0334 199 :HVQRD 1c0pA 1164 :SLEQA T0334 206 :G 1c0pA 1171 :G T0334 221 :ADLFVDCSGFRG 1c0pA 1172 :ADLVVNATGLGA T0334 239 :MEEPFLDMSDHLLNDSAVATQV 1c0pA 1184 :KSIAGIDDQAAEPIRGQTVLVK T0334 267 :NGVEPFTSAIAMKSGWTWKIPML 1c0pA 1206 :SPCKRCTMDSSDPASPAYIIPRP T0334 295 :GYV 1c0pA 1232 :VIC T0334 299 :SSRFATEDEAVREFCEMW 1c0pA 1242 :DWDLSVNPETVQRILKHC T0334 319 :DPET 1c0pA 1272 :IEGI T0334 324 :PLNRIRFRVGRNRRAWVG 1c0pA 1297 :ERIVLPLDRTKSPLSLGR T0334 343 :CVSIGTSSCFV 1c0pA 1324 :EVTLVHAYGFS T0334 358 :ST 1c0pA 1335 :SA T0334 364 :VYAALYQLVKH 1c0pA 1337 :GYQQSWGAAED T0334 388 :FNREIETMFDD 1c0pA 1348 :VAQLVDEAFQR Number of specific fragments extracted= 26 number of extra gaps= 9 total=1968 Number of alignments=84 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1xhcA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1xhcA expands to /projects/compbio/data/pdb/1xhc.pdb.gz 1xhcA:Skipped atom 303, because occupancy 0.350 <= existing 0.650 in 1xhcA Skipped atom 305, because occupancy 0.350 <= existing 0.650 in 1xhcA Skipped atom 307, because occupancy 0.350 <= existing 0.650 in 1xhcA Skipped atom 309, because occupancy 0.350 <= existing 0.650 in 1xhcA # T0334 read from 1xhcA/merged-good-all-a2m # 1xhcA read from 1xhcA/merged-good-all-a2m # adding 1xhcA to template set # found chain 1xhcA in template set Warning: unaligning (T0334)D6 because first residue in template chain is (1xhcA)S1 Warning: unaligning (T0334)A142 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xhcA)R82 Warning: unaligning (T0334)C143 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xhcA)R82 Warning: unaligning (T0334)P355 because of BadResidue code BAD_PEPTIDE in next template residue (1xhcA)I268 Warning: unaligning (T0334)L356 because of BadResidue code BAD_PEPTIDE at template residue (1xhcA)I268 T0334 7 :KILIVGGGTAGW 1xhcA 2 :KVVIVGNGPGGF T0334 23 :YLGKALQGTADITLLQAPDIPTLG 1xhcA 14 :ELAKQLSQTYEVTVIDKEPVPYYS T0334 52 :IPNLQTAF 1xhcA 38 :KPMLSHYI T0334 63 :LGI 1xhcA 46 :AGF T0334 92 :EGTSEARELD 1xhcA 49 :IPRNRLFPYS T0334 123 :SHYWFDRSYRG 1xhcA 59 :LDWYRKRGIEI T0334 134 :KTVEPFDY 1xhcA 73 :EEAKLIDR T0334 145 :KEPVILD 1xhcA 89 :KGEVPYD T0334 152 :ANRSPRRLDG 1xhcA 105 :AREPQIKGKE T0334 167 :YAW 1xhcA 115 :YLL T0334 170 :HFD 1xhcA 172 :GLD T0334 174 :HLVADFLRRFA 1xhcA 175 :EELSNMIKDML T0334 186 :EKLGVRHVED 1xhcA 186 :EETGVKFFLN T0334 196 :RVEHV 1xhcA 197 :ELLEA T0334 204 :ANG 1xhcA 202 :NEE T0334 210 :SVRTATGR 1xhcA 205 :GVLTNSGF T0334 219 :FDADLFVDCSGFRGLL 1xhcA 213 :IEGKVKICAIGIVPNV T0334 235 :INKAMEEP 1xhcA 230 :LARRSGIH T0334 246 :MSDH 1xhcA 238 :TGRG T0334 258 :TQV 1xhcA 242 :ILI T0334 278 :MKSG 1xhcA 245 :DDNF T0334 287 :P 1xhcA 249 :R T0334 338 :AWVGNCVSIGTSSCFVE 1xhcA 250 :TSAKDVYAIGDCAEYSG T0334 357 :EST 1xhcA 269 :AGT T0334 361 :IYFVYAALYQLVKHFPDKSLN 1xhcA 272 :AKAAMEQARVLADILKGEPRR Number of specific fragments extracted= 25 number of extra gaps= 2 total=1993 Number of alignments=85 # 1xhcA read from 1xhcA/merged-good-all-a2m # found chain 1xhcA in template set Warning: unaligning (T0334)A90 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xhcA)R82 Warning: unaligning (T0334)G91 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xhcA)R82 Warning: unaligning (T0334)E92 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xhcA)K83 Warning: unaligning (T0334)Y125 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xhcA)G144 Warning: unaligning (T0334)W126 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xhcA)G144 Warning: unaligning (T0334)L356 because of BadResidue code BAD_PEPTIDE in next template residue (1xhcA)I268 Warning: unaligning (T0334)E357 because of BadResidue code BAD_PEPTIDE at template residue (1xhcA)I268 T0334 7 :KILIVGGGTAGWMAASYLG 1xhcA 2 :KVVIVGNGPGGFELAKQLS T0334 29 :QGT 1xhcA 21 :QTY T0334 33 :DITLLQAPDIPTLGVG 1xhcA 24 :EVTVIDKEPVPYYSKP T0334 57 :TAFFDFLGIPED 1xhcA 40 :MLSHYIAGFIPR T0334 69 :EWMRECNASYKVAIKFINWRT 1xhcA 60 :DWYRKRGIEIRLAEEAKLIDR T0334 93 :GTS 1xhcA 84 :VVI T0334 96 :EARELDG 1xhcA 107 :EPQIKGK T0334 105 :DHFYHSFGLL 1xhcA 114 :EYLLTLRTIF T0334 115 :KYHEQIPLSH 1xhcA 133 :ENSGEAIIIG T0334 127 :FDRSYRG 1xhcA 145 :FIGLELA T0334 139 :FDYACYKEPVILD 1xhcA 152 :GNLAEAGYHVKLI T0334 152 :ANRSPRR 1xhcA 166 :RGAMFLG T0334 172 :DAHLVADFLRRFA 1xhcA 173 :LDEELSNMIKDML T0334 186 :EKLGVRHVED 1xhcA 186 :EETGVKFFLN T0334 196 :RVEHV 1xhcA 197 :ELLEA T0334 203 :DANG 1xhcA 202 :NEEG T0334 211 :VRTATG 1xhcA 206 :VLTNSG T0334 218 :VFDADLFVDCSGFRG 1xhcA 212 :FIEGKVKICAIGIVP T0334 233 :LLINKAMEEPF 1xhcA 228 :VDLARRSGIHT T0334 247 :SDHLLNDSAVA 1xhcA 239 :GRGILIDDNFR T0334 338 :AWVGNCVSIGTSSCF 1xhcA 250 :TSAKDVYAIGDCAEY T0334 354 :EP 1xhcA 265 :SG T0334 358 :STGIYFVYAALYQLVKHFPDKSLN 1xhcA 269 :AGTAKAAMEQARVLADILKGEPRR Number of specific fragments extracted= 23 number of extra gaps= 3 total=2016 Number of alignments=86 # 1xhcA read from 1xhcA/merged-good-all-a2m # found chain 1xhcA in template set Warning: unaligning (T0334)D6 because first residue in template chain is (1xhcA)S1 Warning: unaligning (T0334)A90 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xhcA)R82 Warning: unaligning (T0334)G91 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xhcA)R82 Warning: unaligning (T0334)E92 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xhcA)K83 Warning: unaligning (T0334)L356 because of BadResidue code BAD_PEPTIDE in next template residue (1xhcA)I268 Warning: unaligning (T0334)E357 because of BadResidue code BAD_PEPTIDE at template residue (1xhcA)I268 T0334 7 :KILIVGGGTAG 1xhcA 2 :KVVIVGNGPGG T0334 22 :SYLGKALQGTADITLLQAPDIPTLG 1xhcA 13 :FELAKQLSQTYEVTVIDKEPVPYYS T0334 52 :IPNLQTAF 1xhcA 38 :KPMLSHYI T0334 63 :LGI 1xhcA 46 :AGF T0334 66 :PE 1xhcA 50 :PR T0334 68 :DEWMRECNASYKVAIKFINWRT 1xhcA 59 :LDWYRKRGIEIRLAEEAKLIDR T0334 93 :GTSEAREL 1xhcA 84 :VVITEKGE T0334 101 :DGGPDH 1xhcA 106 :REPQIK T0334 119 :QIPLSHYWFDRSYRGKTVEPFD 1xhcA 112 :GKEYLLTLRTIFDADRIKESIE T0334 141 :YACYKEPVILDANRSPRRLDGSKVTNY 1xhcA 147 :GLELAGNLAEAGYHVKLIHRGAMFLGL T0334 173 :AHLVADFLRRFATEKLGVRHVEDRVEHVQ 1xhcA 174 :DEELSNMIKDMLEETGVKFFLNSELLEAN T0334 204 :ANG 1xhcA 203 :EEG T0334 211 :VRTAT 1xhcA 206 :VLTNS T0334 217 :RVFDADLFVDCSGF 1xhcA 211 :GFIEGKVKICAIGI T0334 258 :TQV 1xhcA 225 :VPN T0334 274 :SAIAMKSGW 1xhcA 228 :VDLARRSGI T0334 291 :RFGTGYVYSSRF 1xhcA 237 :HTGRGILIDDNF T0334 337 :RAWVGNCVSIGTSSCF 1xhcA 249 :RTSAKDVYAIGDCAEY T0334 355 :P 1xhcA 266 :G T0334 358 :STGIYFVYAALYQLVKHFPDKSL 1xhcA 269 :AGTAKAAMEQARVLADILKGEPR Number of specific fragments extracted= 20 number of extra gaps= 2 total=2036 Number of alignments=87 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1k0iA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0334 read from 1k0iA/merged-good-all-a2m # 1k0iA read from 1k0iA/merged-good-all-a2m # found chain 1k0iA in training set Warning: unaligning (T0334)K4 because first residue in template chain is (1k0iA)M1 T0334 5 :IDKILIVGGGTAGWMAASYLGKA 1k0iA 2 :KTQVAIIGAGPSGLLLGQLLHKA T0334 31 :TADITLLQAPDI 1k0iA 25 :GIDNVILERQTP T0334 43 :PTLGVGEATIPNLQTAF 1k0iA 40 :LGRIRAGVLEQGMVDLL T0334 61 :DFLGI 1k0iA 57 :REAGV T0334 123 :SHYWFDRSYR 1k0iA 62 :DRRMARDGLV T0334 136 :VEPFDYACYKEPVILD 1k0iA 72 :HEGVEIAFAGQRRRID T0334 155 :SPRRLDG 1k0iA 88 :LKRLSGG T0334 166 :NYAWHFDAHLVADFLRRFA 1k0iA 95 :KTVTVYGQTEVTRDLMEAR T0334 186 :EKLGVRHVED 1k0iA 114 :EACGATTVYQ T0334 196 :RVEHVQR 1k0iA 125 :AEVRLHD T0334 203 :DANG 1k0iA 133 :QGER T0334 209 :ESVRTA 1k0iA 137 :PYVTFE T0334 215 :TG 1k0iA 144 :DG T0334 217 :RVFDADLFVDCSGFRGLL 1k0iA 148 :LRLDCDYIAGCDGFHGIS T0334 236 :NKAMEEPFL 1k0iA 166 :RQSIPAERL T0334 245 :DMSDHLLNDSAVAT 1k0iA 176 :VFERVYPFGWLGLL T0334 264 :DDANGVEPFTSAIAMKSGWTWKIPMLGR 1k0iA 190 :ADTPPVSHELIYANHPRGFALCSQRSAT T0334 292 :FGTGYVYSS 1k0iA 219 :SQYYVQVPL T0334 301 :RFATEDEAVREFCEMW 1k0iA 232 :EDWSDERFWTELKARL T0334 324 :PLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFPD 1k0iA 262 :EKSIAPLRSFVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLLK T0334 378 :KSLNPVLTARFNREIETMFDDTRDFIQAHFY 1k0iA 318 :REGRGELLERYSAICLRRIWKAERFSWWMTS T0334 409 :FSPRTDTPFWR 1k0iA 351 :HRFPDTDAFSQ T0334 504 :GAVKDRQRNLLETLPSLHEFLR 1k0iA 362 :RIQQTELEYYLGSEAGLATIAE Number of specific fragments extracted= 23 number of extra gaps= 0 total=2059 Number of alignments=88 # 1k0iA read from 1k0iA/merged-good-all-a2m # found chain 1k0iA in training set Warning: unaligning (T0334)I5 because first residue in template chain is (1k0iA)M1 T0334 6 :D 1k0iA 2 :K T0334 7 :KILIVGGGTAGWMAASYLGK 1k0iA 4 :QVAIIGAGPSGLLLGQLLHK T0334 29 :QGT 1k0iA 24 :AGI T0334 33 :DITLLQAPD 1k0iA 27 :DNVILERQT T0334 52 :IPNLQTAF 1k0iA 36 :PDYVLGRI T0334 61 :DFLGIPED 1k0iA 44 :RAGVLEQG T0334 69 :EWMRECNASYKVAIKFINW 1k0iA 54 :DLLREAGVDRRMARDGLVH T0334 103 :GPDHFYHSFGLL 1k0iA 73 :EGVEIAFAGQRR T0334 115 :KYHE 1k0iA 87 :DLKR T0334 152 :ANRSPRRLD 1k0iA 92 :SGGKTVTVY T0334 172 :DAHLVADFLRRFA 1k0iA 101 :GQTEVTRDLMEAR T0334 186 :EKLGVRHVED 1k0iA 114 :EACGATTVYQ T0334 196 :RVEHVQRDANGNIE 1k0iA 125 :AEVRLHDLQGERPY T0334 211 :VRTA 1k0iA 139 :VTFE T0334 215 :TGR 1k0iA 144 :DGE T0334 218 :VFDADLFVDCSGFRGLLI 1k0iA 149 :RLDCDYIAGCDGFHGISR T0334 237 :KAMEEPFLDM 1k0iA 167 :QSIPAERLKV T0334 247 :SDHLLND 1k0iA 178 :ERVYPFG T0334 254 :SAVATQVPHDD 1k0iA 186 :LGLLADTPPVS T0334 271 :PFTSAIAMKSGWTWKIPM 1k0iA 197 :HELIYANHPRGFALCSQR T0334 289 :LGR 1k0iA 216 :ATR T0334 292 :FGTGYVYSSRFATEDEAVREFCEMWHLDP 1k0iA 223 :VQVPLSEKVEDWSDERFWTELKARLPSEV T0334 321 :ETQPLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 1k0iA 259 :PSLEKSIAPLRSFVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLL T0334 377 :DKSLNPVLTARFNREIETMFDDTRDFIQAHFYFSPRTDTP 1k0iA 317 :YREGRGELLERYSAICLRRIWKAERFSWWMTSVLHRFPDT T0334 417 :FWR 1k0iA 359 :FSQ T0334 497 :ESVDEVFGAVKD 1k0iA 362 :RIQQTELEYYLG T0334 509 :RQRNLLE 1k0iA 377 :GLATIAE Number of specific fragments extracted= 27 number of extra gaps= 0 total=2086 Number of alignments=89 # 1k0iA read from 1k0iA/merged-good-all-a2m # found chain 1k0iA in training set T0334 7 :KILIVGGGTAGWMAASYLGK 1k0iA 4 :QVAIIGAGPSGLLLGQLLHK T0334 30 :GTADITLLQAPD 1k0iA 24 :AGIDNVILERQT T0334 42 :IPTLGV 1k0iA 42 :RIRAGV T0334 51 :TIPNLQTAF 1k0iA 48 :LEQGMVDLL T0334 61 :DFLGIP 1k0iA 57 :REAGVD T0334 68 :DEWMRECNASYKVAIKFINWRT 1k0iA 63 :RRMARDGLVHEGVEIAFAGQRR T0334 155 :SPRRLDGSKVT 1k0iA 85 :RIDLKRLSGGK T0334 167 :YAWHFDAHLVADFLRRFATEKLGVRHVEDRVEHVQRDANGNIESVRTATGR 1k0iA 96 :TVTVYGQTEVTRDLMEAREACGATTVYQAAEVRLHDLQGERPYVTFERDGE T0334 218 :VFDADLFVDCSGFRG 1k0iA 149 :RLDCDYIAGCDGFHG T0334 241 :EPFLDMSDH 1k0iA 166 :RQSIPAERL T0334 250 :LLNDSAVATQV 1k0iA 180 :VYPFGWLGLLA T0334 265 :DANGVEPFTSAIAMKSGWTWKIPMLGRFGTGYVYS 1k0iA 191 :DTPPVSHELIYANHPRGFALCSQRSATRSQYYVQV T0334 300 :SRFATEDEAVREFCEMWHLD 1k0iA 231 :VEDWSDERFWTELKARLPSE T0334 320 :PETQPLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 1k0iA 258 :GPSLEKSIAPLRSFVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLL T0334 377 :DKSLNPVLTARFNREIETMFDDTRDFIQAHFYFSPRT 1k0iA 321 :RGELLERYSAICLRRIWKAERFSWWMTSVLHRFPDTD T0334 486 :SPRLAHMPQATESVDEVFGAVKDRQRNL 1k0iA 358 :AFSQRIQQTELEYYLGSEAGLATIAENY Number of specific fragments extracted= 16 number of extra gaps= 0 total=2102 Number of alignments=90 # Reading fragments from alignment file # Attempting to read fragment alignments from file 3ladA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 3ladA expands to /projects/compbio/data/pdb/3lad.pdb.gz 3ladA:# T0334 read from 3ladA/merged-good-all-a2m # 3ladA read from 3ladA/merged-good-all-a2m # adding 3ladA to template set # found chain 3ladA in template set Warning: unaligning (T0334)K4 because of BadResidue code BAD_PEPTIDE at template residue (3ladA)Q2 Warning: unaligning (T0334)I5 because of BadResidue code BAD_PEPTIDE at template residue (3ladA)K3 Warning: unaligning (T0334)W70 because of BadResidue code BAD_PEPTIDE in next template residue (3ladA)I91 Warning: unaligning (T0334)M71 because of BadResidue code BAD_PEPTIDE at template residue (3ladA)I91 Warning: unaligning (T0334)F219 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (3ladA)A268 Warning: unaligning (T0334)D220 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (3ladA)A268 Warning: unaligning (T0334)C227 because of BadResidue code BAD_PEPTIDE in next template residue (3ladA)V276 Warning: unaligning (T0334)S228 because of BadResidue code BAD_PEPTIDE at template residue (3ladA)V276 Warning: unaligning (T0334)L234 because of BadResidue code BAD_PEPTIDE in next template residue (3ladA)T283 Warning: unaligning (T0334)N236 because of BadResidue code BAD_PEPTIDE at template residue (3ladA)T283 Warning: unaligning (T0334)D253 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (3ladA)P360 Warning: unaligning (T0334)S254 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (3ladA)P360 Warning: unaligning (T0334)A255 because of BadResidue code BAD_PEPTIDE at template residue (3ladA)E361 T0334 6 :DKILIVGGGTAGWMAASYLGKA 3ladA 4 :FDVIVIGAGPGGYVAAIKSAQL T0334 31 :TADITLLQA 3ladA 26 :GLKTALIEK T0334 40 :PDIPTLGVGEATIPNLQTAF 3ladA 40 :GKTALGGTCLNVGCIPSKAL T0334 66 :PEDE 3ladA 86 :DVPT T0334 72 :RECNASY 3ladA 92 :ARKDQIV T0334 79 :KVAIKFINWRTAGE 3ladA 100 :NLTGGVASLIKANG T0334 104 :P 3ladA 114 :V T0334 105 :DHFYHSFGLLKYHEQIPLSHYWFDRSYR 3ladA 126 :GKKVEVTAADGSSQVLDTENVILASGSK T0334 136 :VEPFDYACYKEPVILD 3ladA 154 :PVEIPPAPVDQDVIVD T0334 152 :ANRSPRRLDGSKVTN 3ladA 173 :ALDFQNVPGKLGVIG T0334 170 :HFD 3ladA 218 :AVD T0334 174 :HLVADFLRRFA 3ladA 221 :EQVAKEAQKIL T0334 186 :EKLGVRHVED 3ladA 232 :TKQGLKILLG T0334 196 :RVEHVQRDANGNIESVRTATG 3ladA 243 :RVTGTEVKNKQVTVKFVDAEG T0334 217 :RV 3ladA 265 :KS T0334 221 :ADLFVD 3ladA 269 :FDKLIV T0334 229 :GFRGL 3ladA 277 :GRRPV T0334 237 :KA 3ladA 284 :DL T0334 239 :MEEPFLDMSDHLLN 3ladA 345 :AQMNYDLIPAVIYT T0334 256 :VATQVPHDDDA 3ladA 362 :IAGVGKTEQAL T0334 267 :NGVEPFTSAIAMKS 3ladA 375 :EGVAINVGVFPFAA T0334 281 :GWTWKIPMLGR 3ladA 400 :GFVKVIADAKT T0334 292 :FGTGYVYSSRFA 3ladA 413 :VLGVHVIGPSAA T0334 307 :EAVREFCE 3ladA 425 :ELVQQGAI Number of specific fragments extracted= 24 number of extra gaps= 6 total=2126 Number of alignments=91 # 3ladA read from 3ladA/merged-good-all-a2m # found chain 3ladA in template set Warning: unaligning (T0334)K4 because first residue in template chain is (3ladA)S1 Warning: unaligning (T0334)I5 because of BadResidue code BAD_PEPTIDE at template residue (3ladA)Q2 Warning: unaligning (T0334)D6 because of BadResidue code BAD_PEPTIDE at template residue (3ladA)K3 Warning: unaligning (T0334)V47 because of BadResidue code BAD_PEPTIDE in next template residue (3ladA)V83 Warning: unaligning (T0334)G48 because of BadResidue code BAD_PEPTIDE at template residue (3ladA)V83 Warning: unaligning (T0334)E49 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (3ladA)A84 Warning: unaligning (T0334)L55 because of BadResidue code BAD_PEPTIDE in next template residue (3ladA)I91 Warning: unaligning (T0334)Q56 because of BadResidue code BAD_PEPTIDE at template residue (3ladA)I91 Warning: unaligning (T0334)F219 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (3ladA)A268 Warning: unaligning (T0334)D220 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (3ladA)A268 Warning: unaligning (T0334)C227 because of BadResidue code BAD_PEPTIDE in next template residue (3ladA)V276 Warning: unaligning (T0334)S228 because of BadResidue code BAD_PEPTIDE at template residue (3ladA)V276 Warning: unaligning (T0334)K237 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (3ladA)D289 Warning: unaligning (T0334)A238 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (3ladA)D289 Warning: unaligning (T0334)M239 because of BadResidue code BAD_PEPTIDE at template residue (3ladA)S290 T0334 7 :KILIVGGGTAGWMAASYLGK 3ladA 5 :DVIVIGAGPGGYVAAIKSAQ T0334 29 :QGT 3ladA 25 :LGL T0334 33 :DITLLQAPD 3ladA 28 :KTALIEKYK T0334 42 :IPTL 3ladA 38 :KEGK T0334 46 :G 3ladA 81 :G T0334 50 :ATIPN 3ladA 85 :IDVPT T0334 57 :TAFFDFLGI 3ladA 92 :ARKDQIVRN T0334 69 :EWMRECNASYKVAIKFI 3ladA 107 :SLIKANGVTLFEGHGKL T0334 96 :EARELDGGPDHFYHSFGLL 3ladA 156 :EIPPAPVDQDVIVDSTGAL T0334 115 :KYHEQIPLSHYWFDRSYRG 3ladA 178 :NVPGKLGVIGAGVIGLELG T0334 139 :FDYACYKEPVILD 3ladA 197 :SVWARLGAEVTVL T0334 152 :ANRSPRRL 3ladA 211 :AMDKFLPA T0334 172 :DAHLVADFLRRFA 3ladA 219 :VDEQVAKEAQKIL T0334 186 :EKLGVRHVED 3ladA 232 :TKQGLKILLG T0334 196 :RVEHVQRDAN 3ladA 243 :RVTGTEVKNK T0334 207 :NIE 3ladA 253 :QVT T0334 211 :VRTAT 3ladA 256 :VKFVD T0334 216 :GR 3ladA 263 :GE T0334 218 :V 3ladA 266 :S T0334 221 :ADLFVD 3ladA 269 :FDKLIV T0334 229 :GFRG 3ladA 277 :GRRP T0334 233 :LLIN 3ladA 284 :DLLA T0334 240 :EEPFLD 3ladA 291 :GVTLDE T0334 247 :SDHLLNDSAVATQVPHDDDANGV 3ladA 297 :RGFIYVDDYCATSVPGVYAIGDV T0334 270 :EPFTS 3ladA 375 :EGVAI T0334 275 :AIAMK 3ladA 381 :VGVFP T0334 280 :SGWTWKIPM 3ladA 400 :GFVKVIADA T0334 289 :LGRFGTGYVYSSR 3ladA 410 :TDRVLGVHVIGPS T0334 364 :VYAALYQLVKHFP 3ladA 423 :AAELVQQGAIAME T0334 377 :DKSLNPVLTARF 3ladA 449 :AHPALSEALHEA Number of specific fragments extracted= 30 number of extra gaps= 5 total=2156 Number of alignments=92 # 3ladA read from 3ladA/merged-good-all-a2m # found chain 3ladA in template set Warning: unaligning (T0334)F219 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (3ladA)A268 Warning: unaligning (T0334)D220 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (3ladA)A268 Warning: unaligning (T0334)C227 because of BadResidue code BAD_PEPTIDE in next template residue (3ladA)V276 Warning: unaligning (T0334)S228 because of BadResidue code BAD_PEPTIDE at template residue (3ladA)V276 Warning: unaligning (T0334)H262 because of BadResidue code BAD_PEPTIDE in next template residue (3ladA)T283 Warning: unaligning (T0334)D263 because of BadResidue code BAD_PEPTIDE at template residue (3ladA)T283 Warning: unaligning (T0334)G268 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (3ladA)D289 Warning: unaligning (T0334)V269 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (3ladA)D289 Warning: unaligning (T0334)E270 because of BadResidue code BAD_PEPTIDE at template residue (3ladA)S290 T0334 3 :GKIDKILIVGGGTAGWMAASYLGK 3ladA 178 :NVPGKLGVIGAGVIGLELGSVWAR T0334 30 :GTADITLLQAPDIPT 3ladA 202 :LGAEVTVLEAMDKFL T0334 63 :LGIP 3ladA 217 :PAVD T0334 174 :HLVADFLRRFATEKLGVRHVEDRVEHVQRDANGNIESVRTATGR 3ladA 221 :EQVAKEAQKILTKQGLKILLGARVTGTEVKNKQVTVKFVDAEGE T0334 218 :V 3ladA 266 :S T0334 221 :ADLFVD 3ladA 269 :FDKLIV T0334 229 :GF 3ladA 277 :GR T0334 258 :TQV 3ladA 279 :RPV T0334 264 :DDAN 3ladA 284 :DLLA T0334 271 :PFTS 3ladA 291 :GVTL T0334 292 :FGTGYVYSSRFAT 3ladA 295 :DERGFIYVDDYCA T0334 338 :AWVGNCVSIGTSSCFVE 3ladA 308 :TSVPGVYAIGDVVRGAM T0334 360 :GIYFVYAALYQLVKHFPDKSL 3ladA 325 :LAHKASEEGVVVAERIAGHKA Number of specific fragments extracted= 13 number of extra gaps= 4 total=2169 Number of alignments=93 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1cc4A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334/1cc4A/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0334/1cc4A/merged-good-all-a2m.gz for input Trying 1cc4A/merged-good-all-a2m Error: Couldn't open file 1cc4A/merged-good-all-a2m or 1cc4A/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1jnrA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0334 read from 1jnrA/merged-good-all-a2m # 1jnrA read from 1jnrA/merged-good-all-a2m # found chain 1jnrA in training set T0334 5 :IDKILIVGGGTAGWMAASYLGKAL 1jnrA 22 :ETDILIIGGGFSGCGAAYEAAYWA T0334 29 :QGTADITLLQAPDI 1jnrA 47 :LGGLKVTLVEKAAV T0334 43 :PTLGVGEATIPNLQTAF 1jnrA 80 :TGRSERQNTLEDYVRYV T0334 60 :FDFLGIP 1jnrA 98 :LDMMGLA T0334 77 :SYKVAIKFINWRTAG 1jnrA 105 :REDLVADYARHVDGT T0334 123 :SHYWFDRSYR 1jnrA 120 :VHLFEKWGLP T0334 136 :V 1jnrA 130 :I T0334 141 :YACYKEPVI 1jnrA 131 :WKTPDGKYV T0334 163 :KVTNYAWHF 1jnrA 140 :REGQWQIMI T0334 173 :AHLVADFLRRFA 1jnrA 154 :KPIIAEAAKMAV T0334 189 :G 1jnrA 166 :G T0334 192 :HVED 1jnrA 170 :IYER T0334 196 :RVEHVQRDANGN 1jnrA 175 :FIFELLKDNNDP T0334 208 :IESVR 1jnrA 189 :VAGAV T0334 213 :TA 1jnrA 195 :FS T0334 215 :TG 1jnrA 198 :RE T0334 217 :RVFDADLFVDCSGFRGLL 1jnrA 203 :YVFKAKAVILATGGATLL T0334 243 :FLDMSDH 1jnrA 221 :FRPRSTG T0334 264 :DDANGVEPFTSAIAM 1jnrA 228 :EAAGRTWYAIFDTGS T0334 281 :GWTW 1jnrA 252 :AMLT T0334 285 :KIPMLGR 1jnrA 263 :PFRFKDG T0334 292 :FGT 1jnrA 271 :GPV T0334 306 :DEAVREFCEMW 1jnrA 348 :KKKLKHIYEEA T0334 317 :HLDPETQ 1jnrA 377 :NIDPQEQ T0334 329 :RFRVGRNRRA 1jnrA 384 :PSEAAPAEPY T0334 339 :WVGNCVSIGTSSCFVEPLESTGIYF 1jnrA 430 :TVKGLFAIGDCAGANPHKFSSGSFT T0334 364 :VYAALYQLVKHFPD 1jnrA 456 :GRIAAKAAVRFILE T0334 378 :KSLNPVLTARF 1jnrA 474 :PEIDDAVVEEL T0334 396 :FDDTRDFIQAHFYFSPRTDTP 1jnrA 485 :KKKAYAPMERFMQYKDLSTAD T0334 417 :FW 1jnrA 514 :PW T0334 428 :DGMQEKIDMYRAGMAINAP 1jnrA 516 :QGLVRLQKIMDEYAAGIAT T0334 491 :HM 1jnrA 535 :IY T0334 493 :PQATESVDEVFGAVKDRQ 1jnrA 540 :EKMLQRALELLAFLKEDL Number of specific fragments extracted= 33 number of extra gaps= 0 total=2202 Number of alignments=94 # 1jnrA read from 1jnrA/merged-good-all-a2m # found chain 1jnrA in training set T0334 4 :KID 1jnrA 17 :PTE T0334 7 :KILIVGGGTAGWMAASYLGKAL 1jnrA 24 :DILIIGGGFSGCGAAYEAAYWA T0334 29 :QGT 1jnrA 48 :GGL T0334 33 :DITLLQAP 1jnrA 51 :KVTLVEKA T0334 46 :GVGEATIPNLQTAFFDFLGIPED 1jnrA 59 :AVERSGAVAQGLSAINTYIDLTG T0334 115 :KYHEQIPLSHYWFDRSYRGKTVEP 1jnrA 82 :RSERQNTLEDYVRYVTLDMMGLAR T0334 139 :FDYACYKEPVILD 1jnrA 121 :HLFEKWGLPIWKT T0334 152 :AN 1jnrA 135 :DG T0334 155 :SPRRLDGSKVTNYAWH 1jnrA 137 :KYVREGQWQIMIHGES T0334 172 :DAHLVADFLRRFA 1jnrA 153 :YKPIIAEAAKMAV T0334 186 :EK 1jnrA 166 :GE T0334 191 :R 1jnrA 168 :E T0334 192 :HVED 1jnrA 170 :IYER T0334 196 :RVEHVQRDANG 1jnrA 175 :FIFELLKDNND T0334 207 :NIESVRTA 1jnrA 188 :AVAGAVGF T0334 215 :TGR 1jnrA 198 :REP T0334 218 :VFDADLFVDCSGF 1jnrA 204 :VFKAKAVILATGG T0334 231 :R 1jnrA 367 :V T0334 233 :LLINKAMEEPFLD 1jnrA 370 :ALLWACQNIDPQE T0334 248 :DHLLNDSAV 1jnrA 383 :QPSEAAPAE T0334 271 :PFTS 1jnrA 392 :PYIM T0334 288 :M 1jnrA 397 :S T0334 289 :LGRFGTGYVYSSRFATE 1jnrA 399 :SGEAGFWVCGPEDLMPE T0334 307 :EA 1jnrA 416 :EY T0334 313 :CEMWHLDP 1jnrA 418 :AKLFPLKY T0334 337 :RAWVGNCVSIGTSSCF 1jnrA 428 :MTTVKGLFAIGDCAGA T0334 353 :VEPLESTGIYFVYAALYQLVKHFP 1jnrA 445 :PHKFSSGSFTEGRIAAKAAVRFIL T0334 377 :DKSLNPVLTARFNREIETMFDDTRDF 1jnrA 473 :NPEIDDAVVEELKKKAYAPMERFMQY T0334 424 :LRL 1jnrA 499 :KDL T0334 427 :ADGMQEKIDMYRAGMAINAPAS 1jnrA 515 :WQGLVRLQKIMDEYAAGIATIY T0334 500 :DEVFGAVKDRQRNLLETLPS 1jnrA 540 :EKMLQRALELLAFLKEDLEK Number of specific fragments extracted= 31 number of extra gaps= 0 total=2233 Number of alignments=95 # 1jnrA read from 1jnrA/merged-good-all-a2m # found chain 1jnrA in training set T0334 7 :KILIVGGGTAGWMAASYLGKAL 1jnrA 24 :DILIIGGGFSGCGAAYEAAYWA T0334 29 :QGTADITLLQAPDIPTLGV 1jnrA 47 :LGGLKVTLVEKAAVERSGA T0334 78 :YKVAIKFINW 1jnrA 66 :VAQGLSAINT T0334 94 :TSEARELDGGPDHFYHSFGLLKYHEQIPLSHYWFD 1jnrA 76 :YIDLTGRSERQNTLEDYVRYVTLDMMGLAREDLVA T0334 134 :KTVEPFDYACYKEPVILDANRSPRRLDGSKVTNYAWHF 1jnrA 111 :DYARHVDGTVHLFEKWGLPIWKTPDGKYVREGQWQIMI T0334 172 :DAHLVADFLRRFA 1jnrA 153 :YKPIIAEAAKMAV T0334 191 :RHVEDRVEHVQRDANGN 1jnrA 170 :IYERVFIFELLKDNNDP T0334 208 :IESVRTATGR 1jnrA 192 :AVGFSVREPK T0334 218 :VFDADLFVDCSGFRGL 1jnrA 204 :VFKAKAVILATGGATL T0334 260 :VPHDDDANGVEPFT 1jnrA 220 :LFRPRSTGEAAGRT T0334 338 :AWVGNCVSIGTSSCFVEPLESTG 1jnrA 429 :TTVKGLFAIGDCAGANPHKFSSG T0334 361 :IYFVYAALYQLVKHFP 1jnrA 453 :FTEGRIAAKAAVRFIL T0334 377 :DKSLNPVLTARFNREIETMFDDTRDF 1jnrA 473 :NPEIDDAVVEELKKKAYAPMERFMQY T0334 441 :MAINAPASDDAQLY 1jnrA 499 :KDLSTADDVNPEYI T0334 457 :NFEEEFRNFWNNSNYYCVLAGLGL 1jnrA 513 :LPWQGLVRLQKIMDEYAAGIATIY T0334 481 :V 1jnrA 539 :N T0334 493 :PQATESVDEVFGAVKDRQR 1jnrA 540 :EKMLQRALELLAFLKEDLE Number of specific fragments extracted= 17 number of extra gaps= 0 total=2250 Number of alignments=96 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1an9A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1an9A expands to /projects/compbio/data/pdb/1an9.pdb.gz 1an9A:# T0334 read from 1an9A/merged-good-all-a2m # 1an9A read from 1an9A/merged-good-all-a2m # adding 1an9A to template set # found chain 1an9A in template set Warning: unaligning (T0334)D6 because first residue in template chain is (1an9A)M1 Warning: unaligning (T0334)G30 because of BadResidue code BAD_PEPTIDE in next template residue (1an9A)P29 Warning: unaligning (T0334)T31 because of BadResidue code BAD_PEPTIDE at template residue (1an9A)P29 T0334 7 :KILIVGGGTAGWMAASYLGKALQ 1an9A 2 :RVVVIGAGVIGLSTALCIHERYH T0334 32 :ADITLLQAPDIPTLG 1an9A 30 :LDVKVYADRFTPFTT T0334 47 :VGEATIPN 1an9A 47 :VAAGLWQP T0334 61 :DFLGIPEDEWMRECNASYKVAI 1an9A 55 :YTSEPSNPQEANWNQQTFNYLL T0334 96 :EARELDGGP 1an9A 77 :SHIGSPNAA T0334 105 :DHFYHSFGLLKYHEQ 1an9A 93 :SGYNLFREAVPDPYW T0334 141 :YACYKEPVI 1an9A 108 :KDMVLGFRK T0334 154 :RSPRRLDGSKVTNYAW 1an9A 117 :LTPRELDMFPDYRYGW T0334 170 :HFDAHLVADFLRRFA 1an9A 138 :ILEGRKYLQWLTERL T0334 186 :EKLGVRHVEDRVEH 1an9A 153 :TERGVKFFLRKVES T0334 205 :NG 1an9A 173 :GG T0334 221 :ADLFVDCSGFRGLLI 1an9A 175 :ADVIINCTGVWAGVL T0334 244 :LDMSDH 1an9A 190 :QPDPLL T0334 250 :LLNDSAVATQV 1an9A 197 :PGRGQIIKVDA T0334 267 :NGVEPFTSAIAMKS 1an9A 208 :PWLKNFIITHDLER T0334 281 :GWTWKIPMLGRFGTGYVYSSRFATE 1an9A 225 :NSPYIIPGLQAVTLGGTFQVGNWNE T0334 306 :DEAVREFCEMW 1an9A 253 :IQDHNTIWEGC T0334 317 :HLDPETQPLNRIRFRVG 1an9A 265 :RLEPTLKDAKIVGEYTG T0334 334 :RNRRAWVG 1an9A 292 :EREQLRFG T0334 342 :NCVSIG 1an9A 302 :NTEVIH T0334 353 :VEPLESTGIYFVYAALYQLVKHF 1an9A 308 :NYGHGGYGLTIHWGCALEVAKLF T0334 382 :PVLTAR 1an9A 331 :GKVLEE Number of specific fragments extracted= 22 number of extra gaps= 1 total=2272 Number of alignments=97 # 1an9A read from 1an9A/merged-good-all-a2m # found chain 1an9A in template set Warning: unaligning (T0334)Q29 because of BadResidue code BAD_PEPTIDE in next template residue (1an9A)P29 Warning: unaligning (T0334)G30 because of BadResidue code BAD_PEPTIDE at template residue (1an9A)P29 T0334 7 :KILIVGGGTAGWMAASYLGKAL 1an9A 2 :RVVVIGAGVIGLSTALCIHERY T0334 31 :T 1an9A 30 :L T0334 33 :DITLLQAP 1an9A 31 :DVKVYADR T0334 46 :GVGEATIPNLQTAFFDFLGIPED 1an9A 39 :FTPFTTTDVAAGLWQPYTSEPSN T0334 70 :WMREC 1an9A 63 :QEANW T0334 115 :KYHE 1an9A 70 :QTFN T0334 139 :FDYACYKEP 1an9A 74 :YLLSHIGSP T0334 148 :VILD 1an9A 94 :GYNL T0334 152 :ANRSPRRLDGSKVTNYAWHF 1an9A 99 :REAVPDPYWKDMVLGFRKLT T0334 172 :DAHLVADFLRRFA 1an9A 140 :EGRKYLQWLTERL T0334 186 :EKLGVRHVEDRVE 1an9A 153 :TERGVKFFLRKVE T0334 203 :DAN 1an9A 172 :RGG T0334 221 :ADLFVDCSGFRGLLI 1an9A 175 :ADVIINCTGVWAGVL T0334 239 :MEEPFLDM 1an9A 190 :QPDPLLQP T0334 247 :SDHLLND 1an9A 200 :GQIIKVD T0334 280 :SGWTWKIPMLGRFGTGYVYSSRFATE 1an9A 224 :YNSPYIIPGLQAVTLGGTFQVGNWNE T0334 306 :DEAVREFCEM 1an9A 253 :IQDHNTIWEG T0334 316 :WHLDPETQPLNRIRFRVGRNR 1an9A 264 :CRLEPTLKDAKIVGEYTGFRP T0334 337 :RAWVG 1an9A 295 :QLRFG T0334 342 :NCVSIGT 1an9A 302 :NTEVIHN T0334 354 :EPLESTGIYFVYAALYQLVKH 1an9A 309 :YGHGGYGLTIHWGCALEVAKL T0334 434 :IDMYRAG 1an9A 330 :FGKVLEE Number of specific fragments extracted= 22 number of extra gaps= 1 total=2294 Number of alignments=98 # 1an9A read from 1an9A/merged-good-all-a2m # found chain 1an9A in template set Warning: unaligning (T0334)G30 because of BadResidue code BAD_PEPTIDE in next template residue (1an9A)P29 Warning: unaligning (T0334)T31 because of BadResidue code BAD_PEPTIDE at template residue (1an9A)P29 T0334 7 :KILIVGGGTAGWMAASYLGKAL 1an9A 2 :RVVVIGAGVIGLSTALCIHERY T0334 29 :Q 1an9A 27 :L T0334 32 :ADITLLQAPDIPT 1an9A 30 :LDVKVYADRFTPF T0334 48 :GEATI 1an9A 48 :AAGLW T0334 53 :PNLQTAFFDFLGI 1an9A 69 :QQTFNYLLSHIGS T0334 75 :NASYKVAIKFINWRTAGEGTSEARELDGGP 1an9A 87 :MGLTPVSGYNLFREAVPDPYWKDMVLGFRK T0334 154 :RSPRRLDGSKVTNYAW 1an9A 117 :LTPRELDMFPDYRYGW T0334 170 :HFDAHLVADFLRRFATEKLGVRHVED 1an9A 138 :ILEGRKYLQWLTERLTERGVKFFLRK T0334 197 :VEH 1an9A 164 :VES T0334 205 :NG 1an9A 173 :GG T0334 221 :ADLFVDCSGFRGLLI 1an9A 175 :ADVIINCTGVWAGVL T0334 245 :DMSDHLLNDSAVATQVPHD 1an9A 190 :QPDPLLQPGRGQIIKVDAP T0334 268 :GVEPFTSAIAMKSGWT 1an9A 209 :WLKNFIITHDLERGIY T0334 284 :WKIPMLGRFGTGYVYSSRFATED 1an9A 228 :YIIPGLQAVTLGGTFQVGNWNEI T0334 307 :EAVREFCEMW 1an9A 254 :QDHNTIWEGC T0334 317 :HLDPETQPLNRIRFRVGR 1an9A 265 :RLEPTLKDAKIVGEYTGF T0334 335 :NRRAWV 1an9A 293 :REQLRF T0334 341 :GNCVSIGTSSC 1an9A 301 :SNTEVIHNYGH T0334 357 :ESTGIYFVYAALYQLVKHFP 1an9A 312 :GGYGLTIHWGCALEVAKLFG Number of specific fragments extracted= 19 number of extra gaps= 1 total=2313 Number of alignments=99 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1chuA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1chuA expands to /projects/compbio/data/pdb/1chu.pdb.gz 1chuA:# T0334 read from 1chuA/merged-good-all-a2m # 1chuA read from 1chuA/merged-good-all-a2m # adding 1chuA to template set # found chain 1chuA in template set Warning: unaligning (T0334)P40 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)P40 Warning: unaligning (T0334)D41 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)P40 Warning: unaligning (T0334)P43 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)E43 Warning: unaligning (T0334)T44 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)E43 Warning: unaligning (T0334)I65 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1chuA)F57 Warning: unaligning (T0334)T89 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)S92 Warning: unaligning (T0334)A90 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)S92 Warning: unaligning (T0334)R132 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1chuA)T142 Warning: unaligning (T0334)V193 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)E158 Warning: unaligning (T0334)E194 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)E158 Warning: unaligning (T0334)G290 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)G274 Warning: unaligning (T0334)R291 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)G274 Warning: unaligning (T0334)S300 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)H315 Warning: unaligning (T0334)R301 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)H315 Warning: unaligning (T0334)A303 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)A318 Warning: unaligning (T0334)T304 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)A318 Warning: unaligning (T0334)E357 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)S389 Warning: unaligning (T0334)S358 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)S389 Warning: unaligning (T0334)T516 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1chuA)F481 Warning: unaligning (T0334)L517 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1chuA)F481 T0334 5 :IDKILIVGGGTAGWMAASYLG 1chuA 8 :SCDVLIIGSGAAGLSLALRLA T0334 30 :GTADITLLQA 1chuA 29 :DQHQVIVLSK T0334 42 :I 1chuA 41 :V T0334 66 :PEDE 1chuA 58 :DETD T0334 70 :WMRECNASYK 1chuA 63 :IDSHVEDTLI T0334 80 :VAIKFINWR 1chuA 82 :AVEFVASNA T0334 91 :G 1chuA 93 :C T0334 123 :SHYWFDRSY 1chuA 94 :VQWLIDQGV T0334 183 :FATEKLGVRH 1chuA 147 :KALNHPNIRV T0334 195 :D 1chuA 159 :R T0334 196 :RVEHVQR 1chuA 161 :NAVDLIV T0334 203 :DANGNIESVR 1chuA 174 :PGTRRVVGAW T0334 213 :TATG 1chuA 186 :NRNK T0334 217 :RVFDADLFVDCSGFRGLL 1chuA 193 :ETCHAKAVVLATGGASKV T0334 236 :NKA 1chuA 211 :YQY T0334 239 :MEEPFLDMSDHLLNDSAV 1chuA 231 :AGCRVANLEFNQFHPTAL T0334 261 :PHDDDANGVEPFTSA 1chuA 249 :YHPQARNFLLTEALR T0334 279 :KSG 1chuA 264 :GEG T0334 284 :WKIPML 1chuA 267 :AYLKRP T0334 292 :FGT 1chuA 276 :RFM T0334 295 :GYVYS 1chuA 309 :MFLDI T0334 302 :F 1chuA 316 :K T0334 305 :E 1chuA 319 :D T0334 306 :DEAVREFCEM 1chuA 326 :PMIYEKLLGL T0334 317 :HLDPETQPLNRIRFRVG 1chuA 336 :GIDLTQEPVPIVPAAHY T0334 339 :WVGNCVSIG 1chuA 366 :DVEGLYAIG T0334 348 :TSSCFVEPL 1chuA 379 :TGLHGANRM T0334 359 :TGIYFVYAALYQLVKHFPD 1chuA 390 :NSLLECLVYGWSAAEDITR T0334 378 :KSLNPVLTARFNREIETMFDDTRDF 1chuA 426 :RVENPDERVVIQHNWHELRLFMWDY T0334 442 :AINA 1chuA 452 :GIVR T0334 492 :MPQATESVDEVFGAVKDRQRNLLE 1chuA 456 :TTKRLERALRRITMLQQEIDEYYA T0334 518 :PSLHEFLRQQ 1chuA 482 :RVSNNLLELR Number of specific fragments extracted= 32 number of extra gaps= 9 total=2345 Number of alignments=100 # 1chuA read from 1chuA/merged-good-all-a2m # found chain 1chuA in template set Warning: unaligning (T0334)S2 because first residue in template chain is (1chuA)N2 Warning: unaligning (T0334)P40 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)P40 Warning: unaligning (T0334)G46 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)P40 Warning: unaligning (T0334)G48 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)E43 Warning: unaligning (T0334)E49 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)E43 Warning: unaligning (T0334)L63 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1chuA)F57 Warning: unaligning (T0334)E118 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)S92 Warning: unaligning (T0334)Q119 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)S92 Warning: unaligning (T0334)P147 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1chuA)T142 Warning: unaligning (T0334)D172 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)L144 Warning: unaligning (T0334)V193 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)E158 Warning: unaligning (T0334)E194 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)E158 Warning: unaligning (T0334)M288 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)G274 Warning: unaligning (T0334)L289 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)G274 Warning: unaligning (T0334)S300 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)H315 Warning: unaligning (T0334)R301 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)H315 Warning: unaligning (T0334)A303 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)A318 Warning: unaligning (T0334)T304 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)A318 Warning: unaligning (T0334)E357 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)S389 Warning: unaligning (T0334)S358 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)S389 Warning: unaligning (T0334)T516 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1chuA)F481 Warning: unaligning (T0334)L517 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1chuA)F481 T0334 3 :GKID 1chuA 3 :TLPE T0334 7 :KILIVGGGTAGWMAASYLG 1chuA 10 :DVLIIGSGAAGLSLALRLA T0334 29 :QGT 1chuA 29 :DQH T0334 33 :DITLLQA 1chuA 32 :QVIVLSK T0334 47 :V 1chuA 41 :V T0334 64 :GIPED 1chuA 58 :DETDS T0334 69 :EWMRECNAS 1chuA 65 :SHVEDTLIA T0334 104 :PDHFYHSFGLL 1chuA 74 :GAGICDRHAVE T0334 115 :KYH 1chuA 88 :SNA T0334 120 :IP 1chuA 93 :CV T0334 139 :FDYACYKE 1chuA 95 :QWLIDQGV T0334 173 :AHLVA 1chuA 145 :VSKAL T0334 186 :EKLGVRH 1chuA 150 :NHPNIRV T0334 195 :D 1chuA 159 :R T0334 196 :RVEHVQR 1chuA 161 :NAVDLIV T0334 203 :DANG 1chuA 173 :LPGT T0334 207 :NIESVRTA 1chuA 178 :RVVGAWVW T0334 216 :GR 1chuA 190 :ET T0334 218 :VFDADLFVDCSGFRGLLINKAMEEPFLDM 1chuA 194 :TCHAKAVVLATGGASKVYQYTTNPDISSG T0334 247 :SDHLLNDSAV 1chuA 239 :EFNQFHPTAL T0334 264 :DDANG 1chuA 249 :YHPQA T0334 271 :PFTS 1chuA 254 :RNFL T0334 275 :AIAMKSGWTWKIP 1chuA 260 :EALRGEGAYLKRP T0334 290 :GR 1chuA 275 :TR T0334 292 :FGTGYVYS 1chuA 306 :ADCMFLDI T0334 302 :F 1chuA 316 :K T0334 305 :E 1chuA 319 :D T0334 306 :DEAVREFCEM 1chuA 326 :PMIYEKLLGL T0334 317 :HLDPETQPLNRIRFRVGRNR 1chuA 336 :GIDLTQEPVPIVPAAHYTCG T0334 337 :RAWVGNCVSIGTSSCF 1chuA 364 :RTDVEGLYAIGEVSYT T0334 353 :VEP 1chuA 381 :LHG T0334 356 :L 1chuA 387 :M T0334 359 :TGIYFVYAALYQLVKHFP 1chuA 390 :NSLLECLVYGWSAAEDIT T0334 377 :DKSLNPVLTARFNREIETMFDDTRDF 1chuA 425 :SRVENPDERVVIQHNWHELRLFMWDY T0334 478 :LG 1chuA 451 :VG T0334 489 :LAHMPQATESVDEVFGAVKDRQRNLLE 1chuA 453 :IVRTTKRLERALRRITMLQQEIDEYYA T0334 518 :PSLHEFLR 1chuA 482 :RVSNNLLE Number of specific fragments extracted= 37 number of extra gaps= 10 total=2382 Number of alignments=101 # 1chuA read from 1chuA/merged-good-all-a2m # found chain 1chuA in template set Warning: unaligning (T0334)P40 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)P40 Warning: unaligning (T0334)D41 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)P40 Warning: unaligning (T0334)P43 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)E43 Warning: unaligning (T0334)T44 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)E43 Warning: unaligning (T0334)I65 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1chuA)F57 Warning: unaligning (T0334)D140 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)S92 Warning: unaligning (T0334)Y141 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)S92 Warning: unaligning (T0334)P156 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1chuA)T142 Warning: unaligning (T0334)H192 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)E158 Warning: unaligning (T0334)V193 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)E158 Warning: unaligning (T0334)I276 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)A228 Warning: unaligning (T0334)A277 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)A228 Warning: unaligning (T0334)E357 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)S389 Warning: unaligning (T0334)S358 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)S389 Warning: unaligning (T0334)S379 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1chuA)H414 Warning: unaligning (T0334)P411 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1chuA)H414 Warning: unaligning (T0334)T413 because of BadResidue code BAD_PEPTIDE in next template residue (1chuA)S417 Warning: unaligning (T0334)D414 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)S417 Warning: unaligning (T0334)T415 because of BadResidue code BAD_PEPTIDE at template residue (1chuA)T418 Warning: unaligning (T0334)T516 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1chuA)F481 T0334 5 :IDKILIVGGGTAGWMAASYLG 1chuA 8 :SCDVLIIGSGAAGLSLALRLA T0334 30 :GTADITLLQA 1chuA 29 :DQHQVIVLSK T0334 42 :I 1chuA 41 :V T0334 66 :PEDEWMREC 1chuA 58 :DETDSIDSH T0334 114 :LKYHEQIPLSHYWFDR 1chuA 68 :EDTLIAGAGICDRHAV T0334 133 :GKTVEPF 1chuA 84 :EFVASNA T0334 142 :ACYKEPVIL 1chuA 93 :CVQWLIDQG T0334 155 :S 1chuA 102 :V T0334 183 :FATEK 1chuA 147 :KALNH T0334 188 :LGVR 1chuA 153 :NIRV T0334 194 :EDRVEHVQRD 1chuA 159 :RTNAVDLIVS T0334 204 :ANGN 1chuA 175 :GTRR T0334 208 :IESVRTATGR 1chuA 181 :GAWVWNRNKE T0334 218 :VFDADLFVDCSGFRG 1chuA 194 :TCHAKAVVLATGGAS T0334 248 :DHL 1chuA 209 :KVY T0334 261 :PHDDDANGVEPFTSA 1chuA 212 :QYTTNPDISSGDGIA T0334 278 :MKSGWTWKIPMLGRFGTGYVYSSR 1chuA 229 :WRAGCRVANLEFNQFHPTALYHPQ T0334 302 :FATED 1chuA 257 :LLTEA T0334 307 :EAVREFCEMWHLDPETQ 1chuA 323 :QHFPMIYEKLLGLGIDL T0334 324 :PLNRIRFRVGRN 1chuA 342 :EPVPIVPAAHYT T0334 338 :AWV 1chuA 354 :CGG T0334 341 :GNCVSIGTSS 1chuA 368 :EGLYAIGEVS T0334 351 :CFVEPL 1chuA 382 :HGANRM T0334 359 :TGIYFVYAALYQLVKHFPDK 1chuA 390 :NSLLECLVYGWSAAEDITRR T0334 412 :R 1chuA 415 :D T0334 416 :PFWRANKELRLADGMQEKIDMYRA 1chuA 419 :LPPWDESRVENPDERVVIQHNWHE T0334 458 :FEEEFRNFWNNSNY 1chuA 443 :LRLFMWDYVGIVRT T0334 493 :PQATESVDEVFGAVKDRQRNLLE 1chuA 457 :TKRLERALRRITMLQQEIDEYYA Number of specific fragments extracted= 28 number of extra gaps= 8 total=2410 Number of alignments=102 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2bs3A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2bs3A expands to /projects/compbio/data/pdb/2bs3.pdb.gz 2bs3A:Skipped atom 10, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 12, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 14, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 16, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 18, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 20, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 22, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 24, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 26, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 35, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 37, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 39, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 41, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 43, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 45, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 47, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 49, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 51, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 867, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 869, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 871, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 873, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 875, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 877, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 879, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 881, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 883, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 885, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 887, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 1072, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 1074, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 1076, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 1078, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 1080, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 1082, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 1084, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 1086, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 1088, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 1090, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 1092, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 2077, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 2079, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 2081, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 2083, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 2085, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 2087, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 2089, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 2091, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 2093, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 2095, because occupancy 0.500 <= existing 0.500 in 2bs3A Skipped atom 2097, because occupancy 0.500 <= existing 0.500 in 2bs3A # T0334 read from 2bs3A/merged-good-all-a2m # 2bs3A read from 2bs3A/merged-good-all-a2m # adding 2bs3A to template set # found chain 2bs3A in template set T0334 5 :IDKILIVGGGTAGWMAASYLGK 2bs3A 5 :YCDSLVIGGGLAGLRAAVATQQ T0334 30 :GTADITLLQAPDI 2bs3A 27 :KGLSTIVLSLIPV T0334 43 :PTLGVGEATIPN 2bs3A 47 :AQGGMQASLGNS T0334 60 :FDFLGIPEDEWMRECNAS 2bs3A 59 :KMSDGDNEDLHFMDTVKG T0334 78 :YKVAIKFINWRTAG 2bs3A 83 :QKVARMFVNTAPKA T0334 123 :SHYWFDRSYR 2bs3A 97 :IRELAAWGVP T0334 136 :VEPFDYACYKEPVILD 2bs3A 107 :WTRIHKGDRMAIINAQ T0334 152 :ANRSPRRLDGSKVTNYAW 2bs3A 126 :ITEEDFRHGLIHSRDFGG T0334 170 :HFDAHLVADFLRRFAT 2bs3A 154 :DATGHTMLFAVANECL T0334 187 :KLGVRHVED 2bs3A 170 :KLGVSIQDR T0334 196 :RVEHVQR 2bs3A 180 :EAIALIH T0334 204 :ANGNIESVR 2bs3A 187 :QDGKCYGAV T0334 213 :TATG 2bs3A 199 :LVTG T0334 217 :RVFDADLFVDCSGFRGLL 2bs3A 205 :IAYVAKGTLIATGGYGRI T0334 239 :M 2bs3A 241 :L T0334 246 :MSDH 2bs3A 242 :ETGI T0334 250 :LLNDSAVATQV 2bs3A 248 :LGNMEAVQFHP T0334 275 :AIAMKSGWTW 2bs3A 259 :TPLFPSGILL T0334 285 :KIPMLGRFGT 2bs3A 278 :ILRDVDGHRF T0334 295 :GYVYSSRFATE 2bs3A 325 :HLWLDISILGR T0334 306 :DEAVREFCEMWHLDPETQPLNRIRFRVGRNRRA 2bs3A 343 :RDVQEICEYFAGIDPAEKWAPVLPMQHYSMGGI T0334 339 :WVGNCVSIGTSS 2bs3A 384 :KLKGLFSAGEAA T0334 351 :CFVEPLESTGIYFVYAALYQLVKHFPD 2bs3A 400 :HGFNRLGGNSVSEAVVAGMIVGEYFAE T0334 378 :KSLNPVLTARFNREIETMFD 2bs3A 437 :TKTLEKFVKGQEAYMKSLVE T0334 410 :SPRT 2bs3A 457 :SKGT T0334 424 :LRLADGMQEKIDMYRAGMAINAP 2bs3A 461 :EDVFKIKNRMKDVMDDNVGIFRD T0334 448 :SDDAQLYYGNFEEEFRNFWN 2bs3A 484 :GPHLEKAVKELEELYKKSKN T0334 471 :YYCVLAG 2bs3A 530 :ALCVAKG T0334 478 :LGLVPDA 2bs3A 545 :GAHNRED T0334 488 :RLAHM 2bs3A 584 :DVNEM T0334 493 :PQ 2bs3A 600 :KG T0334 496 :TESVDEVFGAVKDRQRNLLETLPSLHEFLRQQHG 2bs3A 606 :NPLSVKRQEEIDKIQSELEAAGKDRHAIQEALMP Number of specific fragments extracted= 32 number of extra gaps= 0 total=2442 Number of alignments=103 # 2bs3A read from 2bs3A/merged-good-all-a2m # found chain 2bs3A in template set Warning: unaligning (T0334)I5 because first residue in template chain is (2bs3A)M1 Warning: unaligning (T0334)F352 because of BadResidue code BAD_PEPTIDE in next template residue (2bs3A)D398 T0334 6 :D 2bs3A 2 :K T0334 7 :KILIVGGGTAGWMAASYLGK 2bs3A 7 :DSLVIGGGLAGLRAAVATQQ T0334 29 :QGT 2bs3A 27 :KGL T0334 33 :DITLLQAP 2bs3A 30 :STIVLSLI T0334 46 :GVGEATIPNLQTAFFDFLGIPED 2bs3A 38 :PVKRSHSAAAQGGMQASLGNSKM T0334 100 :LDG 2bs3A 61 :SDG T0334 115 :KYHE 2bs3A 65 :NEDL T0334 122 :LSHYWFDRSYRGKTV 2bs3A 69 :HFMDTVKGSDWGCDQ T0334 139 :FDYACYKEPVILD 2bs3A 98 :RELAAWGVPWTRI T0334 152 :ANRSPRRLDGSKVTNYAWHF 2bs3A 112 :KGDRMAIINAQKTTITEEDF T0334 172 :DAHLVADFLRRFA 2bs3A 156 :TGHTMLFAVANEC T0334 186 :EKLGVRHVED 2bs3A 169 :LKLGVSIQDR T0334 196 :RVEHVQRDAN 2bs3A 180 :EAIALIHQDG T0334 207 :NIESVRTAT 2bs3A 190 :KCYGAVVRD T0334 216 :GR 2bs3A 202 :GD T0334 218 :VFDADLFVDCSGFRGLLINKAMEEPFLDM 2bs3A 206 :AYVAKGTLIATGGYGRIYKNTTNAVVCEG T0334 247 :SDHLLNDSAVATQVPHDDDANGVEPFTSAIAMKSG 2bs3A 243 :TGIAQLGNMEAVQFHPTPLFPSGILLTEGCRGDGG T0334 285 :KIPM 2bs3A 278 :ILRD T0334 289 :LGR 2bs3A 283 :DGH T0334 292 :FGTGYVYSSRFATE 2bs3A 323 :GQHLWLDISILGRK T0334 306 :DEAVREFCEMWHLDPETQPLNRIRFRVGRNRRAWVG 2bs3A 343 :RDVQEICEYFAGIDPAEKWAPVLPMQHYSMGGIRTD T0334 342 :NCVSIGTSSC 2bs3A 387 :GLFSAGEAAC T0334 353 :VEP 2bs3A 399 :MHG T0334 356 :LESTGIYFVYAALYQLVKHFP 2bs3A 405 :LGGNSVSEAVVAGMIVGEYFA T0334 377 :DKSLNPVLTARFNREIETMF 2bs3A 436 :ETKTLEKFVKGQEAYMKSLV T0334 397 :DDTRDFIQAHFYFS 2bs3A 465 :KIKNRMKDVMDDNV T0334 411 :PRTDTP 2bs3A 480 :IFRDGP T0334 417 :FWRA 2bs3A 487 :LEKA T0334 427 :ADGMQEKIDMYRAG 2bs3A 491 :VKELEELYKKSKNV T0334 450 :DAQLYYGNFEEEFRNFWNNSNYYCVLAG 2bs3A 505 :GIKNKRLHANPELEEAYRVPMMLKVALC T0334 478 :LGL 2bs3A 583 :LDV T0334 481 :VPDAPSPRLAHMPQ 2bs3A 587 :EMEIAPGYRGYGAK T0334 495 :ATESVDEVFGAVKDRQRNLLETLPSLHEFLRQQHG 2bs3A 605 :ENPLSVKRQEEIDKIQSELEAAGKDRHAIQEALMP Number of specific fragments extracted= 33 number of extra gaps= 1 total=2475 Number of alignments=104 # 2bs3A read from 2bs3A/merged-good-all-a2m # found chain 2bs3A in template set Warning: unaligning (T0334)F352 because of BadResidue code BAD_PEPTIDE in next template residue (2bs3A)D398 T0334 4 :KIDKILIVGGGTAGWMAASYLGK 2bs3A 4 :QYCDSLVIGGGLAGLRAAVATQQ T0334 30 :GTADITLLQAPDIPTLGVGEATI 2bs3A 27 :KGLSTIVLSLIPVKRSHSAAAQG T0334 53 :PNLQTAF 2bs3A 68 :LHFMDTV T0334 61 :DFLGIP 2bs3A 75 :KGSDWG T0334 68 :DEWMRECNAS 2bs3A 97 :IRELAAWGVP T0334 87 :WRTAGEGTSEARELDGGPD 2bs3A 107 :WTRIHKGDRMAIINAQKTT T0334 150 :LDANRSPRRLDGSKVTNYAWHF 2bs3A 130 :DFRHGLIHSRDFGGTKKWRTCY T0334 172 :DAHLVADFLRRFATEKLGVRHVEDRVEHVQRDANGN 2bs3A 156 :TGHTMLFAVANECLKLGVSIQDRKEAIALIHQDGKC T0334 208 :IESVRTATGR 2bs3A 194 :AVVRDLVTGD T0334 218 :VFDADLFVDCSGFRG 2bs3A 206 :AYVAKGTLIATGGYG T0334 248 :DHLLND 2bs3A 221 :RIYKNT T0334 264 :DDANGVEPFTSAIAMKSG 2bs3A 227 :TNAVVCEGTGTAIALETG T0334 307 :EAVREFCEMWHLDP 2bs3A 344 :DVQEICEYFAGIDP T0334 322 :TQPLNRIRF 2bs3A 358 :AEKWAPVLP T0334 331 :RVGRNRRAWVGNCVSIGTSSC 2bs3A 376 :RTDYRGEAKLKGLFSAGEAAC T0334 353 :VEPLESTGIYFVYAALYQLVKHFP 2bs3A 402 :FNRLGGNSVSEAVVAGMIVGEYFA T0334 377 :DKSLNPVLTARFNREIETMFD 2bs3A 436 :ETKTLEKFVKGQEAYMKSLVE T0334 410 :SPRTD 2bs3A 457 :SKGTE T0334 425 :RLADGMQEKIDMYRAGMAI 2bs3A 462 :DVFKIKNRMKDVMDDNVGI T0334 479 :GLVPDAPSPRLAHMPQATESV 2bs3A 481 :FRDGPHLEKAVKELEELYKKS Number of specific fragments extracted= 20 number of extra gaps= 1 total=2495 Number of alignments=105 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1b5qA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1b5qA expands to /projects/compbio/data/pdb/1b5q.pdb.gz 1b5qA:# T0334 read from 1b5qA/merged-good-all-a2m # 1b5qA read from 1b5qA/merged-good-all-a2m # adding 1b5qA to template set # found chain 1b5qA in template set Warning: unaligning (T0334)T185 because of BadResidue code BAD_PEPTIDE in next template residue (1b5qA)Q215 Warning: unaligning (T0334)E186 because of BadResidue code BAD_PEPTIDE at template residue (1b5qA)Q215 Warning: unaligning (T0334)A238 because of BadResidue code BAD_PEPTIDE in next template residue (1b5qA)D274 Warning: unaligning (T0334)L380 because last residue in template chain is (1b5qA)C463 T0334 7 :KILIVGGGTAGWMAASYLGK 1b5qA 6 :RVIVVGAGMSGISAAKRLSE T0334 30 :GTA 1b5qA 26 :AGI T0334 33 :DITLLQAP 1b5qA 30 :DLLILEAT T0334 41 :DI 1b5qA 39 :HI T0334 44 :T 1b5qA 67 :G T0334 53 :PNLQTAF 1b5qA 70 :NPIWPIV T0334 65 :IPEDEWMRECNASYKVAIKFINWRTAGE 1b5qA 104 :YDEDYVQKRIELADSVEEMGEKLSATLH T0334 114 :LKYHEQIPLSHYWFDRSYRGKTV 1b5qA 132 :ASGRDDMSILAMQRLNEHQPNGP T0334 150 :LD 1b5qA 155 :AT T0334 152 :ANRSPRR 1b5qA 171 :FAEPPRV T0334 163 :KVTNYAW 1b5qA 178 :TSLQNTV T0334 170 :HFDAHLVADFLRRFA 1b5qA 199 :VADQRGYEAVVYYLA T0334 187 :KLGV 1b5qA 216 :YLKT T0334 192 :HVED 1b5qA 231 :LQLN T0334 196 :RVEHVQRDANG 1b5qA 236 :VVREIKYSPGG T0334 209 :ESVRTATGRVFDADLFVDCSG 1b5qA 247 :VTVKTEDNSVYSADYVMVSAS T0334 231 :RGL 1b5qA 268 :LGV T0334 236 :NK 1b5qA 271 :LQ T0334 239 :MEEPFLDMSDH 1b5qA 278 :FKPKLPTWKVR T0334 250 :LLNDSAVATQVPHDDDANGVEPFTSAIAMKS 1b5qA 295 :MAVYTKIFLKFPRKFWPEGKGREFFLYASSR T0334 281 :GWTWKIPM 1b5qA 329 :YGVWQEFE T0334 289 :LGR 1b5qA 340 :PDA T0334 292 :FGTGY 1b5qA 344 :VLLVT T0334 298 :YSSRFATE 1b5qA 349 :VTDEESRR T0334 306 :DEAVREFCEMW 1b5qA 363 :EQTKAEIMQVL T0334 317 :HLDPETQ 1b5qA 375 :KMFPGKD T0334 324 :PLNRIRFRVGRNRRA 1b5qA 384 :DATDILVPRWWSDRF T0334 339 :WVGNCVSIG 1b5qA 421 :PVGRVYFTG T0334 350 :SCFVEPLEST 1b5qA 430 :EHTSEHYNGY T0334 361 :IYFVYAALYQLVKHFPD 1b5qA 440 :VHGAYLSGIDSAEILIN T0334 378 :KS 1b5qA 461 :KM Number of specific fragments extracted= 31 number of extra gaps= 2 total=2526 Number of alignments=106 # 1b5qA read from 1b5qA/merged-good-all-a2m # found chain 1b5qA in template set Warning: unaligning (T0334)A238 because of BadResidue code BAD_PEPTIDE in next template residue (1b5qA)D274 Warning: unaligning (T0334)M239 because of BadResidue code BAD_PEPTIDE at template residue (1b5qA)D274 Warning: unaligning (T0334)F375 because of BadResidue code BAD_PEPTIDE in next template residue (1b5qA)Q459 Warning: unaligning (T0334)P376 because of BadResidue code BAD_PEPTIDE at template residue (1b5qA)Q459 Warning: unaligning (T0334)L380 because last residue in template chain is (1b5qA)C463 T0334 7 :KILIVGGGTAGWMAASYLGK 1b5qA 6 :RVIVVGAGMSGISAAKRLSE T0334 29 :QGTADITLLQAPD 1b5qA 26 :AGITDLLILEATD T0334 42 :IPTL 1b5qA 40 :IGGR T0334 46 :GVGEATIPNLQTAFFDFLGIPED 1b5qA 83 :RNFRSDFDYLAQNVYKEDGGVYD T0334 69 :EWMR 1b5qA 111 :KRIE T0334 172 :DAHLVADFLRRFA 1b5qA 115 :LADSVEEMGEKLS T0334 186 :EKL 1b5qA 128 :ATL T0334 189 :GVR 1b5qA 225 :KIV T0334 192 :HVED 1b5qA 231 :LQLN T0334 196 :RVEHVQRDANG 1b5qA 236 :VVREIKYSPGG T0334 209 :ESVRTATGRVFDADLFVDCSG 1b5qA 247 :VTVKTEDNSVYSADYVMVSAS T0334 233 :LLINK 1b5qA 268 :LGVLQ T0334 240 :EEPFLDM 1b5qA 275 :LIQFKPK T0334 247 :SDHLLNDSAVATQVP 1b5qA 292 :QFDMAVYTKIFLKFP T0334 262 :HDDDANGVEPFTSAIAMK 1b5qA 308 :KFWPEGKGREFFLYASSR T0334 280 :SGWTWKIPM 1b5qA 328 :YYGVWQEFE T0334 292 :FGTGYVYSSRFATE 1b5qA 343 :NVLLVTVTDEESRR T0334 306 :DEAVREFCEM 1b5qA 363 :EQTKAEIMQV T0334 316 :WHLDP 1b5qA 374 :RKMFP T0334 321 :ETQPLNRIRF 1b5qA 381 :DVPDATDILV T0334 331 :RVGRNRRAWVG 1b5qA 399 :YKGTFSNWPVG T0334 342 :NCVSIGTSSCF 1b5qA 424 :RVYFTGEHTSE T0334 353 :VEPLESTGIYFVYAALYQLVKH 1b5qA 436 :YNGYVHGAYLSGIDSAEILINC T0334 377 :DKS 1b5qA 460 :KKM Number of specific fragments extracted= 24 number of extra gaps= 2 total=2550 Number of alignments=107 # 1b5qA read from 1b5qA/merged-good-all-a2m # found chain 1b5qA in template set Warning: unaligning (T0334)T185 because of BadResidue code BAD_PEPTIDE in next template residue (1b5qA)Q215 Warning: unaligning (T0334)E186 because of BadResidue code BAD_PEPTIDE at template residue (1b5qA)Q215 Warning: unaligning (T0334)A238 because of BadResidue code BAD_PEPTIDE in next template residue (1b5qA)D274 Warning: unaligning (T0334)M239 because of BadResidue code BAD_PEPTIDE at template residue (1b5qA)D274 Warning: unaligning (T0334)F375 because of BadResidue code BAD_PEPTIDE in next template residue (1b5qA)Q459 Warning: unaligning (T0334)P376 because of BadResidue code BAD_PEPTIDE at template residue (1b5qA)Q459 Warning: unaligning (T0334)L380 because last residue in template chain is (1b5qA)C463 T0334 7 :KILIVGGGTAGWMAASYLGK 1b5qA 6 :RVIVVGAGMSGISAAKRLSE T0334 30 :GTAD 1b5qA 26 :AGIT T0334 34 :ITLLQAPDI 1b5qA 31 :LLILEATDH T0334 47 :VGEATI 1b5qA 40 :IGGRMH T0334 74 :CNASYKVAIKFINWRTAGE 1b5qA 50 :AGINVELGANWVEGVNGGK T0334 93 :GTSEARELDGGPDHFYHSFGLLKYHEQIPLSHYWFDRSYRGKTVEP 1b5qA 92 :LAQNVYKEDGGVYDEDYVQKRIELADSVEEMGEKLSATLHASGRDD T0334 139 :FDYACYKEPVILDANRSPR 1b5qA 140 :ILAMQRLNEHQPNGPATPV T0334 158 :RLDGSKVTNYAWHFDAHLVA 1b5qA 171 :FAEPPRVTSLQNTVPLATFS T0334 178 :DFLRRFA 1b5qA 207 :AVVYYLA T0334 187 :KLGV 1b5qA 216 :YLKT T0334 191 :RHVEDRVEHVQRDANG 1b5qA 231 :LQLNKVVREIKYSPGG T0334 209 :ESVRTATGRVFDADLFVDCSGF 1b5qA 247 :VTVKTEDNSVYSADYVMVSASL T0334 232 :GLL 1b5qA 269 :GVL T0334 237 :K 1b5qA 272 :Q T0334 240 :EEPFLD 1b5qA 275 :LIQFKP T0334 246 :MSDH 1b5qA 282 :LPTW T0334 250 :LLNDSAVATQVPHDDDANGVEPFTSA 1b5qA 296 :AVYTKIFLKFPRKFWPEGKGREFFLY T0334 277 :AM 1b5qA 322 :AS T0334 289 :LGRFGTGYVYSSRFATED 1b5qA 324 :SRRGYYGVWQEFEKQYPD T0334 307 :EAVREFCEMW 1b5qA 364 :QTKAEIMQVL T0334 317 :HLDP 1b5qA 378 :PGKD T0334 322 :TQ 1b5qA 382 :VP T0334 324 :PLNRIRF 1b5qA 387 :DILVPRW T0334 331 :RVGRNRRAW 1b5qA 399 :YKGTFSNWP T0334 341 :GNCVSIG 1b5qA 423 :GRVYFTG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKH 1b5qA 431 :HTSEHYNGYVHGAYLSGIDSAEILINC T0334 377 :DKS 1b5qA 460 :KKM Number of specific fragments extracted= 27 number of extra gaps= 3 total=2577 Number of alignments=108 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1dxlA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334/1dxlA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0334/1dxlA/merged-good-all-a2m.gz for input Trying 1dxlA/merged-good-all-a2m Error: Couldn't open file 1dxlA/merged-good-all-a2m or 1dxlA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1trb/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1trb expands to /projects/compbio/data/pdb/1trb.pdb.gz 1trb:Warning: there is no chain 1trb will retry with 1trbA # T0334 read from 1trb/merged-good-all-a2m # 1trb read from 1trb/merged-good-all-a2m # adding 1trb to template set # found chain 1trb in template set Warning: unaligning (T0334)H317 because of BadResidue code BAD_PEPTIDE in next template residue (1trb)D224 Warning: unaligning (T0334)L318 because of BadResidue code BAD_PEPTIDE at template residue (1trb)D224 Warning: unaligning (T0334)D319 because of BadResidue code BAD_PEPTIDE at template residue (1trb)T225 Warning: unaligning (T0334)P320 because of BadResidue code BAD_PEPTIDE in next template residue (1trb)N227 Warning: unaligning (T0334)E321 because of BadResidue code BAD_PEPTIDE at template residue (1trb)N227 Warning: unaligning (T0334)Q323 because of BadResidue code BAD_PEPTIDE in next template residue (1trb)N230 Warning: unaligning (T0334)P324 because of BadResidue code BAD_PEPTIDE at template residue (1trb)N230 T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1trb 4 :KHSKLLILGSGPAGYTAAVYAAR T0334 30 :GTADITLLQAPDIPT 1trb 27 :ANLQPVLITGMEKGG T0334 53 :P 1trb 42 :Q T0334 141 :YACYKEPVI 1trb 43 :LTTTTEVEN T0334 155 :SPRRLDG 1trb 52 :WPGDPND T0334 171 :FDAHLVADFLRRFA 1trb 59 :LTGPLLMERMHEHA T0334 186 :EKLGVRHVEDRVEHVQRDANG 1trb 73 :TKFETEIIFDHINKVDLQNRP T0334 209 :ESVRTATGR 1trb 94 :FRLNGDNGE T0334 219 :FDADLFVDCSGFR 1trb 103 :YTCDALIIATGAS T0334 236 :NKAMEEP 1trb 116 :ARYLGLP T0334 245 :DMSDH 1trb 127 :FKGRG T0334 250 :LLN 1trb 133 :SAC T0334 272 :FTSA 1trb 140 :GFFY T0334 279 :KSGWTWKIPMLG 1trb 144 :RNQKVAVIGGGN T0334 291 :R 1trb 166 :N T0334 292 :FGTGYVYSSRFATE 1trb 169 :SEVHLIHRRDGFRA T0334 306 :DEAVREFCEMW 1trb 184 :KILIKRLMDKV T0334 322 :T 1trb 228 :S T0334 325 :LNRIRFRVG 1trb 231 :IESLDVAGL T0334 339 :WVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFPD 1trb 277 :SIPGVFAAGDVMDHIYRQAITSAGTGCMAALDAERYLDG Number of specific fragments extracted= 20 number of extra gaps= 2 total=2597 Number of alignments=109 # 1trb read from 1trb/merged-good-all-a2m # found chain 1trb in template set Warning: unaligning (T0334)L188 because of BadResidue code BAD_PEPTIDE in next template residue (1trb)N198 Warning: unaligning (T0334)G189 because of BadResidue code BAD_PEPTIDE at template residue (1trb)N198 Warning: unaligning (T0334)A214 because of BadResidue code BAD_PEPTIDE in next template residue (1trb)D224 Warning: unaligning (T0334)T215 because of BadResidue code BAD_PEPTIDE in next template residue (1trb)N227 Warning: unaligning (T0334)G216 because of BadResidue code BAD_PEPTIDE at template residue (1trb)N227 Warning: unaligning (T0334)S379 because last residue in template chain is (1trb)L316 T0334 4 :KID 1trb 2 :TTK T0334 7 :KILIVGGGTAGWMAASYLGK 1trb 7 :KLLILGSGPAGYTAAVYAAR T0334 29 :QGT 1trb 27 :ANL T0334 33 :DITLLQAPD 1trb 30 :QPVLITGME T0334 47 :VGEATIPN 1trb 39 :KGGQLTTT T0334 57 :TAFFDFLGIPED 1trb 47 :TEVENWPGDPND T0334 69 :EWMRECNASYKVAIKFINWRTAGEGTS 1trb 70 :EHATKFETEIIFDHINKVDLQNRPFRL T0334 96 :EARELDGGPDHFYHSFGLLKYHEQIPLSHYWFDRSYRG 1trb 124 :EEAFKGRGVSACATSDGFFYRNQKVAVIGGGNTAVEEA T0334 139 :FDYACYKEPVILD 1trb 162 :LYLSNIASEVHLI T0334 152 :ANRSPR 1trb 176 :RRDGFR T0334 172 :DAHLVADFLRRFA 1trb 182 :AEKILIKRLMDKV T0334 186 :EK 1trb 195 :EN T0334 190 :VRHVED 1trb 199 :IILHTN T0334 196 :RVEHVQRDANG 1trb 206 :TLEEVTGDQMG T0334 208 :IESVRT 1trb 217 :VTGVRL T0334 217 :R 1trb 228 :S T0334 218 :VFDADLFVDCSGFRG 1trb 233 :SLDVAGLFVAIGHSP T0334 233 :LLINKAMEEP 1trb 250 :AIFEGQLELE T0334 247 :SDHLLND 1trb 260 :NGYIKVQ T0334 261 :PHDD 1trb 267 :SGIH T0334 333 :GRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 1trb 271 :GNATQTSIPGVFAAGDVMDHIYRQAITSAGTGCMAALDAERYLD T0334 378 :K 1trb 315 :G Number of specific fragments extracted= 22 number of extra gaps= 3 total=2619 Number of alignments=110 # 1trb read from 1trb/merged-good-all-a2m # found chain 1trb in template set Warning: unaligning (T0334)K378 because last residue in template chain is (1trb)L316 T0334 6 :DKILIVGGGTAGWMAASYLGK 1trb 6 :SKLLILGSGPAGYTAAVYAAR T0334 30 :GTADITLLQAPDI 1trb 27 :ANLQPVLITGMEK T0334 48 :GEA 1trb 40 :GGQ T0334 78 :YKVAIKFINWRTAGEGT 1trb 43 :LTTTTEVENWPGDPNDL T0334 172 :DAHLVADFLRRFATEKLGVRHVE 1trb 60 :TGPLLMERMHEHATKFETEIIFD T0334 196 :RVEHVQRDANG 1trb 83 :HINKVDLQNRP T0334 209 :ESVRT 1trb 94 :FRLNG T0334 215 :TGRVFDADLFVDCSGF 1trb 99 :DNGEYTCDALIIATGA T0334 299 :SSRFATED 1trb 115 :SARYLGLP T0334 327 :RIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFPD 1trb 265 :VQSGIHGNATQTSIPGVFAAGDVMDHIYRQAITSAGTGCMAALDAERYLDG Number of specific fragments extracted= 10 number of extra gaps= 0 total=2629 Number of alignments=111 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1bgj/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1bgj expands to /projects/compbio/data/pdb/1bgj.pdb.gz 1bgj:Warning: there is no chain 1bgj will retry with 1bgjA # T0334 read from 1bgj/merged-good-all-a2m # 1bgj read from 1bgj/merged-good-all-a2m # adding 1bgj to template set # found chain 1bgj in template set Warning: unaligning (T0334)K4 because first residue in template chain is (1bgj)M1 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1bgj 2 :KTQVAIIGAGPSGLLLGQLLHK T0334 30 :GTADITLLQAPDI 1bgj 24 :AGIDNVILERQTP T0334 43 :PTLGVGEATIPNLQTAF 1bgj 40 :LGRIRAGVLEQGMVDLL T0334 61 :DFLGI 1bgj 57 :REAGV T0334 123 :SHYWFDRSYR 1bgj 62 :DRRMARDGLV T0334 139 :FDYAC 1bgj 72 :HEGVE T0334 144 :YKEPVILD 1bgj 80 :AGQRRRID T0334 155 :SPRRLDG 1bgj 88 :LKRLSGG T0334 166 :NYAWHFDAHLVADFLRRFA 1bgj 95 :KTVTVYGQTEVTRDLMEAR T0334 186 :EKLGVRHVED 1bgj 114 :EASGATTVYQ T0334 196 :RVEHVQR 1bgj 125 :AEVRLHD T0334 203 :DANG 1bgj 133 :QGER T0334 209 :ESVRTA 1bgj 137 :PYVTFE T0334 215 :TG 1bgj 144 :DG T0334 217 :RVFDADLFVDCSGFRGLL 1bgj 148 :LRLDCDYIAGCDGFRGIS T0334 236 :NKAMEEPFL 1bgj 166 :RQSIPAERL T0334 245 :DMSDHLLNDSAVAT 1bgj 176 :VFERVYPFGWLGLL T0334 264 :DDANGVEPFTSAIAMKSGWTWKIPMLGR 1bgj 190 :ADTPPVSHELIYANHPRGFALCSQRSAT T0334 292 :FGTGYVYSS 1bgj 219 :SRYYVQVPL T0334 301 :RFATEDEAVREFCEMW 1bgj 232 :EDWSDERFWTELKARL T0334 317 :HL 1bgj 254 :KL T0334 323 :Q 1bgj 256 :V T0334 324 :PLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFPD 1bgj 262 :EKSIAPLRSFVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLLK T0334 378 :KSLNPVLTARFNREIETMFDDTRDFIQAHFYFSPRTD 1bgj 318 :REGRGELLERYSAICLRRIWKAERFSWWMTSVLHRFP T0334 415 :TPFWR 1bgj 357 :DAFSQ T0334 504 :GAVKDRQRNLLETLPSLHEFLRQQH 1bgj 362 :RIQQTELEYYLGSEAGLATIAENYV Number of specific fragments extracted= 26 number of extra gaps= 0 total=2655 Number of alignments=112 # 1bgj read from 1bgj/merged-good-all-a2m # found chain 1bgj in template set Warning: unaligning (T0334)I5 because first residue in template chain is (1bgj)M1 T0334 6 :D 1bgj 2 :K T0334 7 :KILIVGGGTAGWMAASYLGK 1bgj 4 :QVAIIGAGPSGLLLGQLLHK T0334 29 :QGT 1bgj 24 :AGI T0334 33 :DITLLQAPD 1bgj 27 :DNVILERQT T0334 52 :IPNLQTAF 1bgj 36 :PDYVLGRI T0334 61 :DFLGIPED 1bgj 44 :RAGVLEQG T0334 69 :EWMRECNASYKVAIKFINW 1bgj 54 :DLLREAGVDRRMARDGLVH T0334 103 :GPDHFYHSFGLL 1bgj 73 :EGVEIAFAGQRR T0334 115 :KYHE 1bgj 87 :DLKR T0334 152 :ANRSPRRLD 1bgj 92 :SGGKTVTVY T0334 172 :DAHLVADFLRRFA 1bgj 101 :GQTEVTRDLMEAR T0334 186 :EKLGVRHVED 1bgj 114 :EASGATTVYQ T0334 196 :RVEHVQRDANGNIE 1bgj 125 :AEVRLHDLQGERPY T0334 211 :VRTA 1bgj 139 :VTFE T0334 215 :TGR 1bgj 144 :DGE T0334 218 :VFDADLFVDCSGFRGLLI 1bgj 149 :RLDCDYIAGCDGFRGISR T0334 237 :KAMEEPFLDM 1bgj 167 :QSIPAERLKV T0334 247 :SDHLLND 1bgj 178 :ERVYPFG T0334 254 :SAVATQVPHDD 1bgj 186 :LGLLADTPPVS T0334 271 :PFTSAIAMKSGWTWKIPM 1bgj 197 :HELIYANHPRGFALCSQR T0334 289 :LGR 1bgj 216 :ATR T0334 292 :FGTGYVYSSRFATEDEAVREFCEM 1bgj 223 :VQVPLTEKVEDWSDERFWTELKAR T0334 317 :HLDP 1bgj 248 :PAEV T0334 321 :ETQPLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 1bgj 259 :PSLEKSIAPLRSFVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLL T0334 377 :DKSLNPVLTARFNREIETMFDDTRDFIQAHFYFSPRTDTP 1bgj 317 :YREGRGELLERYSAICLRRIWKAERFSWWMTSVLHRFPDT T0334 417 :FWRANKELRL 1bgj 359 :FSQRIQQTEL T0334 427 :ADGMQEKIDMY 1bgj 375 :EAGLATIAENY Number of specific fragments extracted= 27 number of extra gaps= 0 total=2682 Number of alignments=113 # 1bgj read from 1bgj/merged-good-all-a2m # found chain 1bgj in template set T0334 7 :KILIVGGGTAGWMAASYLGK 1bgj 4 :QVAIIGAGPSGLLLGQLLHK T0334 30 :GTADITLLQAPD 1bgj 24 :AGIDNVILERQT T0334 42 :IPTLGVGE 1bgj 40 :LGRIRAGV T0334 51 :TIPNLQTAF 1bgj 48 :LEQGMVDLL T0334 61 :DFLGIP 1bgj 57 :REAGVD T0334 68 :DEWMRECNASYKVAIKF 1bgj 63 :RRMARDGLVHEGVEIAF T0334 90 :AGEGTSEA 1bgj 80 :AGQRRRID T0334 158 :RLDGSKVTN 1bgj 88 :LKRLSGGKT T0334 168 :AWHFDAHLVADFLRRFATEKLGVRHVEDRVEHVQR 1bgj 97 :VTVYGQTEVTRDLMEAREASGATTVYQAAEVRLHD T0334 204 :ANGNIESVRTATGR 1bgj 134 :GERPYVTFERDGER T0334 218 :VFDADLFVDCSGFRGLLIN 1bgj 149 :RLDCDYIAGCDGFRGISRQ T0334 243 :FLDMSDH 1bgj 168 :SIPAERL T0334 250 :LLNDSAVATQV 1bgj 180 :VYPFGWLGLLA T0334 265 :DANGVEPFTSAIAMKSGWTWKIPMLGRFGTGYVYS 1bgj 191 :DTPPVSHELIYANHPRGFALCSQRSATRSRYYVQV T0334 300 :SRFATEDEAVREFCEMW 1bgj 231 :VEDWSDERFWTELKARL T0334 318 :LDPETQPLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 1bgj 256 :VTGPSLEKSIAPLRSFVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLL T0334 377 :DKSLNPVLTARFNREIETMFDDTRDFIQAHFYFSPRT 1bgj 321 :RGELLERYSAICLRRIWKAERFSWWMTSVLHRFPDTD T0334 486 :SPRLAH 1bgj 358 :AFSQRI T0334 506 :VKDRQRNLLETLPSLHEFLRQQ 1bgj 364 :QQTELEYYLGSEAGLATIAENY Number of specific fragments extracted= 19 number of extra gaps= 0 total=2701 Number of alignments=114 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1el5A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0334 read from 1el5A/merged-good-all-a2m # 1el5A read from 1el5A/merged-good-all-a2m # found chain 1el5A in training set Warning: unaligning (T0334)G3 because first residue in template chain is (1el5A)S1 T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1el5A 2 :THFDVIVVGAGSMGMAAGYQLAK T0334 30 :GTADITLLQAPDI 1el5A 25 :QGVKTLLVDAFDP T0334 43 :PTLGVGE 1el5A 53 :HAYGEGR T0334 57 :TAF 1el5A 60 :EYV T0334 79 :KVAIKFINWRTAGE 1el5A 63 :PLALRSQELWYELE T0334 96 :EARELDGGP 1el5A 77 :KETHHKIFT T0334 105 :DHFYHSFGLLKYHEQIPLSHYWFDRSYR 1el5A 87 :TGVLVFGPKGESAFVAETMEAAKEHSLT T0334 136 :VEPFDYACYKEPVI 1el5A 115 :VDLLEGDEINKRWP T0334 152 :ANRSPRRLDGSKVTNYAW 1el5A 129 :GITVPENYNAIFEPNSGV T0334 171 :FDAHLVADFLRRFA 1el5A 147 :LFSENCIRAYRELA T0334 186 :EKLGVRHVED 1el5A 161 :EARGAKVLTH T0334 196 :RVEHVQRDANG 1el5A 172 :RVEDFDISPDS T0334 209 :ESVRTATG 1el5A 183 :VKIETANG T0334 218 :VFDADLFVDCSGFRGLLINKAMEEPFLDMSDH 1el5A 191 :SYTADKLIVSMGAWNSKLLSKLNLDIPLQPYR T0334 253 :DSAVATQVPHDDDANGVEPFTSAIAMKSGWTWKIPMLGR 1el5A 223 :QVVGFFESDESKYSNDIDFPGFMVEVPNGIYYGFPSFGG T0334 292 :FGTGYVY 1el5A 264 :LKLGYHT T0334 299 :SSRFATE 1el5A 276 :DPDTINR T0334 306 :DEAVREFCEMW 1el5A 288 :PEDESNLRAFL T0334 317 :HLDPET 1el5A 300 :EYMPGA T0334 324 :PLNRIRFRVGRNR 1el5A 306 :NGELKRGAVCMYT T0334 338 :AWVGNCVSIG 1el5A 319 :KTLDEHFIID T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHFPDKSL 1el5A 334 :SNVVIAAGFSGHGFKFSSGVGEVLSQLALTGKT Number of specific fragments extracted= 22 number of extra gaps= 0 total=2723 Number of alignments=115 # 1el5A read from 1el5A/merged-good-all-a2m # found chain 1el5A in training set Warning: unaligning (T0334)K4 because first residue in template chain is (1el5A)S1 T0334 5 :ID 1el5A 2 :TH T0334 7 :KILIVGGGTAGWMAASYLGK 1el5A 5 :DVIVVGAGSMGMAAGYQLAK T0334 29 :QGT 1el5A 25 :QGV T0334 33 :DITLLQAPD 1el5A 28 :KTLLVDAFD T0334 42 :IPTL 1el5A 38 :PHTN T0334 46 :GVGEATIPNLQTAF 1el5A 49 :RIIRHAYGEGREYV T0334 64 :GI 1el5A 63 :PL T0334 69 :EWMRECNAS 1el5A 70 :ELWYELEKE T0334 103 :GPDHFYHSFGLL 1el5A 79 :THHKIFTKTGVL T0334 115 :KYHEQIPLSHYW 1el5A 94 :PKGESAFVAETM T0334 139 :FDYACYKEPVILDANRSPRRLDGSKVTNYAWHF 1el5A 106 :EAAKEHSLTVDLLEGDEINKRWPGITVPENYNA T0334 172 :DAHLVADFLRRFA 1el5A 148 :FSENCIRAYRELA T0334 186 :EKLGVRHVED 1el5A 161 :EARGAKVLTH T0334 196 :RVEHVQRDAN 1el5A 172 :RVEDFDISPD T0334 207 :NIE 1el5A 182 :SVK T0334 211 :VRTATG 1el5A 185 :IETANG T0334 218 :VFDADLFVDCSGFRGLLINKAMEEPFLDM 1el5A 191 :SYTADKLIVSMGAWNSKLLSKLNLDIPLQ T0334 252 :NDSAVATQVPHDDDANGV 1el5A 222 :RQVVGFFESDESKYSNDI T0334 271 :PFTS 1el5A 240 :DFPG T0334 275 :AIAMKSGWTWKIPM 1el5A 245 :MVEVPNGIYYGFPS T0334 289 :LGR 1el5A 260 :GGC T0334 292 :FGTGYVYSSRFATE 1el5A 264 :LKLGYHTFGQKIDP T0334 306 :DEAVREFCEMWHLDPETQPLNRIRFRVGRNR 1el5A 288 :PEDESNLRAFLEEYMPGANGELKRGAVCMYT T0334 338 :AWVGNCVSIG 1el5A 319 :KTLDEHFIID T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHFPDKS 1el5A 334 :SNVVIAAGFSGHGFKFSSGVGEVLSQLALTGK T0334 482 :PDAPSPRLAH 1el5A 366 :TEHDISIFSI Number of specific fragments extracted= 26 number of extra gaps= 0 total=2749 Number of alignments=116 # 1el5A read from 1el5A/merged-good-all-a2m # found chain 1el5A in training set Warning: unaligning (T0334)G3 because first residue in template chain is (1el5A)S1 T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1el5A 2 :THFDVIVVGAGSMGMAAGYQLAK T0334 30 :GTADITLLQAPDIPT 1el5A 25 :QGVKTLLVDAFDPPH T0334 45 :LGVGEATIPNLQTAF 1el5A 55 :YGEGREYVPLALRSQ T0334 61 :DFL 1el5A 70 :ELW T0334 68 :DEWMRECNASYKVAIKFINWRTAGEGTS 1el5A 73 :YELEKETHHKIFTKTGVLVFGPKGESAF T0334 110 :SFGLLKYHEQIPLSHYWFD 1el5A 101 :VAETMEAAKEHSLTVDLLE T0334 146 :EPVILDANRSPRRLDGSKV 1el5A 120 :GDEINKRWPGITVPENYNA T0334 168 :AWHFDAHLVADFLRRFATEKLGVRHVEDRVEHVQRDANG 1el5A 144 :SGVLFSENCIRAYRELAEARGAKVLTHTRVEDFDISPDS T0334 209 :ESVRTAT 1el5A 183 :VKIETAN T0334 217 :RVFDADLFVDCSGFRGL 1el5A 190 :GSYTADKLIVSMGAWNS T0334 237 :KA 1el5A 207 :KL T0334 246 :MSDH 1el5A 209 :LSKL T0334 250 :LLNDSAVATQVPHDDD 1el5A 218 :LQPYRQVVGFFESDES T0334 266 :ANGVEPFTSAIAMKSGWTWKIPMLGRFGTGYVYSS 1el5A 236 :SNDIDFPGFMVEVPNGIYYGFPSFGGCGLKLGYHT T0334 307 :EAVREFCEMWHLDPETQPLNRIRFRVGRNRRAW 1el5A 289 :EDESNLRAFLEEYMPGANGELKRGAVCMYTKTL T0334 340 :VGNCVSIGTSSCFVEP 1el5A 333 :HSNVVIAAGFSGHGFK T0334 357 :ESTG 1el5A 349 :FSSG T0334 367 :ALYQLVKHFPDKS 1el5A 353 :VGEVLSQLALTGK T0334 410 :SPRTDTPFWRANKELR 1el5A 366 :TEHDISIFSINRPALK Number of specific fragments extracted= 19 number of extra gaps= 0 total=2768 Number of alignments=117 # Reading fragments from alignment file # Attempting to read fragment alignments from file 3grs/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0334 read from 3grs/merged-good-all-a2m # 3grs read from 3grs/merged-good-all-a2m # found chain 3grs in training set Warning: unaligning (T0334)P104 because of BadResidue code BAD_PEPTIDE in next template residue (3grs)G92 Warning: unaligning (T0334)D105 because of BadResidue code BAD_PEPTIDE at template residue (3grs)G92 Warning: unaligning (T0334)H106 because of BadResidue code BAD_PEPTIDE at template residue (3grs)K93 Warning: unaligning (T0334)R157 because of BadResidue code CHAIN_BREAK_BEFORE in next template residue (3grs)Q167 Warning: unaligning (T0334)R158 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (3grs)Q167 T0334 5 :IDKILIVGGGTAGWMAASYLGKA 3grs 20 :SYDYLVIGGGSGGLASARRAAEL T0334 31 :TADITLLQAPDIPTLGVGEATIPN 3grs 43 :GARAAVVESHKLGGTCVNVGCVPK T0334 57 :TAF 3grs 67 :KVM T0334 78 :YKVAIKFINWRTA 3grs 70 :WNTAVHSEFMHDH T0334 96 :EARELDGG 3grs 83 :ADYGFPSC T0334 107 :FYHSFGLLKYHEQIPLSHYWFDRSYRGKTVEPFD 3grs 94 :FNWRVIKEKRDAYVSRLNAIYQNNLTKSHIEIIR T0334 144 :YKEPVILD 3grs 128 :GHAAFTSD T0334 152 :ANRSP 3grs 161 :STPHE T0334 159 :LDGS 3grs 168 :IPGA T0334 166 :NYAW 3grs 172 :SLGI T0334 170 :HFD 3grs 225 :SFD T0334 174 :HLVADFLRRFA 3grs 228 :SMISTNCTEEL T0334 186 :EKLGVRHVED 3grs 239 :ENAGVEVLKF T0334 196 :RVEHVQRDANGNIESVRTA 3grs 250 :QVKEVKKTLSGLEVSMVTA T0334 215 :TG 3grs 270 :PG T0334 217 :RVFD 3grs 277 :TMIP T0334 221 :ADLFVDCSGFRGLL 3grs 282 :VDCLLWAIGRVPNT T0334 236 :NKA 3grs 296 :KDL T0334 239 :MEEPFLDMSDH 3grs 303 :LGIQTDDKGHI T0334 251 :LND 3grs 314 :IVD T0334 264 :DD 3grs 317 :EF T0334 266 :ANGVE 3grs 357 :KEDSK T0334 271 :PFTSAIAMKSGWTWKIPM 3grs 365 :NNIPTVVFSHPPIGTVGL T0334 309 :VREFCEMWH 3grs 384 :EDEAIHKYG T0334 320 :P 3grs 393 :I T0334 323 :QPLNRIRFRVGRNRRAWVGN 3grs 394 :ENVKTYSTSFTPMYHAVTKR T0334 343 :CVSIG 3grs 417 :CVMKM T0334 358 :STGIYF 3grs 430 :VVGIHM T0334 378 :KSLNPVLTARFNREIETMFD 3grs 437 :GLGCDEMLQGFAVAVKMGAT T0334 434 :IDMYRAGMAINAPASDDAQL 3grs 457 :KADFDNTVAIHPTSSEELVT Number of specific fragments extracted= 30 number of extra gaps= 2 total=2798 Number of alignments=118 # 3grs read from 3grs/merged-good-all-a2m # found chain 3grs in training set Warning: unaligning (T0334)F62 because of BadResidue code BAD_PEPTIDE in next template residue (3grs)G92 Warning: unaligning (T0334)L63 because of BadResidue code BAD_PEPTIDE at template residue (3grs)G92 Warning: unaligning (T0334)G64 because of BadResidue code BAD_PEPTIDE at template residue (3grs)K93 Warning: unaligning (T0334)L100 because of BadResidue code CHAIN_BREAK_BEFORE in next template residue (3grs)Q167 Warning: unaligning (T0334)D101 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (3grs)Q167 T0334 5 :ID 3grs 19 :AS T0334 7 :KILIVGGGTAGWMAASYLGK 3grs 22 :DYLVIGGGSGGLASARRAAE T0334 29 :QGT 3grs 42 :LGA T0334 33 :DITLLQAPDIPTL 3grs 45 :RAAVVESHKLGGT T0334 46 :GVGEATIPN 3grs 81 :DHADYGFPS T0334 61 :D 3grs 90 :C T0334 65 :IPEDEWMRECNASYKVAIKFINWRTAGEGTS 3grs 94 :FNWRVIKEKRDAYVSRLNAIYQNNLTKSHIE T0334 96 :EARE 3grs 162 :TPHE T0334 102 :G 3grs 168 :I T0334 103 :GPDHFYHSFGLL 3grs 170 :GASLGITSDGFF T0334 115 :KYHEQIPLSHYWFDRSYRG 3grs 185 :ELPGRSVIVGAGYIAVEMA T0334 139 :FDYACYKEPVILD 3grs 204 :GILSALGSKTSLM T0334 152 :ANRSPRRL 3grs 218 :RHDKVLRS T0334 172 :DAHLVADFLRRFA 3grs 226 :FDSMISTNCTEEL T0334 186 :EKLGVRHVED 3grs 239 :ENAGVEVLKF T0334 196 :RVEHVQRDANG 3grs 250 :QVKEVKKTLSG T0334 209 :ESVRTA 3grs 261 :LEVSMV T0334 215 :TGR 3grs 270 :PGR T0334 218 :VF 3grs 278 :MI T0334 220 :DADLFVDCSGFRG 3grs 281 :DVDCLLWAIGRVP T0334 233 :LLI 3grs 298 :LSL T0334 237 :KAMEEPFLD 3grs 301 :NKLGIQTDD T0334 247 :SDHLLNDSAVATQV 3grs 310 :KGHIIVDEFQNTNV T0334 341 :GNCVSIGTSSCF 3grs 324 :KGIYAVGDVCGK T0334 358 :STGIYFVYAALYQLVKHFP 3grs 336 :ALLTPVAIAAGRKLAHRLF T0334 377 :DKSLN 3grs 357 :KEDSK Number of specific fragments extracted= 26 number of extra gaps= 2 total=2824 Number of alignments=119 # 3grs read from 3grs/merged-good-all-a2m # found chain 3grs in training set Warning: unaligning (T0334)G103 because of BadResidue code CHAIN_BREAK_BEFORE in next template residue (3grs)Q167 Warning: unaligning (T0334)P104 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (3grs)Q167 T0334 5 :IDKILIVGGGTAGWMAASYLGK 3grs 20 :SYDYLVIGGGSGGLASARRAAE T0334 30 :GTADITLLQAPDIP 3grs 42 :LGARAAVVESHKLG T0334 51 :TIPNLQTAFFDFL 3grs 69 :MWNTAVHSEFMHD T0334 65 :IPE 3grs 94 :FNW T0334 68 :DEWMRECNASYKVA 3grs 115 :QNNLTKSHIEIIRG T0334 84 :FINWRTAGEGTS 3grs 129 :HAAFTSDPKPTI T0334 96 :EARELDG 3grs 159 :MPSTPHE T0334 105 :DHFYHSFGLLKYHEQIPLSHYWFDRSY 3grs 168 :IPGASLGITSDGFFQLEELPGRSVIVG T0334 135 :TVEPFDYACYKEPVILD 3grs 195 :AGYIAVEMAGILSALGS T0334 154 :RSPRRLDGSKVTN 3grs 212 :KTSLMIRHDKVLR T0334 172 :DAHLVADFLRRFATEKLGVRHVEDRVEHVQRDANGNIESVRTA 3grs 226 :FDSMISTNCTEELENAGVEVLKFSQVKEVKKTLSGLEVSMVTA T0334 215 :TGR 3grs 270 :PGR T0334 218 :VF 3grs 278 :MI T0334 220 :DADLFVDCSGF 3grs 281 :DVDCLLWAIGR T0334 338 :AWVGNCVSIGTSSCFVEP 3grs 321 :TNVKGIYAVGDVCGKALL T0334 361 :IYFVYAALYQLVKHFP 3grs 339 :TPVAIAAGRKLAHRLF Number of specific fragments extracted= 16 number of extra gaps= 1 total=2840 Number of alignments=120 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1fecA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0334 read from 1fecA/merged-good-all-a2m # 1fecA read from 1fecA/merged-good-all-a2m # found chain 1fecA in training set T0334 4 :KIDKILIVGGGTAGWMAASYLGKA 1fecA 2 :RAYDLVVIGAGSGGLEAGWNAASL T0334 30 :GTADITLLQAP 1fecA 26 :HKKRVAVIDLQ T0334 41 :DI 1fecA 38 :HH T0334 43 :PTLGVGEATIPNLQTAF 1fecA 41 :PPHYAALGGTCVNVGCV T0334 73 :ECNASYKVAIKFINWRTA 1fecA 58 :PKKLMVTGANYMDTIRES T0334 96 :EARELDGGPDHFYHSFGLL 1fecA 76 :AGFGWELDRESVRPNWKAL T0334 115 :KYHEQIPLSHYWFDR 1fecA 101 :AVSGINDSYEGMFAD T0334 159 :LDGSKVT 1fecA 116 :TEGLTFH T0334 166 :NYAW 1fecA 124 :GFGA T0334 170 :HFD 1fecA 228 :GFD T0334 174 :HLVADFLRRFA 1fecA 231 :SELRKQLTEQL T0334 186 :EKLGVRHVED 1fecA 242 :RANGINVRTH T0334 196 :RVEHVQRDANG 1fecA 253 :NPAKVTKNADG T0334 208 :IESVRTATGRVFDADLFVDCSGFRGL 1fecA 264 :TRHVVFESGAEADYDVVMLAIGRVPR T0334 234 :LIN 1fecA 292 :TLQ T0334 237 :KAMEEPFL 1fecA 296 :EKAGVEVA T0334 246 :MSDHLLNDSAV 1fecA 304 :KNGAIKVDAYS T0334 279 :KS 1fecA 406 :TY T0334 281 :GWTWKIPM 1fecA 410 :FMVRIVTN T0334 289 :LGR 1fecA 419 :ADG T0334 292 :FGTGYVYSSRFATE 1fecA 423 :VLGVHMLGDSSPEI T0334 306 :DEAVREFCEMW 1fecA 438 :QSVAICLKMGA T0334 323 :QPL 1fecA 461 :PTS Number of specific fragments extracted= 23 number of extra gaps= 0 total=2863 Number of alignments=121 # 1fecA read from 1fecA/merged-good-all-a2m # found chain 1fecA in training set T0334 5 :ID 1fecA 2 :RA T0334 7 :KILIVGGGTAGWMAASYLGK 1fecA 5 :DLVVIGAGSGGLEAGWNAAS T0334 28 :LQGT 1fecA 25 :LHKK T0334 33 :DITLLQAPD 1fecA 29 :RVAVIDLQK T0334 42 :IPTL 1fecA 39 :HGPP T0334 46 :GVGEATIPN 1fecA 75 :SAGFGWELD T0334 60 :FDFLGIPEDEWMRECNASYKVAIKFINWRTAGEGTS 1fecA 84 :RESVRPNWKALIAAKNKAVSGINDSYEGMFADTEGL T0334 96 :EARELDG 1fecA 162 :WPQHLGI T0334 103 :GPDHFYHSFGLL 1fecA 170 :GDDLCITSNEAF T0334 115 :KYHEQIPLSHYWFDRSYRGKTV 1fecA 185 :EAPKRALCVGGGYISIEFAGIF T0334 139 :FDYACYKEPVILD 1fecA 207 :NAYKARGGQVDLA T0334 152 :ANRSPRRL 1fecA 221 :RGDMILRG T0334 172 :DAHLVADFLRRFA 1fecA 229 :FDSELRKQLTEQL T0334 186 :EKLGVRHVED 1fecA 242 :RANGINVRTH T0334 196 :RVEHVQRDANGN 1fecA 253 :NPAKVTKNADGT T0334 209 :ESVRTATGRVFDADLFVDCSGF 1fecA 265 :RHVVFESGAEADYDVVMLAIGR T0334 231 :RG 1fecA 289 :RS T0334 233 :LLI 1fecA 293 :LQL T0334 237 :KAMEEPFLD 1fecA 296 :EKAGVEVAK T0334 247 :SDHLLNDSAVATQVPHDDDANGV 1fecA 305 :NGAIKVDAYSKTNVDNIYAIGDV T0334 281 :GWTWKIPM 1fecA 410 :FMVRIVTN T0334 289 :LGRFGTGYVYSSRFATE 1fecA 420 :DGEVLGVHMLGDSSPEI T0334 306 :DEAVREFCEMWHLDP 1fecA 438 :QSVAICLKMGAKISD T0334 321 :ETQPLNRIRFRVGRNR 1fecA 469 :SMRTPAYFYEKGKRVE Number of specific fragments extracted= 24 number of extra gaps= 0 total=2887 Number of alignments=122 # 1fecA read from 1fecA/merged-good-all-a2m # found chain 1fecA in training set T0334 5 :IDKILIVGGGTAGWMAASYLGKALQGTADITLLQAPDI 1fecA 187 :PKRALCVGGGYISIEFAGIFNAYKARGGQVDLAYRGDM T0334 51 :TI 1fecA 225 :IL T0334 63 :LGIP 1fecA 227 :RGFD T0334 174 :HLVADFLRRFATEKLGVRHVEDRVEHVQRDANGN 1fecA 231 :SELRKQLTEQLRANGINVRTHENPAKVTKNADGT T0334 209 :ESVRTATGRVFDADLFVDCSGF 1fecA 265 :RHVVFESGAEADYDVVMLAIGR T0334 244 :LDMSDHLLNDS 1fecA 287 :VPRSQTLQLEK T0334 321 :ETQPLNRIRFRVG 1fecA 301 :EVAKNGAIKVDAY T0334 336 :RRAWVGNCVSIGTSSCFVEPL 1fecA 314 :SKTNVDNIYAIGDVTDRVMLT T0334 362 :YFVYAALYQLVKHFP 1fecA 335 :PVAINEGAAFVDTVF Number of specific fragments extracted= 9 number of extra gaps= 0 total=2896 Number of alignments=123 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2aqjA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2aqjA expands to /projects/compbio/data/pdb/2aqj.pdb.gz 2aqjA:# T0334 read from 2aqjA/merged-good-all-a2m # 2aqjA read from 2aqjA/merged-good-all-a2m # adding 2aqjA to template set # found chain 2aqjA in template set Warning: unaligning (T0334)S2 because first residue in template chain is (2aqjA)N2 Warning: unaligning (T0334)V47 because of BadResidue code BAD_PEPTIDE in next template residue (2aqjA)G48 Warning: unaligning (T0334)G48 because of BadResidue code BAD_PEPTIDE at template residue (2aqjA)G48 Warning: unaligning (T0334)P376 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2aqjA)D366 Warning: unaligning (T0334)D377 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2aqjA)D366 Warning: unaligning (T0334)Q527 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2aqjA)R517 Warning: unaligning (T0334)H528 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2aqjA)R517 Warning: unaligning (T0334)G529 because last residue in template chain is (2aqjA)D518 T0334 3 :GKIDKILIVGGGTAGWMAASYLGKALQGTADITLLQAPDIPTLG 2aqjA 3 :KPIKNIVIVGGGTAGWMAASYLVRALQQQANITLIESAAIPRIG T0334 49 :EATIPNLQTAFFDFLGIPEDEWM 2aqjA 49 :EATIPSLQKVFFDFLGIPEREWM T0334 96 :EARE 2aqjA 72 :PQVN T0334 100 :LDGGP 2aqjA 89 :KSPDP T0334 105 :DHFYHSFGLL 2aqjA 98 :HFYHLFGNVP T0334 120 :IPLSHYWFDRSYR 2aqjA 115 :THYWLRKREQGFQ T0334 142 :ACYKEPVILD 2aqjA 128 :QPMEYACYPQ T0334 152 :ANRSPRRLDGSKVTNYAWHFDAHLVADFLRRFAT 2aqjA 143 :GKLAPCLSDGTRQMSHAWHFDAHLVADFLKRWAV T0334 187 :KLGVRHVEDRVEHVQRDANGNIESVRTATGRVFDADLFVDCSGFRGLLINKAMEEPFLDMSDHLLNDSAVATQVPHDDDANGVEPFTSAIAMKSGWTWKIPMLGRFGTGYVYSSRFATEDEAVREFCEMWHLDPE 2aqjA 177 :ERGVNRVVDEVVDVRLNNRGYISNLLTKEGRTLEADLFIDCSGMRGLLINQALKEPFIDMSDYLLCDSAVASAVPNDDARDGVEPYTSSIAMNSGWTWKIPMLGRFGSGYVFSSHFTSRDQATADFLKLWGLSDN T0334 323 :QPLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHF 2aqjA 312 :QPLNQIKFRVGRNKRAWVNNCVSIGLSSCFLEPLESTGIYFIYAALYQLVKHF T0334 378 :KSLNPVLTARFNREIETMFDDTRDFIQAHFYFSPRTDTPFWRANK 2aqjA 367 :TSFDPRLSDAFNAEIVHMFDDCRDFVQAHYFTTSRDDTPFWLANR T0334 423 :ELRLADGMQEKIDMYRAGMAINAPASDDAQLY 2aqjA 413 :DLRLSDAIKEKVQRYKAGLPLTTTSFDDSTYY T0334 456 :GNFEEEFRNFWNNSNYYCVLAGLGLVPDAPSPRLAHMPQATESVDEVFGAVKDRQRNLLETLPSLHEFLRQ 2aqjA 445 :ETFDYEFKNFWLNGNYYCIFAGLGMLPDRSLPLLQHRPESIEKAEAMFASIRREAERLRTSLPTNYDYLRS Number of specific fragments extracted= 13 number of extra gaps= 3 total=2909 Number of alignments=124 # 2aqjA read from 2aqjA/merged-good-all-a2m # found chain 2aqjA in template set Warning: unaligning (T0334)S2 because first residue in template chain is (2aqjA)N2 Warning: unaligning (T0334)V47 because of BadResidue code BAD_PEPTIDE in next template residue (2aqjA)G48 Warning: unaligning (T0334)G48 because of BadResidue code BAD_PEPTIDE at template residue (2aqjA)G48 Warning: unaligning (T0334)A81 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2aqjA)I82 Warning: unaligning (T0334)I82 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2aqjA)I82 Warning: unaligning (T0334)P376 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2aqjA)D366 Warning: unaligning (T0334)D377 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2aqjA)D366 Warning: unaligning (T0334)Q527 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2aqjA)R517 Warning: unaligning (T0334)H528 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2aqjA)R517 Warning: unaligning (T0334)G529 because last residue in template chain is (2aqjA)D518 T0334 3 :GKIDKILIVGGGTAGWMAASYLGKAL 2aqjA 3 :KPIKNIVIVGGGTAGWMAASYLVRAL T0334 29 :QGT 2aqjA 30 :QQA T0334 33 :DITLLQAPDIPTLG 2aqjA 33 :NITLIESAAIPRIG T0334 49 :EATIPNLQTAFFDFLGIPEDEWMRECNASYKV 2aqjA 49 :EATIPSLQKVFFDFLGIPEREWMPQVNGAFKA T0334 83 :KFINWRTAGEGT 2aqjA 83 :KFVNWRKSPDPS T0334 103 :GPDHFYHSFGLLKYHEQIPLSHYWFDRSYR 2aqjA 95 :RDDHFYHLFGNVPNCDGVPLTHYWLRKREQ T0334 152 :ANRSPRRLDGSKVTNYAWHF 2aqjA 125 :GFQQPMEYACYPQPGALDGK T0334 172 :DAHLVADFLRRFA 2aqjA 163 :DAHLVADFLKRWA T0334 186 :EKLGVRHVEDRVEHVQRDANGNIESVRTATGRVFDADLFVDCSGFRGLLINKAMEEPFLDMSDHLLNDSAVATQVPHDDDANGVEPFTSAIAMKSGWTWKIPMLGRFGTGYVYSSRFATEDEAVREFCEMWHLDP 2aqjA 176 :VERGVNRVVDEVVDVRLNNRGYISNLLTKEGRTLEADLFIDCSGMRGLLINQALKEPFIDMSDYLLCDSAVASAVPNDDARDGVEPYTSSIAMNSGWTWKIPMLGRFGSGYVFSSHFTSRDQATADFLKLWGLSD T0334 322 :TQPLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHF 2aqjA 311 :NQPLNQIKFRVGRNKRAWVNNCVSIGLSSCFLEPLESTGIYFIYAALYQLVKHF T0334 378 :KSLNPVLTARFNREIETMFDDTRDFIQAHFYFSPRTDTPFWRANK 2aqjA 367 :TSFDPRLSDAFNAEIVHMFDDCRDFVQAHYFTTSRDDTPFWLANR T0334 423 :ELRLADGMQEKIDMYRAGMAINAP 2aqjA 413 :DLRLSDAIKEKVQRYKAGLPLTTT T0334 448 :SDDAQLYYGNFEEEFRNFWNNSNYYCVLAGLGLVPDAPSPRLAHMPQATESVDEVFGAVKDRQRNLLETLPSLHEFLRQ 2aqjA 437 :SFDDSTYYETFDYEFKNFWLNGNYYCIFAGLGMLPDRSLPLLQHRPESIEKAEAMFASIRREAERLRTSLPTNYDYLRS Number of specific fragments extracted= 13 number of extra gaps= 4 total=2922 Number of alignments=125 # 2aqjA read from 2aqjA/merged-good-all-a2m # found chain 2aqjA in template set Warning: unaligning (T0334)S2 because first residue in template chain is (2aqjA)N2 Warning: unaligning (T0334)V47 because of BadResidue code BAD_PEPTIDE in next template residue (2aqjA)G48 Warning: unaligning (T0334)G48 because of BadResidue code BAD_PEPTIDE at template residue (2aqjA)G48 Warning: unaligning (T0334)A81 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2aqjA)I82 Warning: unaligning (T0334)I82 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2aqjA)I82 Warning: unaligning (T0334)P376 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2aqjA)D366 Warning: unaligning (T0334)D377 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2aqjA)D366 Warning: unaligning (T0334)L513 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2aqjA)R517 Warning: unaligning (T0334)L514 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2aqjA)R517 Warning: unaligning (T0334)E515 because last residue in template chain is (2aqjA)D518 T0334 3 :GKIDKILIVGGGTAGWMAASYLGKALQGTADITLLQAPDIPTLG 2aqjA 3 :KPIKNIVIVGGGTAGWMAASYLVRALQQQANITLIESAAIPRIG T0334 49 :EATIPNLQTAFFDFLGIPEDEWMRECNASYKV 2aqjA 49 :EATIPSLQKVFFDFLGIPEREWMPQVNGAFKA T0334 83 :KFINWRTAGEGTSEAREL 2aqjA 83 :KFVNWRKSPDPSRDDHFY T0334 101 :DGGPDHFYHSFGLLKYHEQIPLSHYWFDRSYRGKTV 2aqjA 105 :NVPNCDGVPLTHYWLRKREQGFQQPMEYACYPQPGA T0334 150 :LDANRSPRRLDGSKVTNYAWHFDAHLVADFLRRFATEKLGVRHVE 2aqjA 141 :LDGKLAPCLSDGTRQMSHAWHFDAHLVADFLKRWAVERGVNRVVD T0334 196 :RVEHVQRDANGNIESVRTATGRVFDADLFVDCSGFRGLLINKAMEEPFLDMSDHLLNDSAVATQVPHDDDANGVEPFTSAIAMKSGWTWKIPMLGRFGTGYVYSSRFATEDEAVREFCEMWHLDP 2aqjA 186 :EVVDVRLNNRGYISNLLTKEGRTLEADLFIDCSGMRGLLINQALKEPFIDMSDYLLCDSAVASAVPNDDARDGVEPYTSSIAMNSGWTWKIPMLGRFGSGYVFSSHFTSRDQATADFLKLWGLSD T0334 322 :TQPLNRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHF 2aqjA 311 :NQPLNQIKFRVGRNKRAWVNNCVSIGLSSCFLEPLESTGIYFIYAALYQLVKHF T0334 378 :KSLNPVLTARFNREIETMFDDTRDFIQAHFYFSPRTDTPFWRANK 2aqjA 367 :TSFDPRLSDAFNAEIVHMFDDCRDFVQAHYFTTSRDDTPFWLANR T0334 423 :ELRLADGMQEKIDMYRAGMAINAPASDDA 2aqjA 413 :DLRLSDAIKEKVQRYKAGLPLTTTSFDDS T0334 452 :QLYYGNFEEEFRNFWNNSNYYCVLAGLGLVP 2aqjA 453 :NFWLNGNYYCIFAGLGMLPDRSLPLLQHRPE T0334 483 :DAPSPRLAHMPQATESVDEVFGAVKDRQRN 2aqjA 486 :EKAEAMFASIRREAERLRTSLPTNYDYLRS Number of specific fragments extracted= 11 number of extra gaps= 4 total=2933 Number of alignments=126 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1l9cA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334/1l9cA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0334/1l9cA/merged-good-all-a2m.gz for input Trying 1l9cA/merged-good-all-a2m Error: Couldn't open file 1l9cA/merged-good-all-a2m or 1l9cA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1p2hA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1p2hA expands to /projects/compbio/data/pdb/1p2h.pdb.gz 1p2hA:# T0334 read from 1p2hA/merged-good-all-a2m # 1p2hA read from 1p2hA/merged-good-all-a2m # adding 1p2hA to template set # found chain 1p2hA in template set Warning: unaligning (T0334)W87 because of BadResidue code BAD_PEPTIDE in next template residue (1p2hA)S219 Warning: unaligning (T0334)R88 because of BadResidue code BAD_PEPTIDE at template residue (1p2hA)S219 Warning: unaligning (T0334)F127 because of BadResidue code BAD_PEPTIDE in next template residue (1p2hA)A225 Warning: unaligning (T0334)D128 because of BadResidue code BAD_PEPTIDE at template residue (1p2hA)A225 T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1p2hA 125 :DTVDVVVVGSGGAGFSAAISATD T0334 30 :GTADITLLQAPDIPTLGVGEATI 1p2hA 148 :SGAKVILIEKEPVIGGNAKLAAG T0334 57 :TAF 1p2hA 178 :DQQ T0334 61 :DFLGI 1p2hA 181 :KAKKI T0334 66 :PEDEWMRECNA 1p2hA 188 :SPELMFEDTMK T0334 77 :SYKVAIKFIN 1p2hA 208 :LVKVLSSHSK T0334 123 :SHYW 1p2hA 220 :VDWM T0334 129 :RSYR 1p2hA 226 :MGAD T0334 144 :YKEPVI 1p2hA 230 :LTDVGM T0334 152 :ANRSPRRL 1p2hA 236 :MGGASVNR T0334 162 :SKVTNYAW 1p2hA 244 :AHRPTGGA T0334 171 :FDAHLVADFLRRFAT 1p2hA 252 :GVGAHVVQVLYDNAV T0334 187 :KLGVRHVED 1p2hA 267 :KRNIDLRMN T0334 196 :RVEHVQRDANGNIESVRTA 1p2hA 277 :RGIEVLKDDKGTVKGILVK T0334 215 :TG 1p2hA 299 :KG T0334 217 :RVFDADLFVDCSGFRGL 1p2hA 302 :YWVKADAVILATGGFAK T0334 234 :L 1p2hA 323 :V T0334 236 :NKAM 1p2hA 324 :AKLD T0334 244 :LDMSDHLLNDS 1p2hA 328 :PSLKGFISTNQ T0334 267 :NGVE 1p2hA 339 :PGAV T0334 271 :PFTSAIAMKSGWTWKIPM 1p2hA 350 :ENAGGALKDMQYIQAHPT T0334 289 :LGRFGT 1p2hA 371 :KGGVMV T0334 295 :GYVYSSRFATE 1p2hA 384 :GAILVNREGKR T0334 306 :DEAVREFCEMW 1p2hA 459 :KALTETVARYN T0334 317 :HLDPETQ 1p2hA 475 :GKDTDFE T0334 324 :PLNRIRFRVG 1p2hA 493 :NYYAIEVTPG T0334 334 :RNRRAWVGNCVSIG 1p2hA 520 :NAKKQVIPGLYGAG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHF 1p2hA 537 :GGVHGANRLGGNAISDIITFGRLAGEEA Number of specific fragments extracted= 28 number of extra gaps= 2 total=2961 Number of alignments=127 # 1p2hA read from 1p2hA/merged-good-all-a2m # found chain 1p2hA in template set Warning: unaligning (T0334)P66 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1p2hA)W176 Warning: unaligning (T0334)E67 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1p2hA)W176 Warning: unaligning (T0334)R98 because of BadResidue code BAD_PEPTIDE in next template residue (1p2hA)A225 Warning: unaligning (T0334)E99 because of BadResidue code BAD_PEPTIDE at template residue (1p2hA)A225 Warning: unaligning (T0334)R334 because of BadResidue code BAD_PEPTIDE in next template residue (1p2hA)H504 Warning: unaligning (T0334)N335 because of BadResidue code BAD_PEPTIDE at template residue (1p2hA)H504 T0334 3 :GKID 1p2hA 122 :APHD T0334 7 :KILIVGGGTAGWMAASYLGK 1p2hA 128 :DVVVVGSGGAGFSAAISATD T0334 29 :QGT 1p2hA 148 :SGA T0334 33 :DITLLQAPD 1p2hA 151 :KVILIEKEP T0334 42 :IPTL 1p2hA 161 :IGGN T0334 57 :TAFFDFLGI 1p2hA 166 :KLAAGGMNA T0334 68 :DEWMRECNASYKVAIKFINWRTAGEGTS 1p2hA 177 :TDQQKAKKITDSPELMFEDTMKGGQNIN T0334 96 :EA 1p2hA 222 :WM T0334 100 :LDGGPDHFYHSFGLL 1p2hA 226 :MGADLTDVGMMGGAS T0334 115 :KYHE 1p2hA 246 :RPTG T0334 152 :AN 1p2hA 251 :AG T0334 172 :DAHLVADFLRRFA 1p2hA 253 :VGAHVVQVLYDNA T0334 186 :EKLGVRHVED 1p2hA 266 :VKRNIDLRMN T0334 196 :RVEHVQRDANGNIESVRTA 1p2hA 277 :RGIEVLKDDKGTVKGILVK T0334 215 :T 1p2hA 297 :M T0334 216 :GR 1p2hA 299 :KG T0334 218 :VFDADLFVDCSGFRG 1p2hA 303 :WVKADAVILATGGFA T0334 233 :LLINKAM 1p2hA 321 :ERVAKLD T0334 264 :DDANGVEPFTSAIAMK 1p2hA 328 :PSLKGFISTNQPGAVG T0334 280 :SGWTWKIPM 1p2hA 359 :MQYIQAHPT T0334 289 :LGR 1p2hA 371 :KGG T0334 292 :FGTGYVYSSRFATE 1p2hA 383 :NGAILVNREGKRFV T0334 306 :DEAVREFCEM 1p2hA 462 :TETVARYNSL T0334 316 :WHLDP 1p2hA 473 :SSGKD T0334 321 :ETQPLNRIRF 1p2hA 490 :NEGNYYAIEV T0334 336 :R 1p2hA 505 :H T0334 337 :RAWVGNCVSIGTSSCFVEP 1p2hA 523 :KQVIPGLYGAGEVTGGVHG T0334 356 :LESTGIYFVYAALYQLVKHFP 1p2hA 545 :LGGNAISDIITFGRLAGEEAA Number of specific fragments extracted= 28 number of extra gaps= 3 total=2989 Number of alignments=128 # 1p2hA read from 1p2hA/merged-good-all-a2m # found chain 1p2hA in template set Warning: unaligning (T0334)Y141 because of BadResidue code BAD_PEPTIDE in next template residue (1p2hA)S219 Warning: unaligning (T0334)A142 because of BadResidue code BAD_PEPTIDE at template residue (1p2hA)S219 Warning: unaligning (T0334)P147 because of BadResidue code BAD_PEPTIDE in next template residue (1p2hA)A225 Warning: unaligning (T0334)V148 because of BadResidue code BAD_PEPTIDE at template residue (1p2hA)A225 Warning: unaligning (T0334)R334 because of BadResidue code BAD_PEPTIDE in next template residue (1p2hA)H504 Warning: unaligning (T0334)N335 because of BadResidue code BAD_PEPTIDE at template residue (1p2hA)H504 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1p2hA 126 :TVDVVVVGSGGAGFSAAISATD T0334 30 :GTADITLLQAPDI 1p2hA 148 :SGAKVILIEKEPV T0334 45 :LGVGEATI 1p2hA 161 :IGGNAKLA T0334 69 :EWMRECNASY 1p2hA 178 :DQQKAKKITD T0334 106 :HFYHSFGLLKYHEQIPLSHYWFDRSY 1p2hA 188 :SPELMFEDTMKGGQNINDPALVKVLS T0334 137 :EPFD 1p2hA 214 :SHSK T0334 143 :CYKE 1p2hA 220 :VDWM T0334 149 :ILDANRSPRRLDGSKVTN 1p2hA 226 :MGADLTDVGMMGGASVNR T0334 169 :WHF 1p2hA 244 :AHR T0334 172 :DAHLVADFLRRFATEKLGVRHVEDRVEHVQRDANGNIESVRT 1p2hA 253 :VGAHVVQVLYDNAVKRNIDLRMNTRGIEVLKDDKGTVKGILV T0334 214 :ATGR 1p2hA 297 :MYKG T0334 218 :VFDADLFVDCSGFRG 1p2hA 303 :WVKADAVILATGGFA T0334 233 :LLINK 1p2hA 322 :RVAKL T0334 243 :FLDMSDHLLND 1p2hA 327 :DPSLKGFISTN T0334 307 :EAVREFCEMWHLDP 1p2hA 463 :ETVARYNSLVSSGK T0334 322 :TQ 1p2hA 477 :DT T0334 324 :PLNRIRFRVG 1p2hA 493 :NYYAIEVTPG T0334 336 :RRA 1p2hA 505 :HTM T0334 339 :WVGNCVSIGTSSCFVEP 1p2hA 525 :VIPGLYGAGEVTGGVHG T0334 356 :LESTGIYFVYAALYQLVKHFPD 1p2hA 545 :LGGNAISDIITFGRLAGEEAAK Number of specific fragments extracted= 20 number of extra gaps= 3 total=3009 Number of alignments=129 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ojt/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334/1ojt/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0334/1ojt/merged-good-all-a2m.gz for input Trying 1ojt/merged-good-all-a2m Error: Couldn't open file 1ojt/merged-good-all-a2m or 1ojt/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1fohA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1fohA expands to /projects/compbio/data/pdb/1foh.pdb.gz 1fohA:# T0334 read from 1fohA/merged-good-all-a2m # 1fohA read from 1fohA/merged-good-all-a2m # adding 1fohA to template set # found chain 1fohA in template set Warning: unaligning (T0334)S300 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1fohA)F307 T0334 5 :IDKILIVGGGTAGWMAASYLGKAL 1fohA 7 :YCDVLIVGAGPAGLMAARVLSEYV T0334 29 :QGTADITLLQAP 1fohA 33 :KPDLKVRIIDKR T0334 41 :DIPTLGVGEATIPNLQTAF 1fohA 46 :TKVYNGQADGLQCRTLESL T0334 61 :DFLGI 1fohA 65 :KNLGL T0334 123 :SHYWFDRSYR 1fohA 70 :ADKILSEAND T0334 136 :VEPF 1fohA 80 :MSTI T0334 141 :YACYKEPVILD 1fohA 88 :PDENGHIRRTD T0334 154 :RSPRRLDGSKVTNYAW 1fohA 99 :RIPDTLPGISRYHQVV T0334 171 :FDAHLVADFLRRFATEKLG 1fohA 115 :LHQGRIERHILDSIAEISD T0334 190 :VRHVED 1fohA 136 :IKVERP T0334 196 :RVEHVQR 1fohA 143 :IPEKMEI T0334 203 :DANGNIESVRTA 1fohA 156 :DPEAYPVTMTLR T0334 216 :G 1fohA 211 :G T0334 217 :RVFDADLFVDCSGFRGLL 1fohA 214 :ETVHCKYVIGCDGGHSWV T0334 236 :NKAMEEPFL 1fohA 232 :RRTLGFEMI T0334 245 :DMSDH 1fohA 243 :QTDYI T0334 253 :DSAVATQVP 1fohA 248 :WGVLDAVPA T0334 264 :DDANGVEPFTSAIAMKSGWTWKIPMLGRFGTGYVYS 1fohA 257 :SNFPDIRSRCAIHSAESGSIMIIPRENNLVRFYVQL T0334 306 :DEAVREFCEMWHL 1fohA 310 :EVVIANAKKIFHP T0334 322 :TQ 1fohA 323 :YT T0334 324 :PLNRIRFRVGRNRRAWVG 1fohA 332 :WFTAYHIGQRVTEKFSKD T0334 342 :NCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHF 1fohA 351 :RVFIAGDACHTHSPKAGQGMNTSMMDTYNLGWKL T0334 378 :KSLNPVLTARFNREIETMFDDTRDFIQAHFYFSPRT 1fohA 390 :GRAKRDILKTYEEERHAFAQALIDFDHQFSRLFSGR T0334 480 :LVPDAPSPRLAHMPQATESVDEVFGA 1fohA 426 :PAKDVADEMGVSMDVFKEAFVKGNEF Number of specific fragments extracted= 24 number of extra gaps= 0 total=3033 Number of alignments=130 # 1fohA read from 1fohA/merged-good-all-a2m # found chain 1fohA in template set Warning: unaligning (T0334)S300 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1fohA)F307 T0334 3 :GKID 1fohA 2 :KYSE T0334 7 :KILIVGGGTAGWMAASYLGK 1fohA 9 :DVLIVGAGPAGLMAARVLSE T0334 28 :L 1fohA 29 :Y T0334 29 :QGT 1fohA 34 :PDL T0334 33 :DITLLQAPD 1fohA 37 :KVRIIDKRS T0334 42 :IPTLGVGEATIPNLQTAF 1fohA 47 :KVYNGQADGLQCRTLESL T0334 61 :DFLGIPED 1fohA 65 :KNLGLADK T0334 103 :GPDHFYHSFGLL 1fohA 79 :DMSTIALYNPDE T0334 115 :KYHE 1fohA 92 :GHIR T0334 152 :ANRSPRRLDGSKVTNYAWHFDAHLVADFLRRFATEKLG 1fohA 96 :RTDRIPDTLPGISRYHQVVLHQGRIERHILDSIAEISD T0334 190 :VRHVED 1fohA 136 :IKVERP T0334 196 :RVEHVQR 1fohA 143 :IPEKMEI T0334 203 :DANGNIESVRTA 1fohA 156 :DPEAYPVTMTLR T0334 216 :GR 1fohA 211 :GE T0334 218 :VFDADLFVDCSGFRGLLI 1fohA 215 :TVHCKYVIGCDGGHSWVR T0334 237 :KAMEEPFLDM 1fohA 233 :RTLGFEMIGE T0334 247 :SDHLLND 1fohA 245 :DYIWGVL T0334 254 :SAVATQVPHD 1fohA 253 :AVPASNFPDI T0334 270 :EPFTSAIAMKSGWTWKIPMLGRFGTGYVYS 1fohA 263 :RSRCAIHSAESGSIMIIPRENNLVRFYVQL T0334 306 :DEAVREFCEMWHLDP 1fohA 310 :EVVIANAKKIFHPYT T0334 321 :ETQPLNRIRFRVGRNRRAWVG 1fohA 329 :QLDWFTAYHIGQRVTEKFSKD T0334 342 :NCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 1fohA 351 :RVFIAGDACHTHSPKAGQGMNTSMMDTYNLGWKLG T0334 377 :DKSLNPVLTARFNREIETMFDDTRDFIQAHFYFS 1fohA 389 :TGRAKRDILKTYEEERHAFAQALIDFDHQFSRLF T0334 411 :PRT 1fohA 424 :GRP T0334 427 :ADGMQEKIDMYRAGMAINAP 1fohA 438 :MDVFKEAFVKGNEFASGTAI T0334 481 :VPD 1fohA 458 :NYD Number of specific fragments extracted= 26 number of extra gaps= 0 total=3059 Number of alignments=131 # 1fohA read from 1fohA/merged-good-all-a2m # found chain 1fohA in template set Warning: unaligning (T0334)S300 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1fohA)F307 T0334 4 :KIDKILIVGGGTAGWMAASYLGKAL 1fohA 6 :SYCDVLIVGAGPAGLMAARVLSEYV T0334 29 :QGTADITLLQAPDIPTL 1fohA 33 :KPDLKVRIIDKRSTKVY T0334 46 :GVGEATIPNLQTAF 1fohA 51 :GQADGLQCRTLESL T0334 61 :DFLGI 1fohA 65 :KNLGL T0334 68 :DEWMRECNASYKVAIKFINWRTAGEGTSEARELDG 1fohA 70 :ADKILSEANDMSTIALYNPDENGHIRRTDRIPDTL T0334 161 :GSKVTNYAWHFDAHLVADFLRRFATEKL 1fohA 105 :PGISRYHQVVLHQGRIERHILDSIAEIS T0334 189 :GVRHVEDRVEHVQRDANGN 1fohA 136 :IKVERPLIPEKMEIDSSKA T0334 217 :R 1fohA 208 :K T0334 218 :VFDADLFVDCSGFRGLLIN 1fohA 215 :TVHCKYVIGCDGGHSWVRR T0334 238 :AMEEPFLDMSDHLLNDSAVATQV 1fohA 234 :TLGFEMIGEQTDYIWGVLDAVPA T0334 264 :DDANGVEPFTSAIAMKSGWTWKIPMLGRFGTGYVYS 1fohA 257 :SNFPDIRSRCAIHSAESGSIMIIPRENNLVRFYVQL T0334 307 :EAVREFCEMWHLDP 1fohA 311 :VVIANAKKIFHPYT T0334 322 :T 1fohA 326 :D T0334 324 :PLNRIRFRVGRNRR 1fohA 332 :WFTAYHIGQRVTEK T0334 338 :AWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 1fohA 347 :SKDERVFIAGDACHTHSPKAGQGMNTSMMDTYNLGWKLG T0334 377 :DKSLNPVLTARFNREIETMFDDTRDFIQAHFYF 1fohA 393 :KRDILKTYEEERHAFAQALIDFDHQFSRLFSGR T0334 443 :INAPASDDA 1fohA 426 :PAKDVADEM T0334 452 :QLYYGNFEEEFRNFWNNSNYYCV 1fohA 439 :DVFKEAFVKGNEFASGTAINYDE Number of specific fragments extracted= 18 number of extra gaps= 0 total=3077 Number of alignments=132 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1b3mA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1b3mA expands to Error: no filename for 1b3mA 1b3mA expands to Error: no filename for 1b3mA 1b3mA expands to Error: no filename for 1b3mA # T0334 read from 1b3mA/merged-good-all-a2m # 1b3mA read from 1b3mA/merged-good-all-a2m # adding 1b3mA to template set Error: can't find template for 1b3mA or 1b3mA, so skipping it. # 1b3mA read from 1b3mA/merged-good-all-a2m # adding 1b3mA to template set Error: can't find template for 1b3mA or 1b3mA, so skipping it. # 1b3mA read from 1b3mA/merged-good-all-a2m # adding 1b3mA to template set Error: can't find template for 1b3mA or 1b3mA, so skipping it. # Reading fragments from alignment file # Attempting to read fragment alignments from file 1pbe/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1pbe expands to /projects/compbio/data/pdb/1pbe.pdb.gz 1pbe:Warning: there is no chain 1pbe will retry with 1pbeA # T0334 read from 1pbe/merged-good-all-a2m # 1pbe read from 1pbe/merged-good-all-a2m # adding 1pbe to template set # found chain 1pbe in template set Warning: unaligning (T0334)K4 because first residue in template chain is (1pbe)M1 Warning: unaligning (T0334)L188 because of BadResidue code BAD_PEPTIDE in next template residue (1pbe)G117 Warning: unaligning (T0334)G189 because of BadResidue code BAD_PEPTIDE at template residue (1pbe)G117 Warning: unaligning (T0334)N205 because of BadResidue code BAD_PEPTIDE in next template residue (1pbe)E135 Warning: unaligning (T0334)G206 because of BadResidue code BAD_PEPTIDE at template residue (1pbe)E135 Warning: unaligning (T0334)R331 because of BadResidue code BAD_PEPTIDE in next template residue (1pbe)S270 Warning: unaligning (T0334)V332 because of BadResidue code BAD_PEPTIDE at template residue (1pbe)S270 Warning: unaligning (T0334)F402 because of BadResidue code BAD_PEPTIDE in next template residue (1pbe)S343 Warning: unaligning (T0334)I403 because of BadResidue code BAD_PEPTIDE at template residue (1pbe)S343 Warning: unaligning (T0334)F417 because of BadResidue code BAD_PEPTIDE in next template residue (1pbe)S360 Warning: unaligning (T0334)W418 because of BadResidue code BAD_PEPTIDE at template residue (1pbe)S360 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1pbe 2 :KTQVAIIGAGPSGLLLGQLLHK T0334 30 :GTADITLLQAPDI 1pbe 24 :AGIDNVILERQTP T0334 43 :PTLGVGEATIPNLQTAF 1pbe 40 :LGRIRAGVLEQGMVDLL T0334 61 :DFLGI 1pbe 57 :REAGV T0334 123 :SHYWFDRSYR 1pbe 62 :DRRMARDGLV T0334 136 :VEPFDYACYKEPVILD 1pbe 72 :HEGVEIAFAGQRRRID T0334 155 :SPRRLDG 1pbe 88 :LKRLSGG T0334 166 :NYAWHFDAHLVADFLRRFA 1pbe 95 :KTVTVYGQTEVTRDLMEAR T0334 186 :EK 1pbe 114 :EA T0334 190 :VRHVED 1pbe 118 :ATTVYQ T0334 196 :RVEHVQRDA 1pbe 125 :AEVRLHDLQ T0334 207 :N 1pbe 136 :R T0334 209 :ESVRTA 1pbe 137 :PYVTFE T0334 215 :TG 1pbe 144 :DG T0334 217 :RVFDADLFVDCSGFRGLL 1pbe 148 :LRLDCDYIAGCDGFHGIS T0334 236 :NKAMEEPFL 1pbe 166 :RQSIPAERL T0334 245 :DMSDHLLNDSAVAT 1pbe 176 :VFERVYPFGWLGLL T0334 264 :DDANGVEPFTSAIAMKSGWTWKIPMLGR 1pbe 190 :ADTPPVSHELIYANHPRGFALCSQRSAT T0334 292 :FGTGYVYSS 1pbe 219 :SRYYVQVPL T0334 301 :RFATEDEAVREFCEMW 1pbe 232 :EDWSDERFWTELKARL T0334 318 :LDPETQPLNRIRF 1pbe 256 :VTGPSLEKSIAPL T0334 333 :GRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFPD 1pbe 271 :FVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLLK T0334 378 :KSLNPVLTARFNREIETMFDDTRD 1pbe 318 :REGRGELLERYSAICLRRIWKAER T0334 404 :QAHFYFSPRTD 1pbe 344 :WWMTSVLHRFP T0334 415 :TP 1pbe 357 :DA T0334 419 :R 1pbe 361 :Q T0334 428 :DGMQEKIDMYR 1pbe 362 :RIQQTELEYYL Number of specific fragments extracted= 27 number of extra gaps= 5 total=3104 Number of alignments=133 # 1pbe read from 1pbe/merged-good-all-a2m # found chain 1pbe in template set Warning: unaligning (T0334)I5 because first residue in template chain is (1pbe)M1 Warning: unaligning (T0334)L188 because of BadResidue code BAD_PEPTIDE in next template residue (1pbe)G117 Warning: unaligning (T0334)G189 because of BadResidue code BAD_PEPTIDE at template residue (1pbe)G117 Warning: unaligning (T0334)N205 because of BadResidue code BAD_PEPTIDE in next template residue (1pbe)E135 Warning: unaligning (T0334)G206 because of BadResidue code BAD_PEPTIDE at template residue (1pbe)E135 Warning: unaligning (T0334)R331 because of BadResidue code BAD_PEPTIDE in next template residue (1pbe)S270 Warning: unaligning (T0334)V332 because of BadResidue code BAD_PEPTIDE at template residue (1pbe)S270 Warning: unaligning (T0334)F402 because of BadResidue code BAD_PEPTIDE in next template residue (1pbe)S343 Warning: unaligning (T0334)I403 because of BadResidue code BAD_PEPTIDE at template residue (1pbe)S343 Warning: unaligning (T0334)F417 because of BadResidue code BAD_PEPTIDE in next template residue (1pbe)S360 Warning: unaligning (T0334)W418 because of BadResidue code BAD_PEPTIDE at template residue (1pbe)S360 T0334 6 :D 1pbe 2 :K T0334 7 :KILIVGGGTAGWMAASYLGK 1pbe 4 :QVAIIGAGPSGLLLGQLLHK T0334 29 :QGT 1pbe 24 :AGI T0334 33 :DITLLQAPD 1pbe 27 :DNVILERQT T0334 52 :I 1pbe 36 :P T0334 57 :TAFFDFLGIPE 1pbe 37 :DYVLGRIRAGV T0334 69 :EWMRECNASYKVAIKFINW 1pbe 54 :DLLREAGVDRRMARDGLVH T0334 103 :GPDHFYHSFGLL 1pbe 73 :EGVEIAFAGQRR T0334 115 :KYHE 1pbe 87 :DLKR T0334 152 :ANRSPRRLD 1pbe 92 :SGGKTVTVY T0334 172 :DAHLVADFLRRFA 1pbe 101 :GQTEVTRDLMEAR T0334 186 :EK 1pbe 114 :EA T0334 190 :VRHVED 1pbe 118 :ATTVYQ T0334 196 :RVEHVQRDA 1pbe 125 :AEVRLHDLQ T0334 207 :NIE 1pbe 136 :RPY T0334 211 :VRTA 1pbe 139 :VTFE T0334 215 :TGR 1pbe 144 :DGE T0334 218 :VFDADLFVDCSGFRGLLI 1pbe 149 :RLDCDYIAGCDGFHGISR T0334 237 :KAMEEPFLDM 1pbe 167 :QSIPAERLKV T0334 247 :SDHLLND 1pbe 178 :ERVYPFG T0334 254 :SAVATQVPHDD 1pbe 186 :LGLLADTPPVS T0334 271 :PFTSAIAMKSGWTWKIPM 1pbe 197 :HELIYANHPRGFALCSQR T0334 289 :LGR 1pbe 216 :ATR T0334 292 :FGTGYVYSSRFATEDEAVREFCEMWHLDP 1pbe 223 :VQVPLTEKVEDWSDERFWTELKARLPAEV T0334 321 :ETQPLNRIRF 1pbe 259 :PSLEKSIAPL T0334 333 :GRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 1pbe 271 :FVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLL T0334 377 :DKSLNPVLTARFNREIETMFDDTRD 1pbe 317 :YREGRGELLERYSAICLRRIWKAER T0334 404 :QAHFYFSPRTDTP 1pbe 344 :WWMTSVLHRFPDT T0334 419 :R 1pbe 361 :Q T0334 508 :DRQRNLLETLPSLHEFLRQ 1pbe 362 :RIQQTELEYYLGSEAGLAT Number of specific fragments extracted= 30 number of extra gaps= 5 total=3134 Number of alignments=134 # 1pbe read from 1pbe/merged-good-all-a2m # found chain 1pbe in template set Warning: unaligning (T0334)K187 because of BadResidue code BAD_PEPTIDE in next template residue (1pbe)G117 Warning: unaligning (T0334)L188 because of BadResidue code BAD_PEPTIDE at template residue (1pbe)G117 Warning: unaligning (T0334)A204 because of BadResidue code BAD_PEPTIDE in next template residue (1pbe)E135 Warning: unaligning (T0334)N205 because of BadResidue code BAD_PEPTIDE at template residue (1pbe)E135 Warning: unaligning (T0334)R331 because of BadResidue code BAD_PEPTIDE in next template residue (1pbe)S270 Warning: unaligning (T0334)V332 because of BadResidue code BAD_PEPTIDE at template residue (1pbe)S270 Warning: unaligning (T0334)D398 because of BadResidue code BAD_PEPTIDE in next template residue (1pbe)S343 Warning: unaligning (T0334)T399 because of BadResidue code BAD_PEPTIDE at template residue (1pbe)S343 Warning: unaligning (T0334)G429 because of BadResidue code BAD_PEPTIDE in next template residue (1pbe)S360 Warning: unaligning (T0334)M430 because of BadResidue code BAD_PEPTIDE at template residue (1pbe)S360 T0334 7 :KILIVGGGTAGWMAASYLGK 1pbe 4 :QVAIIGAGPSGLLLGQLLHK T0334 30 :GTADITLLQAPD 1pbe 24 :AGIDNVILERQT T0334 43 :PTLGVGE 1pbe 41 :GRIRAGV T0334 51 :TIPNLQTAF 1pbe 48 :LEQGMVDLL T0334 61 :DFLGIP 1pbe 57 :REAGVD T0334 69 :EWMRECNASY 1pbe 63 :RRMARDGLVH T0334 79 :KVAIKF 1pbe 74 :GVEIAF T0334 90 :AGEGTSEA 1pbe 80 :AGQRRRID T0334 158 :RLDGSKV 1pbe 88 :LKRLSGG T0334 166 :NYAWHFDAHLVADFLRRFATE 1pbe 95 :KTVTVYGQTEVTRDLMEAREA T0334 189 :GVRHVEDRVEHVQRD 1pbe 118 :ATTVYQAAEVRLHDL T0334 206 :GNIESVRTATGR 1pbe 136 :RPYVTFERDGER T0334 218 :VFDADLFVDCSGFRGLLIN 1pbe 149 :RLDCDYIAGCDGFHGISRQ T0334 243 :FLDMSDH 1pbe 168 :SIPAERL T0334 250 :LLNDSAVATQV 1pbe 180 :VYPFGWLGLLA T0334 265 :DANGVEPFTSAIAMKSGWTWKIPMLGRFGTGYVYS 1pbe 191 :DTPPVSHELIYANHPRGFALCSQRSATRSRYYVQV T0334 300 :SRFATEDEAVREFCEMW 1pbe 231 :VEDWSDERFWTELKARL T0334 318 :LDPETQPLNRIRF 1pbe 256 :VTGPSLEKSIAPL T0334 333 :GRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 1pbe 271 :FVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLL T0334 377 :DKSLNPVLTARFNREIETMFD 1pbe 321 :RGELLERYSAICLRRIWKAER T0334 400 :RDFIQAHFYFSPRT 1pbe 344 :WWMTSVLHRFPDTD T0334 428 :D 1pbe 358 :A T0334 431 :QE 1pbe 361 :QR T0334 505 :AVKDRQRNLLETLPSLHEFLRQQ 1pbe 363 :IQQTELEYYLGSEAGLATIAENY Number of specific fragments extracted= 24 number of extra gaps= 5 total=3158 Number of alignments=135 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1zk7A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1zk7A expands to /projects/compbio/data/pdb/1zk7.pdb.gz 1zk7A:# T0334 read from 1zk7A/merged-good-all-a2m # 1zk7A read from 1zk7A/merged-good-all-a2m # adding 1zk7A to template set # found chain 1zk7A in template set T0334 1 :MSG 1zk7A 1 :MEP T0334 5 :IDKILIVGGGTAGWMAASYLGK 1zk7A 4 :PVQVAVIGSGGAAMAAALKAVE T0334 30 :GTADITLLQAPDIPTLGVGEATIPN 1zk7A 26 :QGAQVTLIERGTIGGTCVNVGCVPS T0334 57 :TAF 1zk7A 51 :KIM T0334 78 :YKVAIKFINWRTAGE 1zk7A 54 :IRAAHIAHLRRESPF T0334 101 :DGGPDHFYHSFGLLKY 1zk7A 69 :DGGIAATVPTIDRSKL T0334 117 :HEQIPLSHYWFDRS 1zk7A 86 :AQQQARVDELRHAK T0334 155 :SPRRLDGS 1zk7A 100 :YEGILGGN T0334 166 :NYAW 1zk7A 108 :PAIT T0334 171 :FDAHLVADFLRRFA 1zk7A 213 :REDPAIGEAVTAAF T0334 186 :EKLGVRHVED 1zk7A 227 :RAEGIEVLEH T0334 196 :RVEHVQRDANG 1zk7A 238 :QASQVAHMDGE T0334 209 :ESVRTATG 1zk7A 249 :FVLTTTHG T0334 218 :VFDADLFVDCSGFRGLL 1zk7A 257 :ELRADKLLVATGRTPNT T0334 236 :NKA 1zk7A 274 :RSL T0334 239 :MEEPFLDMSDHLLNDSAVATQVPH 1zk7A 336 :AALDLTAMPAVVFTDPQVATVGYS T0334 264 :DD 1zk7A 360 :EA T0334 266 :ANGVEPFTSAIAMKS 1zk7A 365 :HDGIETDSRTLTLDN T0334 281 :GWT 1zk7A 391 :GFI T0334 284 :WKIPMLGR 1zk7A 395 :LVIEEGSH T0334 292 :FGTGYVYSSRF 1zk7A 404 :LIGVQAVAPEA T0334 306 :DEAVREFCEMW 1zk7A 415 :GELIQTAALAI T0334 317 :HLDPET 1zk7A 437 :QLFPYL Number of specific fragments extracted= 23 number of extra gaps= 0 total=3181 Number of alignments=136 # 1zk7A read from 1zk7A/merged-good-all-a2m # found chain 1zk7A in template set Warning: unaligning (T0334)G3 because first residue in template chain is (1zk7A)M1 T0334 4 :KID 1zk7A 2 :EPP T0334 7 :KILIVGGGTAGWMAASYLGK 1zk7A 6 :QVAVIGSGGAAMAAALKAVE T0334 29 :QGT 1zk7A 26 :QGA T0334 33 :DITLLQAPDIPTL 1zk7A 29 :QVTLIERGTIGGT T0334 46 :GVGEATIPN 1zk7A 66 :SPFDGGIAA T0334 61 :DFLGIPEDEWMRECNASYKVAIKFINWRTAGEGTS 1zk7A 75 :TVPTIDRSKLLAQQQARVDELRHAKYEGILGGNPA T0334 96 :EARELDGGPDHFYHSFGLL 1zk7A 152 :VPPIPGLKESPYWTSTEAL T0334 115 :KYHEQIPLSHYWFDRSYRG 1zk7A 174 :TIPERLAVIGSSVVALELA T0334 139 :FDYACYKEPVILDANRSPRRL 1zk7A 193 :QAFARLGSKVTVLARNTLFFR T0334 172 :DAHLVADFLRRFA 1zk7A 214 :EDPAIGEAVTAAF T0334 186 :EKLGVRHVED 1zk7A 227 :RAEGIEVLEH T0334 196 :RVEHVQRDANG 1zk7A 238 :QASQVAHMDGE T0334 209 :ESVRTATG 1zk7A 249 :FVLTTTHG T0334 218 :VFDADLFVDCSGFRG 1zk7A 257 :ELRADKLLVATGRTP T0334 233 :LLINKAMEEPFLD 1zk7A 275 :SLALDAAGVTVNA T0334 247 :SDHLLNDSAVATQVPHDDDANGV 1zk7A 288 :QGAIVIDQGMRTSNPNIYAAGDC T0334 270 :EPFTS 1zk7A 366 :DGIET T0334 275 :AIAMK 1zk7A 372 :SRTLT T0334 280 :SGWTWKIPMLGRFGTGYVY 1zk7A 391 :GFIKLVIEEGSHRLIGVQA T0334 338 :AWVG 1zk7A 410 :VAPE T0334 364 :VYAALYQLVKHFPDKSLNPVLT 1zk7A 414 :AGELIQTAALAIRNRMTVQELA T0334 463 :RNFWNNS 1zk7A 436 :DQLFPYL T0334 470 :NYYCVLAGLG 1zk7A 447 :GLKLAAQTFN Number of specific fragments extracted= 23 number of extra gaps= 0 total=3204 Number of alignments=137 # 1zk7A read from 1zk7A/merged-good-all-a2m # found chain 1zk7A in template set Warning: unaligning (T0334)S2 because first residue in template chain is (1zk7A)M1 T0334 3 :GKIDKILIVGGGTAGWMAASYLGK 1zk7A 2 :EPPVQVAVIGSGGAAMAAALKAVE T0334 30 :GTADITLLQAPDIP 1zk7A 26 :QGAQVTLIERGTIG T0334 49 :E 1zk7A 40 :G T0334 51 :TIPNLQTAFF 1zk7A 53 :MIRAAHIAHL T0334 64 :GIPEDEWMREC 1zk7A 78 :TIDRSKLLAQQ T0334 75 :NASYKVAIKFINWRTAGEGTSEAREL 1zk7A 116 :EARFKDDQSLTVRLNEGGERVVMFDR T0334 101 :DGGPDHF 1zk7A 151 :AVPPIPG T0334 117 :HEQIPLSHYWFDRSYRGKT 1zk7A 158 :LKESPYWTSTEALASDTIP T0334 137 :EPFDYACYKEPVILDANR 1zk7A 184 :SSVVALELAQAFARLGSK T0334 155 :S 1zk7A 206 :A T0334 158 :RLDGSKV 1zk7A 207 :RNTLFFR T0334 172 :DAHLVADFLRRFATEKLGVRHVEDRVEHVQRDANG 1zk7A 214 :EDPAIGEAVTAAFRAEGIEVLEHTQASQVAHMDGE T0334 209 :ESVRTAT 1zk7A 249 :FVLTTTH T0334 217 :RVFDADLFVDCSGF 1zk7A 256 :GELRADKLLVATGR T0334 240 :EEPFLDMSDH 1zk7A 272 :NTRSLALDAA T0334 321 :ETQPLNRIRFRVGR 1zk7A 284 :TVNAQGAIVIDQGM T0334 337 :RAWVGNCVSIGTSSCFVEP 1zk7A 298 :RTSNPNIYAAGDCTDQPQF T0334 361 :IYFVYAALYQLVKHFPDKSL 1zk7A 317 :VYVAAAAGTRAAINMTGGDA Number of specific fragments extracted= 18 number of extra gaps= 0 total=3222 Number of alignments=138 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1x31B/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334/1x31B/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0334/1x31B/merged-good-all-a2m.gz for input Trying 1x31B/merged-good-all-a2m Error: Couldn't open file 1x31B/merged-good-all-a2m or 1x31B/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 2cvjA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2cvjA expands to /projects/compbio/data/pdb/2cvj.pdb.gz 2cvjA:Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M # T0334 read from 2cvjA/merged-good-all-a2m # 2cvjA read from 2cvjA/merged-good-all-a2m # adding 2cvjA to template set # found chain 2cvjA in template set T0334 6 :DKILIVGGGTAGWMAASYLGK 2cvjA 2 :WDVIVVGGGPSGLSAALFLAR T0334 30 :GTADITLLQAPDIP 2cvjA 23 :AGLKVLVLDGGRSK T0334 62 :FLGI 2cvjA 37 :VKGV T0334 137 :EPFD 2cvjA 41 :SRVP T0334 154 :RSP 2cvjA 45 :NYP T0334 161 :GSKVT 2cvjA 48 :GLLDE T0334 171 :FDAHLVADFLRRFA 2cvjA 53 :PSGEELLRRLEAHA T0334 186 :EKLGVRHVEDRVEHVQRDANG 2cvjA 67 :RRYGAEVRPGVVKGVRDMGGV T0334 209 :ESVRTATG 2cvjA 88 :FEVETEEG T0334 218 :VFDADLFVDCSGFRGLL 2cvjA 96 :VEKAERLLLCTHKDPTL T0334 236 :NKAMEEPFLD 2cvjA 113 :PSLLGLTRRG T0334 249 :H 2cvjA 123 :A T0334 272 :FTSA 2cvjA 124 :YIDT T0334 279 :KSG 2cvjA 128 :DEG T0334 336 :RRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFPDKSLN 2cvjA 131 :GRTSYPRVYAAGVARGKVPGHAIISAGDGAYVAVHLVSDLRGEPYK Number of specific fragments extracted= 15 number of extra gaps= 0 total=3237 Number of alignments=139 # 2cvjA read from 2cvjA/merged-good-all-a2m # found chain 2cvjA in template set Warning: unaligning (T0334)D6 because first residue in template chain is (2cvjA)M1 T0334 7 :KILIVGGGTAGWMAASYLGK 2cvjA 3 :DVIVVGGGPSGLSAALFLAR T0334 29 :QGT 2cvjA 23 :AGL T0334 33 :DITLLQAP 2cvjA 26 :KVLVLDGG T0334 96 :EARELDG 2cvjA 34 :RSKVKGV T0334 115 :KYHE 2cvjA 42 :RVPN T0334 152 :ANRSPRRL 2cvjA 46 :YPGLLDEP T0334 172 :DAHLVADFLRRFA 2cvjA 54 :SGEELLRRLEAHA T0334 186 :EKLGVRHVEDRVEHVQRDAN 2cvjA 67 :RRYGAEVRPGVVKGVRDMGG T0334 207 :N 2cvjA 87 :V T0334 209 :ESVRTATG 2cvjA 88 :FEVETEEG T0334 218 :VFDADLFVDCSG 2cvjA 96 :VEKAERLLLCTH T0334 231 :RGLLINKAMEEPFL 2cvjA 108 :KDPTLPSLLGLTRR T0334 247 :SDHLLNDSAVA 2cvjA 122 :GAYIDTDEGGR T0334 338 :AWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFPDKSLN 2cvjA 133 :TSYPRVYAAGVARGKVPGHAIISAGDGAYVAVHLVSDLRGEPYK Number of specific fragments extracted= 14 number of extra gaps= 0 total=3251 Number of alignments=140 # 2cvjA read from 2cvjA/merged-good-all-a2m # found chain 2cvjA in template set T0334 7 :KILIVGGGTAGWMAASYLGK 2cvjA 3 :DVIVVGGGPSGLSAALFLAR T0334 30 :GTADITLLQAPDI 2cvjA 23 :AGLKVLVLDGGRS T0334 61 :DFLGIP 2cvjA 36 :KVKGVS T0334 154 :RSPRRLDGSKVTN 2cvjA 42 :RVPNYPGLLDEPS T0334 173 :AHLVADFLRRFATEKLGVRHVE 2cvjA 55 :GEELLRRLEAHARRYGAEVRPG T0334 196 :RVEHVQRDANG 2cvjA 77 :VVKGVRDMGGV T0334 209 :ESVRTAT 2cvjA 88 :FEVETEE T0334 217 :RVFDADLFVDCSGFRGLLIN 2cvjA 95 :GVEKAERLLLCTHKDPTLPS T0334 238 :AMEEPF 2cvjA 115 :LLGLTR T0334 326 :NRIRFRVGRNRRAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFPDKSLN 2cvjA 121 :RGAYIDTDEGGRTSYPRVYAAGVARGKVPGHAIISAGDGAYVAVHLVSDLRGEPYK Number of specific fragments extracted= 10 number of extra gaps= 0 total=3261 Number of alignments=141 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1vdc/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1vdc expands to /projects/compbio/data/pdb/1vdc.pdb.gz 1vdc:Warning: there is no chain 1vdc will retry with 1vdcA # T0334 read from 1vdc/merged-good-all-a2m # 1vdc read from 1vdc/merged-good-all-a2m # adding 1vdc to template set # found chain 1vdc in template set Warning: unaligning (T0334)E321 because of BadResidue code BAD_PEPTIDE in next template residue (1vdc)D216 Warning: unaligning (T0334)T322 because of BadResidue code BAD_PEPTIDE at template residue (1vdc)D216 Warning: unaligning (T0334)V506 because last residue in template chain is (1vdc)I316 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1vdc 5 :NTRLCIVGSGPAAHTAAIYAAR T0334 30 :GTADITLLQAPDIPTLGVGEATIP 1vdc 27 :AELKPLLFEGWMANDIAPGGQLTT T0334 144 :YKEPVI 1vdc 46 :TTDVEN T0334 155 :SPRRLDG 1vdc 52 :FPGFPEG T0334 171 :FDAHLVADFLRRFA 1vdc 59 :ILGVELTDKFRKQS T0334 186 :EKLGVRHVEDRVEHVQR 1vdc 73 :ERFGTTIFTETVTKVDF T0334 204 :ANGN 1vdc 90 :SSKP T0334 209 :ESVRTATG 1vdc 94 :FKLFTDSK T0334 218 :VFDADLFVDCSGFR 1vdc 102 :AILADAVILAIGAV T0334 236 :NKAMEEPFLDMSDHLLNDSAV 1vdc 116 :AKRLSFVGSGEVLGGFWNRGI T0334 272 :FTSAIAMKSG 1vdc 133 :SACAVCDGAA T0334 287 :PM 1vdc 141B:PI T0334 289 :LGR 1vdc 144 :RNK T0334 292 :FGT 1vdc 148 :LAV T0334 295 :GYVYSSRFATE 1vdc 172 :YIIHRRDAFRA T0334 306 :DEAVREFCEMW 1vdc 184 :KIMQQRALSNP T0334 319 :DP 1vdc 213 :GE T0334 323 :Q 1vdc 217 :V T0334 324 :PLNRIRFRVG 1vdc 228 :TGDVSDLKVS T0334 339 :WVGNCVSIGTSSCFVEPL 1vdc 277 :SVPGVFAAGDVQDKKYRQ T0334 361 :IYFVYAALYQLV 1vdc 295 :AITAAGTGCMAA T0334 497 :ESVDEVFGA 1vdc 307 :LDAEHYLQE Number of specific fragments extracted= 22 number of extra gaps= 1 total=3283 Number of alignments=142 # 1vdc read from 1vdc/merged-good-all-a2m # found chain 1vdc in template set Warning: unaligning (T0334)G206 because of BadResidue code BAD_PEPTIDE in next template residue (1vdc)D216 Warning: unaligning (T0334)V506 because last residue in template chain is (1vdc)I316 T0334 5 :ID 1vdc 2 :ET T0334 7 :KILIVGGGTAGWMAASYLGK 1vdc 7 :RLCIVGSGPAAHTAAIYAAR T0334 29 :QGT 1vdc 27 :AEL T0334 33 :DITLLQAPDIPTLGVGEATIPN 1vdc 30 :KPLLFEGWMANDIAPGGQLTTT T0334 57 :TAFFDFLGIPED 1vdc 47 :TDVENFPGFPEG T0334 69 :EWMRECNAS 1vdc 70 :KQSERFGTT T0334 96 :EARELDG 1vdc 118 :RLSFVGS T0334 103 :GPDHFYHSFGLL 1vdc 126 :EVLGGFWNRGIS T0334 115 :KYHEQIPLSHYWFDRSYRG 1vdc 143 :FRNKPLAVIGGGDSAMEEA T0334 139 :FDYACYKEPVILD 1vdc 162 :NFLTKYGSKVYII T0334 152 :ANRSPRR 1vdc 176 :RRDAFRA T0334 172 :DAHL 1vdc 183 :SKIM T0334 181 :RRFATEKLGVRHVED 1vdc 187 :QQRALSNPKIDVIWN T0334 196 :RVEHVQRDAN 1vdc 203 :SVVEAYGDGE T0334 207 :NIESVRTAT 1vdc 217 :VLGGLKVKN T0334 216 :GR 1vdc 229 :GD T0334 218 :VFDADLFVDCSGFRG 1vdc 233 :DLKVSGLFFAIGHEP T0334 233 :LLI 1vdc 250 :KFL T0334 247 :SDHLLNDSAVATQVP 1vdc 253 :DGGVELDSDGYVVTK T0334 289 :LGRFG 1vdc 267 :PGTTQ T0334 338 :AWVGNCVSIGTSSCFVEP 1vdc 276 :TSVPGVFAAGDVQDKKYR T0334 360 :GIYFVYAALYQLV 1vdc 294 :QAITAAGTGCMAA T0334 497 :ESVDEVFGA 1vdc 307 :LDAEHYLQE Number of specific fragments extracted= 23 number of extra gaps= 1 total=3306 Number of alignments=143 # 1vdc read from 1vdc/merged-good-all-a2m # found chain 1vdc in template set Warning: unaligning (T0334)K378 because last residue in template chain is (1vdc)I316 T0334 7 :KILIVGGGTAGWMAASYLGK 1vdc 7 :RLCIVGSGPAAHTAAIYAAR T0334 30 :GTADITLLQAPDIPTLGVGEATI 1vdc 27 :AELKPLLFEGWMANDIAPGGQLT T0334 80 :VAIKFINWRTAGEGT 1vdc 45 :TTTDVENFPGFPEGI T0334 172 :DAHLVADFLRRFATEKLGVRHVE 1vdc 60 :LGVELTDKFRKQSERFGTTIFTE T0334 196 :RVEHVQRDANG 1vdc 83 :TVTKVDFSSKP T0334 209 :ESVRTAT 1vdc 94 :FKLFTDS T0334 217 :RVFDADLFVDCSGF 1vdc 101 :KAILADAVILAIGA T0334 256 :VATQVPHDDDANGVEPFTS 1vdc 115 :VAKRLSFVGSGEVLGGFWN T0334 329 :RFRVGRN 1vdc 264 :VTKPGTT T0334 337 :RAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFPD 1vdc 275 :QTSVPGVFAAGDVQDKKYRQAITAAGTGCMAALDAEHYLQE Number of specific fragments extracted= 10 number of extra gaps= 0 total=3316 Number of alignments=144 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1q1rA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1q1rA expands to /projects/compbio/data/pdb/1q1r.pdb.gz 1q1rA:# T0334 read from 1q1rA/merged-good-all-a2m # 1q1rA read from 1q1rA/merged-good-all-a2m # adding 1q1rA to template set # found chain 1q1rA in template set T0334 5 :IDKILIVGGGTAGWMAASYLGK 1q1rA 4 :NDNVVIVGTGLAGVEVAFGLRA T0334 30 :GTA 1q1rA 26 :SGW T0334 33 :DITLLQAPDIPTLGVGEA 1q1rA 31 :NIRLVGDATVIPHHLPPL T0334 55 :LQ 1q1rA 49 :SK T0334 96 :EARELDGGPDHFYHSF 1q1rA 51 :AYLAGKATAESLYLRT T0334 123 :SHYWFDRS 1q1rA 67 :PDAYAAQN T0334 136 :VEPFDYACYKEPVILD 1q1rA 75 :IQLLGGTQVTAINRDR T0334 152 :ANRSPRRLDGSKVTNYAW 1q1rA 114 :PRPLPVASGAVGKANNFR T0334 170 :HFDAHLVADFLRRFA 1q1rA 187 :RVTAPPVSAFYEHLH T0334 186 :EKLGVRHVED 1q1rA 202 :REAGVDIRTG T0334 196 :RVEHVQRDANGN 1q1rA 213 :QVCGFEMSTDQQ T0334 208 :IESVRTATGRVFDADLFVDCSGFRGL 1q1rA 226 :VTAVLCEDGTRLPADLVIAGIGLIPN T0334 235 :INKAMEEPFLD 1q1rA 254 :LASAAGLQVDN T0334 246 :MSDHLLNDSAVATQVPH 1q1rA 276 :DPLIMAVGDCARFHSQL T0334 264 :DD 1q1rA 293 :YD T0334 266 :ANGVEPFTSAIAMKSGWTWKIPMLGR 1q1rA 321 :PRDEAAPWFWSDQYEIGLKMVGLSEG T0334 292 :FGTGYVYSSRFATE 1q1rA 348 :DRIIVRGSLAQPDF T0334 306 :DEAVREFCEMW 1q1rA 380 :PVEFNQSKQII T0334 317 :HLDP 1q1rA 392 :DRLP T0334 335 :NRR 1q1rA 396 :VEP T0334 373 :KHFPD 1q1rA 399 :NLLGD T0334 378 :KSLNPVLTARFNREIET 1q1rA 405 :SVPLKEIIAAAKAELSS Number of specific fragments extracted= 22 number of extra gaps= 0 total=3338 Number of alignments=145 # 1q1rA read from 1q1rA/merged-good-all-a2m # found chain 1q1rA in template set Warning: unaligning (T0334)K4 because first residue in template chain is (1q1rA)N2 T0334 5 :ID 1q1rA 3 :AN T0334 7 :KILIVGGGTAGWMAASYLGK 1q1rA 6 :NVVIVGTGLAGVEVAFGLRA T0334 29 :QGTA 1q1rA 26 :SGWE T0334 33 :DITLLQAPD 1q1rA 31 :NIRLVGDAT T0334 42 :IPTLGVGEATIPNLQTAFFDFLGIPEDEWMRECNASYKVAIKFINWRTAGEGTS 1q1rA 41 :IPHHLPPLSKAYLAGKATAESLYLRTPDAYAAQNIQLLGGTQVTAINRDRQQVI T0334 96 :EARELDG 1q1rA 116 :PLPVASG T0334 103 :GPDHFYHSFGLL 1q1rA 126 :KANNFRYLRTLE T0334 115 :KYHEQIPLSHYWFDRSYRG 1q1rA 147 :IADNRLVVIGGGYIGLEVA T0334 139 :FDYACYKEPVILD 1q1rA 166 :ATAIKANMHVTLL T0334 152 :ANRSPRRLD 1q1rA 180 :TAARVLERV T0334 172 :DAHLVADFLRRFA 1q1rA 189 :TAPPVSAFYEHLH T0334 186 :EKLGVRHVED 1q1rA 202 :REAGVDIRTG T0334 196 :RVEHVQRDANG 1q1rA 213 :QVCGFEMSTDQ T0334 207 :NIESVRTATGRVFDADLFVDCSGFRG 1q1rA 225 :KVTAVLCEDGTRLPADLVIAGIGLIP T0334 233 :LLINKAMEEPF 1q1rA 252 :CELASAAGLQV T0334 247 :SDHLLNDSAVATQVPHDDDANGV 1q1rA 263 :DNGIVINEHMQTSDPLIMAVGDC T0334 270 :EPFTSAIAMKSGWTWKIPM 1q1rA 325 :AAPWFWSDQYEIGLKMVGL T0334 289 :LGRFGTGYVYSSRFATE 1q1rA 345 :EGYDRIIVRGSLAQPDF T0334 306 :DEAVREFCEM 1q1rA 380 :PVEFNQSKQI T0334 316 :WHLDP 1q1rA 391 :TDRLP T0334 321 :ETQP 1q1rA 404 :ESVP T0334 499 :VDEVFGAVKDRQRN 1q1rA 408 :LKEIIAAAKAELSS Number of specific fragments extracted= 22 number of extra gaps= 0 total=3360 Number of alignments=146 # 1q1rA read from 1q1rA/merged-good-all-a2m # found chain 1q1rA in template set T0334 6 :DKILIVGGGTAGWMAASYLGK 1q1rA 150 :NRLVVIGGGYIGLEVAATAIK T0334 30 :GTADITLLQAPDI 1q1rA 171 :ANMHVTLLDTAAR T0334 46 :GVGEATIPNLQTAF 1q1rA 184 :VLERVTAPPVSAFY T0334 181 :RRFATEKLGVRHVEDRVEHVQRDANGN 1q1rA 198 :EHLHREAGVDIRTGTQVCGFEMSTDQQ T0334 208 :IESVRTATGRVFDADLFVDCSGF 1q1rA 226 :VTAVLCEDGTRLPADLVIAGIGL T0334 231 :RGLLI 1q1rA 251 :NCELA T0334 237 :KAMEEP 1q1rA 256 :SAAGLQ T0334 292 :FGTGYVYSSRFA 1q1rA 262 :VDNGIVINEHMQ T0334 338 :AWVGNCVSIGTSSCFVEPLE 1q1rA 274 :TSDPLIMAVGDCARFHSQLY T0334 358 :STGIYFVYAALYQLVKHFPDKSLNPV 1q1rA 299 :IESVPNALEQARKIAAILCGKVPRDE T0334 405 :AHFYFSP 1q1rA 362 :SVFYLQG T0334 425 :RLADGMQEKIDMYRAGMAINAPASDDAQL 1q1rA 378 :NRPVEFNQSKQIITDRLPVEPNLLGDESV T0334 491 :HMPQATESVDEVFGA 1q1rA 407 :PLKEIIAAAKAELSS Number of specific fragments extracted= 13 number of extra gaps= 0 total=3373 Number of alignments=147 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1cj2A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334/1cj2A/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0334/1cj2A/merged-good-all-a2m.gz for input Trying 1cj2A/merged-good-all-a2m Error: Couldn't open file 1cj2A/merged-good-all-a2m or 1cj2A/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1q9iA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1q9iA expands to /projects/compbio/data/pdb/1q9i.pdb.gz 1q9iA:# T0334 read from 1q9iA/merged-good-all-a2m # 1q9iA read from 1q9iA/merged-good-all-a2m # adding 1q9iA to template set # found chain 1q9iA in template set Warning: unaligning (T0334)P43 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1q9iA)G162 Warning: unaligning (T0334)T44 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1q9iA)G162 T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1q9iA 125 :DTVDVVVVGSGGAGFSAAISATD T0334 30 :GTADITLLQAPDI 1q9iA 148 :SGAKVILIEKEPV T0334 45 :LGVGEATI 1q9iA 163 :GNAKLAAG T0334 57 :TAF 1q9iA 178 :DQQ T0334 61 :DFLGI 1q9iA 181 :KAKKI T0334 66 :PEDEWMRECNA 1q9iA 188 :SPELMFEDTMK T0334 77 :SYKVAIKFINWR 1q9iA 208 :LVKVLSSHSKDS T0334 123 :SHYWFDRSYR 1q9iA 220 :VDWMTAMGAD T0334 141 :YACYKEPVI 1q9iA 230 :LTDVGMMGG T0334 155 :SPRRL 1q9iA 239 :ASVNR T0334 162 :SKVTNYAW 1q9iA 244 :AHRPTGGC T0334 171 :FDAHLVADFLRRFAT 1q9iA 252 :GVGAHVVQVLYDNAV T0334 187 :KLGVRHVED 1q9iA 267 :KRNIDLRMN T0334 196 :RVEHVQRDANGNIESVRTA 1q9iA 277 :RGIEVLKDDKGTVKGILVK T0334 215 :TG 1q9iA 299 :KG T0334 217 :RVFDADLFVDCSGFRGL 1q9iA 302 :YWVKADAVILATGGFAK T0334 234 :L 1q9iA 323 :V T0334 236 :NKAM 1q9iA 324 :AKLD T0334 244 :LDMSDHLLNDS 1q9iA 328 :PSLKGFISTNQ T0334 267 :NGVE 1q9iA 339 :PGAV T0334 271 :PFTSAIAMKSGWTWKIPM 1q9iA 350 :ENAGGALKDMQYIQAHPT T0334 289 :LGRFGT 1q9iA 371 :KGGVMV T0334 295 :GYVYSSRFATE 1q9iA 384 :GAILVNREGKR T0334 306 :DEAVREFCEMW 1q9iA 459 :KALTETVARYN T0334 317 :HLDPETQ 1q9iA 475 :GKDTDFE T0334 324 :PLNRIRFRVG 1q9iA 493 :NYYAIEVTPG T0334 334 :RNRRAWVGNCVSIG 1q9iA 520 :NAKKQVIPGLYGAG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHF 1q9iA 537 :GGVHGANRLGGNAISDIITFGRLAGEEA Number of specific fragments extracted= 28 number of extra gaps= 1 total=3401 Number of alignments=148 # 1q9iA read from 1q9iA/merged-good-all-a2m # found chain 1q9iA in template set Warning: unaligning (T0334)I42 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1q9iA)G162 Warning: unaligning (T0334)P43 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1q9iA)G162 Warning: unaligning (T0334)P66 because of BadResidue code BAD_PEPTIDE in next template residue (1q9iA)W176 Warning: unaligning (T0334)E67 because of BadResidue code BAD_PEPTIDE at template residue (1q9iA)W176 T0334 3 :GKID 1q9iA 122 :APHD T0334 7 :KILIVGGGTAGWMAASYLGK 1q9iA 128 :DVVVVGSGGAGFSAAISATD T0334 29 :QGT 1q9iA 148 :SGA T0334 33 :DITLLQAPD 1q9iA 151 :KVILIEKEP T0334 44 :TL 1q9iA 163 :GN T0334 59 :FFDFLGI 1q9iA 168 :AAGGMNA T0334 68 :DEWMRECNASYKVAIKFINWRTAGEGTS 1q9iA 177 :TDQQKAKKITDSPELMFEDTMKGGQNIN T0334 96 :EARELDGGPDHFYHSFGLL 1q9iA 222 :WMTAMGADLTDVGMMGGAS T0334 115 :KYHE 1q9iA 246 :RPTG T0334 152 :AN 1q9iA 251 :CG T0334 172 :DAHLVADFLRRFA 1q9iA 253 :VGAHVVQVLYDNA T0334 186 :EKLGVRHVED 1q9iA 266 :VKRNIDLRMN T0334 196 :RVEHVQRDANGNIESVRTA 1q9iA 277 :RGIEVLKDDKGTVKGILVK T0334 215 :T 1q9iA 297 :M T0334 216 :GR 1q9iA 299 :KG T0334 218 :VFDADLFVDCSGFRG 1q9iA 303 :WVKADAVILATGGFA T0334 233 :LLINKAM 1q9iA 321 :ERVAKLD T0334 264 :DDANGVEPFTSAIAMK 1q9iA 328 :PSLKGFISTNQPGAVG T0334 280 :SGWTWKIPM 1q9iA 359 :MQYIQAHPT T0334 289 :LGR 1q9iA 371 :KGG T0334 292 :FGTGYVYSSRFATE 1q9iA 383 :NGAILVNREGKRFV T0334 306 :DEAVREFCEM 1q9iA 462 :TETVARYNSL T0334 316 :WHLDPETQPLNRIRF 1q9iA 473 :SSGKDTDFERPNLPR T0334 331 :RVGRNR 1q9iA 503 :VHHTMG T0334 337 :RAWVGNCVSIGTSSCFVEP 1q9iA 523 :KQVIPGLYGAGEVTGGVHG T0334 356 :LESTGIYFVYAALYQLVKHFP 1q9iA 545 :LGGNAISDIITFGRLAGEEAA Number of specific fragments extracted= 26 number of extra gaps= 2 total=3427 Number of alignments=149 # 1q9iA read from 1q9iA/merged-good-all-a2m # found chain 1q9iA in template set Warning: unaligning (T0334)L45 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1q9iA)G162 Warning: unaligning (T0334)G46 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1q9iA)G162 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1q9iA 126 :TVDVVVVGSGGAGFSAAISATD T0334 30 :GTADITLLQAPDI 1q9iA 148 :SGAKVILIEKEPV T0334 47 :VGEATI 1q9iA 163 :GNAKLA T0334 53 :P 1q9iA 178 :D T0334 58 :AF 1q9iA 179 :QQ T0334 61 :DFLGIPE 1q9iA 181 :KAKKITD T0334 68 :DEW 1q9iA 189 :PEL T0334 110 :SFGLLKYHEQIPLSHYWFDRSY 1q9iA 192 :MFEDTMKGGQNINDPALVKVLS T0334 137 :EPFDYACYKEPVILDANRSPRRLDGSKVT 1q9iA 214 :SHSKDSVDWMTAMGADLTDVGMMGGASVN T0334 168 :AWHF 1q9iA 243 :RAHR T0334 172 :DAHLVADFLRRFATEKLGVRHVEDRVEHVQRDANGNIESVRT 1q9iA 253 :VGAHVVQVLYDNAVKRNIDLRMNTRGIEVLKDDKGTVKGILV T0334 214 :ATGR 1q9iA 297 :MYKG T0334 218 :VFDADLFVDCSGFRG 1q9iA 303 :WVKADAVILATGGFA T0334 233 :LLINK 1q9iA 322 :RVAKL T0334 243 :FLDMSDHLLND 1q9iA 327 :DPSLKGFISTN T0334 307 :EAVREFCEMWHLDP 1q9iA 463 :ETVARYNSLVSSGK T0334 322 :TQ 1q9iA 477 :DT T0334 324 :PLNRIRFRVGRNRRA 1q9iA 493 :NYYAIEVTPGVHHTM T0334 339 :WVGNCVSIGTSSCFVEP 1q9iA 525 :VIPGLYGAGEVTGGVHG T0334 356 :LESTGIYFVYAALYQLVKHFPD 1q9iA 545 :LGGNAISDIITFGRLAGEEAAK Number of specific fragments extracted= 20 number of extra gaps= 1 total=3447 Number of alignments=150 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ebdA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ebdA expands to /projects/compbio/data/pdb/1ebd.pdb.gz 1ebdA:# T0334 read from 1ebdA/merged-good-all-a2m # 1ebdA read from 1ebdA/merged-good-all-a2m # adding 1ebdA to template set # found chain 1ebdA in template set T0334 4 :KIDKILIVGGGTAGWMAASYLGKA 1ebdA 8 :IETETLVVGAGPGGYVAAIRAAQL T0334 31 :TADITLLQAPDIPTLGVGEATIPN 1ebdA 32 :GQKVTIVEKGNLGGVCLNVGCIPS T0334 57 :TAF 1ebdA 56 :KAL T0334 66 :PE 1ebdA 84 :DF T0334 75 :NASYKVAIKFINWRTAGE 1ebdA 86 :AKVQEWKASVVKKLTGGV T0334 96 :EARELDGGP 1ebdA 104 :EGLLKGNKV T0334 105 :DHFYHSFGLL 1ebdA 125 :NTVRVVNGDS T0334 129 :RSYR 1ebdA 147 :TGSR T0334 136 :VEPFDYACYKEPVILD 1ebdA 151 :PIELPNFKFSNRILDS T0334 152 :ANRSPRRLDGSKVTNYAW 1ebdA 169 :ALNLGEVPKSLVVIGGGY T0334 170 :HFD 1ebdA 214 :GFE T0334 174 :HLVADFLRRFA 1ebdA 217 :KQMAAIIKKRL T0334 186 :EKLGVRHVED 1ebdA 228 :KKKGVEVVTN T0334 196 :RVEHVQRDANG 1ebdA 239 :LAKGAEEREDG T0334 209 :ESVRTA 1ebdA 250 :VTVTYE T0334 215 :TG 1ebdA 257 :NG T0334 217 :RVFDADLFVDCSGFRGLL 1ebdA 261 :KTIDADYVLVTVGRRPNT T0334 235 :IN 1ebdA 281 :LG T0334 237 :KAMEEPFLD 1ebdA 284 :EQIGIKMTN T0334 247 :SDHLLNDSAVATQV 1ebdA 293 :RGLIEVDQQCRTSV T0334 264 :DD 1ebdA 307 :PN T0334 266 :ANGVEPFTSAIAMKS 1ebdA 370 :DEGIDVIAAKFPFAA T0334 281 :GWTWKIPMLGRFGTGYVY 1ebdA 397 :FLKLVVRKEDGVIIGAQI T0334 299 :SSRFA 1ebdA 416 :GPNAS T0334 307 :EAVREFCEMW 1ebdA 421 :DMIAELGLAI T0334 317 :HL 1ebdA 433 :GM T0334 380 :L 1ebdA 435 :T Number of specific fragments extracted= 27 number of extra gaps= 0 total=3474 Number of alignments=151 # 1ebdA read from 1ebdA/merged-good-all-a2m # found chain 1ebdA in template set T0334 5 :ID 1ebdA 8 :IE T0334 7 :KILIVGGGTAGWMAASYLGK 1ebdA 11 :ETLVVGAGPGGYVAAIRAAQ T0334 29 :QGT 1ebdA 31 :LGQ T0334 33 :DITLLQAPDIPTLGVGEATIPN 1ebdA 34 :KVTIVEKGNLGGVCLNVGCIPS T0334 57 :TAF 1ebdA 56 :KAL T0334 82 :IKFINWRTAGEGTS 1ebdA 59 :ISASHRYEQAKHSE T0334 96 :EARELDG 1ebdA 151 :PIELPNF T0334 103 :GPDHFYHSFGLL 1ebdA 159 :FSNRILDSTGAL T0334 115 :KYHEQIPLSHYWFDRSYRG 1ebdA 174 :EVPKSLVVIGGGYIGIELG T0334 139 :FDYACYKEPVILD 1ebdA 193 :TAYANFGTKVTIL T0334 152 :ANRSPRRL 1ebdA 207 :GAGEILSG T0334 172 :DAHLVADFLRRFA 1ebdA 215 :FEKQMAAIIKKRL T0334 186 :EKLGVRHVED 1ebdA 228 :KKKGVEVVTN T0334 196 :RVEHVQRDANG 1ebdA 239 :LAKGAEEREDG T0334 209 :ESVRTA 1ebdA 250 :VTVTYE T0334 215 :TGR 1ebdA 257 :NGE T0334 218 :VFDADLFVDCSGFRG 1ebdA 262 :TIDADYVLVTVGRRP T0334 233 :LLINKAMEEPFLD 1ebdA 280 :ELGLEQIGIKMTN T0334 247 :SDHLLNDSAVATQVPHDDDANGV 1ebdA 293 :RGLIEVDQQCRTSVPNIFAIGDI T0334 280 :SGWTWKIPM 1ebdA 395 :DGFLKLVVR T0334 289 :LGRFGTGYVY 1ebdA 405 :EDGVIIGAQI T0334 346 :IGTS 1ebdA 415 :IGPN T0334 364 :VYAALYQLVKHFPDKSLNPVLTA 1ebdA 419 :ASDMIAELGLAIEAGMTAEDIAL Number of specific fragments extracted= 23 number of extra gaps= 0 total=3497 Number of alignments=152 # 1ebdA read from 1ebdA/merged-good-all-a2m # found chain 1ebdA in template set T0334 5 :IDKILIVGGGTAGWMAASYLGK 1ebdA 176 :PKSLVVIGGGYIGIELGTAYAN T0334 30 :GTADITLLQAPDI 1ebdA 198 :FGTKVTILEGAGE T0334 45 :LG 1ebdA 211 :IL T0334 63 :LGIP 1ebdA 213 :SGFE T0334 174 :HLVADFLRRFATEKLGVRHVEDRVEHVQRDANGNIESVRTATGR 1ebdA 217 :KQMAAIIKKRLKKKGVEVVTNALAKGAEEREDGVTVTYEANGET T0334 218 :VFDADLFVDCSGF 1ebdA 262 :TIDADYVLVTVGR T0334 260 :VPHDDDAN 1ebdA 275 :RPNTDELG T0334 316 :WHLDP 1ebdA 283 :LEQIG T0334 321 :ETQPLNRIRFRVGRN 1ebdA 289 :KMTNRGLIEVDQQCR T0334 338 :AWVGNCVSIGTSSCFV 1ebdA 304 :TSVPNIFAIGDIVPGP T0334 361 :IYFVYAALYQLVKHFPDKS 1ebdA 322 :AHKASYEGKVAAEAIAGHP Number of specific fragments extracted= 11 number of extra gaps= 0 total=3508 Number of alignments=153 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1e39A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1e39A expands to /projects/compbio/data/pdb/1e39.pdb.gz 1e39A:# T0334 read from 1e39A/merged-good-all-a2m # 1e39A read from 1e39A/merged-good-all-a2m # adding 1e39A to template set # found chain 1e39A in template set Warning: unaligning (T0334)N207 because of BadResidue code BAD_PEPTIDE in next template residue (1e39A)V289 Warning: unaligning (T0334)I208 because of BadResidue code BAD_PEPTIDE at template residue (1e39A)V289 T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1e39A 125 :DTVDVVVVGSGGAGFSAAISATD T0334 30 :GTADITLLQAPDIPTLGVGEATI 1e39A 148 :SGAKVILIEKEPVIGGNAKLAAG T0334 57 :TAF 1e39A 178 :DQQ T0334 61 :DFLGI 1e39A 181 :KAKKI T0334 66 :PEDEWMREC 1e39A 188 :SPELMFEDT T0334 75 :NASYKVAIKFINWR 1e39A 206 :PALVKVLSSHSKDS T0334 123 :SHYWFDRSYR 1e39A 220 :VDWMTAMGAD T0334 144 :YKEPVI 1e39A 230 :LTDVGM T0334 152 :ANRSPRRL 1e39A 236 :MGGASVNR T0334 162 :SKVTNYAW 1e39A 244 :AHRPTGGA T0334 171 :FDAHLVADFLRRFAT 1e39A 252 :GVGAHVVQVLYDNAV T0334 187 :KLGVRHVED 1e39A 267 :KRNIDLRMN T0334 196 :RVEHVQRDANG 1e39A 277 :RGIEVLKDDKG T0334 209 :ESVRTA 1e39A 290 :KGILVK T0334 215 :TG 1e39A 299 :KG T0334 217 :RVFDADLFVDCSGFRGL 1e39A 302 :YWVKADAVILATGGFAK T0334 234 :L 1e39A 323 :V T0334 236 :NKAM 1e39A 324 :AKLD T0334 244 :LDMSDHLLNDS 1e39A 328 :PSLKGFISTNQ T0334 267 :NGVE 1e39A 339 :PGAV T0334 273 :TSAIAMKSGWTWKIPM 1e39A 352 :AGGALKDMQYIQAAPT T0334 289 :LGRFGT 1e39A 371 :KGGVMV T0334 295 :GYVYSSRFATE 1e39A 384 :GAILVNREGKR T0334 306 :DEAVREFCEMW 1e39A 462 :TETVARYNSLV T0334 317 :HLDPETQ 1e39A 475 :GKDTDFE T0334 324 :PLNRIRFRVG 1e39A 493 :NYYAIEVTPG T0334 334 :RNRRAWVGNCVSIG 1e39A 520 :NAKKQVIPGLYGAG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHF 1e39A 537 :GGVHGANRLGGNAISDIITFGRLAGEEA Number of specific fragments extracted= 28 number of extra gaps= 1 total=3536 Number of alignments=154 # 1e39A read from 1e39A/merged-good-all-a2m # found chain 1e39A in template set Warning: unaligning (T0334)P66 because of BadResidue code BAD_PEPTIDE in next template residue (1e39A)W176 Warning: unaligning (T0334)E67 because of BadResidue code BAD_PEPTIDE at template residue (1e39A)W176 Warning: unaligning (T0334)N207 because of BadResidue code BAD_PEPTIDE in next template residue (1e39A)V289 Warning: unaligning (T0334)I208 because of BadResidue code BAD_PEPTIDE at template residue (1e39A)V289 T0334 3 :GKID 1e39A 122 :APHD T0334 7 :KILIVGGGTAGWMAASYLGK 1e39A 128 :DVVVVGSGGAGFSAAISATD T0334 29 :QGT 1e39A 148 :SGA T0334 33 :DITLLQAPD 1e39A 151 :KVILIEKEP T0334 42 :IPTL 1e39A 161 :IGGN T0334 59 :FFDFLGI 1e39A 168 :AAGGMNA T0334 68 :DEWMRECNASYKVAIKFINWRTAGEGTS 1e39A 177 :TDQQKAKKITDSPELMFEDTMKGGQNIN T0334 96 :EARELDGGPDHFYHSFGLL 1e39A 222 :WMTAMGADLTDVGMMGGAS T0334 115 :KYHE 1e39A 246 :RPTG T0334 152 :AN 1e39A 251 :AG T0334 172 :DAHLVADFLRRFA 1e39A 253 :VGAHVVQVLYDNA T0334 186 :EKLGVRHVED 1e39A 266 :VKRNIDLRMN T0334 196 :RVEHVQRDANG 1e39A 277 :RGIEVLKDDKG T0334 209 :ESVRTA 1e39A 290 :KGILVK T0334 215 :T 1e39A 297 :M T0334 216 :GR 1e39A 299 :KG T0334 218 :VFDADLFVDCSGFRG 1e39A 303 :WVKADAVILATGGFA T0334 233 :LLINKAM 1e39A 321 :ERVAKLD T0334 264 :DDANGVEPFTSAIAMK 1e39A 328 :PSLKGFISTNQPGAVG T0334 280 :SGWTWKIPM 1e39A 359 :MQYIQAAPT T0334 289 :LGR 1e39A 371 :KGG T0334 292 :FGTGYVYSSRFATE 1e39A 383 :NGAILVNREGKRFV T0334 306 :DEAVREFCEM 1e39A 462 :TETVARYNSL T0334 316 :WHLDPETQPLNRIRF 1e39A 473 :SSGKDTDFERPNLPR T0334 331 :RVGRNR 1e39A 503 :VHHTMG T0334 337 :RAWVGNCVSIGTSSCFVEP 1e39A 523 :KQVIPGLYGAGEVTGGVHG T0334 356 :LESTGIYFVYAALYQLVKHFP 1e39A 545 :LGGNAISDIITFGRLAGEEAA Number of specific fragments extracted= 27 number of extra gaps= 2 total=3563 Number of alignments=155 # 1e39A read from 1e39A/merged-good-all-a2m # found chain 1e39A in template set Warning: unaligning (T0334)N207 because of BadResidue code BAD_PEPTIDE in next template residue (1e39A)V289 Warning: unaligning (T0334)I208 because of BadResidue code BAD_PEPTIDE at template residue (1e39A)V289 T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1e39A 125 :DTVDVVVVGSGGAGFSAAISATD T0334 30 :GTADITLLQAPD 1e39A 148 :SGAKVILIEKEP T0334 44 :TLGVGEATI 1e39A 160 :VIGGNAKLA T0334 57 :TAF 1e39A 178 :DQQ T0334 61 :DFLGI 1e39A 181 :KAKKI T0334 66 :PEDE 1e39A 188 :SPEL T0334 110 :SFGLLKYHEQIPLSHYWFDRSY 1e39A 192 :MFEDTMKGGQNINDPALVKVLS T0334 137 :EPFDYACYKEPVILDANRSPRRLDGSKVTN 1e39A 214 :SHSKDSVDWMTAMGADLTDVGMMGGASVNR T0334 169 :WHF 1e39A 244 :AHR T0334 172 :DAHLVADFLRRFATEKLGVRHVEDRVEHVQRDANG 1e39A 253 :VGAHVVQVLYDNAVKRNIDLRMNTRGIEVLKDDKG T0334 209 :ESVRT 1e39A 290 :KGILV T0334 214 :ATGR 1e39A 297 :MYKG T0334 218 :VFDADLFVDCSGFRG 1e39A 303 :WVKADAVILATGGFA T0334 233 :LLINK 1e39A 322 :RVAKL T0334 243 :FLDMSDHLLND 1e39A 327 :DPSLKGFISTN T0334 307 :EAVREFCEMWHLDP 1e39A 463 :ETVARYNSLVSSGK T0334 322 :TQ 1e39A 477 :DT T0334 324 :PLNRIRFRVGRNRRA 1e39A 493 :NYYAIEVTPGVHHTM T0334 339 :WVGNCVSIGTSSCFVEP 1e39A 525 :VIPGLYGAGEVTGGVHG T0334 356 :LESTGIYFVYAALYQLVKHFPD 1e39A 545 :LGGNAISDIITFGRLAGEEAAK Number of specific fragments extracted= 20 number of extra gaps= 1 total=3583 Number of alignments=156 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1gv4A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1gv4A expands to /projects/compbio/data/pdb/1gv4.pdb.gz 1gv4A:# T0334 read from 1gv4A/merged-good-all-a2m # 1gv4A read from 1gv4A/merged-good-all-a2m # adding 1gv4A to template set # found chain 1gv4A in template set T0334 2 :SGKIDKILIVGGGTAGWMAASYLGK 1gv4A 127 :APSHVPFLLIGGGTAAFAAARSIRA T0334 28 :LQGTADITLLQAPDIPTLGVGEATI 1gv4A 152 :RDPGARVLIVSEDPELPYMRPPLSK T0334 61 :DFLGIPEDEW 1gv4A 177 :ELWFSDDPNV T0334 127 :FDR 1gv4A 187 :TKT T0334 136 :VE 1gv4A 190 :LQ T0334 141 :YACYKEPVILDANRSPRR 1gv4A 192 :FRQWNGKERSIYFQPPSF T0334 159 :LDGSKVTNYAW 1gv4A 213 :AQDLPNIENGG T0334 170 :HFD 1gv4A 342 :ILP T0334 174 :HLVADFLRRFA 1gv4A 345 :QYLSNWTMEKV T0334 186 :EKLGVRHVED 1gv4A 356 :KREGVKVMPN T0334 196 :RVEHVQRDANG 1gv4A 367 :IVQSVGVSGGR T0334 209 :ESVRTATGRVFDADLFVDCSGFRGLL 1gv4A 378 :LLIKLKDGRKVETDHIVTAVGLEPNV T0334 235 :INKAMEEPFLDMSDH 1gv4A 405 :LAKTGGLEIDSDFGG T0334 250 :LLNDSAVAT 1gv4A 426 :LQARSNIWV T0334 266 :ANGVE 1gv4A 472 :AKPYW T0334 271 :PFTSAIA 1gv4A 478 :QSMFWSD T0334 278 :MKSGWTWKIPM 1gv4A 486 :GPDVGYEAIGL T0334 289 :LGR 1gv4A 499 :SSL T0334 292 :FGTGYVYSSRFATEDEAVREF 1gv4A 503 :TVGVFAKATAQDNPKSATEQS T0334 313 :CEMW 1gv4A 529 :SESE T0334 317 :HLDPETQPLNRIRFRVGRNRRAWV 1gv4A 550 :PQVPVEGEDYGKGVIFYLRDKVVV T0334 342 :NCVSIG 1gv4A 574 :GIVLWN T0334 361 :IYFVYAALYQ 1gv4A 584 :MPIARKIIKD Number of specific fragments extracted= 23 number of extra gaps= 0 total=3606 Number of alignments=157 # 1gv4A read from 1gv4A/merged-good-all-a2m # found chain 1gv4A in template set T0334 3 :GKID 1gv4A 127 :APSH T0334 7 :KILIVGGGTAGWMAASYLGK 1gv4A 132 :PFLLIGGGTAAFAAARSIRA T0334 28 :L 1gv4A 152 :R T0334 29 :QGT 1gv4A 154 :PGA T0334 33 :DITLLQAPD 1gv4A 157 :RVLIVSEDP T0334 42 :IPTLGVG 1gv4A 167 :LPYMRPP T0334 57 :TAF 1gv4A 174 :LSK T0334 61 :DFLGIPEDEWMRECNAS 1gv4A 177 :ELWFSDDPNVTKTLQFR T0334 78 :YKVAIKFINWRTAGEGTS 1gv4A 195 :WNGKERSIYFQPPSFYVS T0334 96 :EARELDG 1gv4A 215 :DLPNIEN T0334 123 :SHYWFDRSYRGKTVEP 1gv4A 222 :GGVAVLTGKKVVHLDV T0334 139 :FDYACYKEPVILD 1gv4A 320 :RKSQASGIEVIQL T0334 152 :ANRSPRRLD 1gv4A 334 :PEKGNMGKI T0334 172 :DAHLVADFLRRFA 1gv4A 343 :LPQYLSNWTMEKV T0334 186 :EKLGVRHVED 1gv4A 356 :KREGVKVMPN T0334 196 :RVEHVQRDAN 1gv4A 367 :IVQSVGVSGG T0334 207 :NIE 1gv4A 377 :RLL T0334 211 :VRTATGRVFDADLFVDCSGFRG 1gv4A 380 :IKLKDGRKVETDHIVTAVGLEP T0334 233 :LLINKAMEEPFLDMSDHLLNDSAV 1gv4A 403 :VELAKTGGLEIDSDFGGFRVNAEL T0334 338 :AWVGNCVSIGTSSCF 1gv4A 427 :QARSNIWVAGDAACF T0334 363 :FVYAALYQLVKHFPDKSLN 1gv4A 456 :HAVVSGRLAGENMTGAAKP Number of specific fragments extracted= 21 number of extra gaps= 0 total=3627 Number of alignments=158 # 1gv4A read from 1gv4A/merged-good-all-a2m # found chain 1gv4A in template set T0334 4 :KIDKILIVGGGTAGWMAASYLGKAL 1gv4A 298 :EVKSITVIGGGFLGSELACALGRKS T0334 29 :QGTADITLLQAPDI 1gv4A 324 :ASGIEVIQLFPEKG T0334 46 :GVGEATIPNLQTAF 1gv4A 338 :NMGKILPQYLSNWT T0334 181 :RRFATEKLGVRHVEDRVEHVQRDANG 1gv4A 352 :MEKVKREGVKVMPNAIVQSVGVSGGR T0334 209 :ESVRTATGRVFDADLFVDCSGF 1gv4A 378 :LLIKLKDGRKVETDHIVTAVGL T0334 235 :INKAMEEPFLDMSDHLL 1gv4A 405 :LAKTGGLEIDSDFGGFR T0334 260 :V 1gv4A 422 :V T0334 300 :SRFA 1gv4A 423 :NAEL T0334 338 :AWVGNCVSIGTSSCFVE 1gv4A 427 :QARSNIWVAGDAACFYD T0334 358 :STGIYFVYAALYQLVKHFPDKSL 1gv4A 451 :VEHHDHAVVSGRLAGENMTGAAK Number of specific fragments extracted= 10 number of extra gaps= 0 total=3637 Number of alignments=159 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1f8rA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1f8rA expands to /projects/compbio/data/pdb/1f8r.pdb.gz 1f8rA:# T0334 read from 1f8rA/merged-good-all-a2m # 1f8rA read from 1f8rA/merged-good-all-a2m # adding 1f8rA to template set # found chain 1f8rA in template set T0334 3 :GKIDKILIVGGGTAGWMAASYLGK 1f8rA 31 :SNPKHVVIVGAGMAGLSAAYVLAG T0334 30 :GTADITLLQAP 1f8rA 55 :AGHQVTVLEAS T0334 41 :DI 1f8rA 67 :RP T0334 45 :LGVGEATIPNLQTAF 1f8rA 88 :PMRLPEKHRIVREYI T0334 61 :DFLGI 1f8rA 103 :RKFDL T0334 96 :EARELDGGPDHFYHSFG 1f8rA 108 :RLNEFSQENDNAWYFIK T0334 123 :SHYWFDR 1f8rA 130 :VGEVKKD T0334 141 :YACYKEPVI 1f8rA 137 :PGLLKYPVK T0334 152 :ANRS 1f8rA 146 :PSEA T0334 173 :AHLVADFLRRFA 1f8rA 240 :MDKLPTAMYRDI T0334 186 :EKL 1f8rA 252 :QDK T0334 192 :HVED 1f8rA 255 :VHFN T0334 196 :RVEHVQRDANG 1f8rA 260 :QVIKIQQNDQK T0334 209 :ESVRTA 1f8rA 271 :VTVVYE T0334 215 :TG 1f8rA 279 :SK T0334 217 :RVFDADLFVDCS 1f8rA 283 :PSVTADYVIVCT T0334 231 :RGLL 1f8rA 295 :TSRA T0334 236 :NKA 1f8rA 299 :VRL T0334 239 :MEEPFLDM 1f8rA 304 :FNPPLLPK T0334 250 :LLNDSAVATQVPHDDDANGVEPFTSAIAMKSGWTWKIPM 1f8rA 321 :YRSGTKIFLTCTTKFWEDDGIHGGKSTTDLPSRFIYYPN T0334 289 :LGR 1f8rA 363 :TNG T0334 292 :FGTGYVYSSRFATE 1f8rA 367 :GVIIAYGIGDDANF T0334 306 :DEAVREFCEMW 1f8rA 387 :KDCADIVFNDL T0334 317 :HLDPETQ 1f8rA 402 :QLPKKDI T0334 328 :IRFRVG 1f8rA 413 :YPSVIQ T0334 337 :RA 1f8rA 419 :KW T0334 339 :WVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKH 1f8rA 448 :SQGRIYFAGEYTAQAHGWIDSTIKSGLRAARDVNLA Number of specific fragments extracted= 27 number of extra gaps= 0 total=3664 Number of alignments=160 # 1f8rA read from 1f8rA/merged-good-all-a2m # found chain 1f8rA in template set T0334 3 :GKID 1f8rA 30 :TSNP T0334 7 :KILIVGGGTAGWMAASYLGK 1f8rA 35 :HVVIVGAGMAGLSAAYVLAG T0334 29 :QGT 1f8rA 55 :AGH T0334 33 :DITLLQAPD 1f8rA 58 :QVTVLEASE T0334 42 :IPTL 1f8rA 68 :PGGR T0334 69 :EWMRECNAS 1f8rA 100 :EYIRKFDLR T0334 96 :EARELDGGPDHFYHSFGLL 1f8rA 109 :LNEFSQENDNAWYFIKNIR T0334 115 :KYHE 1f8rA 136 :DPGL T0334 152 :ANRSPRRLDGSKVTNYAWHF 1f8rA 141 :KYPVKPSEAGKSAGQLYEES T0334 172 :DAHLVADFLRRFA 1f8rA 239 :GMDKLPTAMYRDI T0334 186 :EK 1f8rA 252 :QD T0334 191 :RHVED 1f8rA 254 :KVHFN T0334 196 :RVEHVQRDANG 1f8rA 260 :QVIKIQQNDQK T0334 209 :ESVRTA 1f8rA 271 :VTVVYE T0334 215 :TGR 1f8rA 279 :SKE T0334 218 :VFDADLFVDCS 1f8rA 284 :SVTADYVIVCT T0334 231 :RGLLI 1f8rA 295 :TSRAV T0334 237 :KAMEEPFLDM 1f8rA 300 :RLIKFNPPLL T0334 247 :SDHLLNDSAVATQVPHDDDANGVEPFTSAIAMKSGWTWKIPM 1f8rA 319 :VHYRSGTKIFLTCTTKFWEDDGIHGGKSTTDLPSRFIYYPNH T0334 289 :LGRFGTGYVYSSRFATE 1f8rA 364 :NGVGVIIAYGIGDDANF T0334 306 :DEAVREFCEM 1f8rA 387 :KDCADIVFND T0334 316 :WHLDP 1f8rA 400 :IHQLP T0334 321 :ETQPLNRIRF 1f8rA 411 :FCYPSVIQKW T0334 331 :R 1f8rA 426 :A T0334 337 :RAWVGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKH 1f8rA 446 :TASQGRIYFAGEYTAQAHGWIDSTIKSGLRAARDVNLA Number of specific fragments extracted= 25 number of extra gaps= 0 total=3689 Number of alignments=161 # 1f8rA read from 1f8rA/merged-good-all-a2m # found chain 1f8rA in template set Warning: unaligning (T0334)D377 because last residue in template chain is (1f8rA)N486 T0334 3 :GKIDKILIVGGGTAGWMAASYLGK 1f8rA 31 :SNPKHVVIVGAGMAGLSAAYVLAG T0334 30 :GTADITLLQAPDIPT 1f8rA 55 :AGHQVTVLEASERPG T0334 45 :LGVGEATI 1f8rA 84 :ANLGPMRL T0334 53 :PNLQTAFFDFLGIPE 1f8rA 95 :HRIVREYIRKFDLRL T0334 73 :ECNASYKVAIKFINWRTA 1f8rA 111 :EFSQENDNAWYFIKNIRK T0334 91 :GEGTSEARELDGGPDHFYHSFGLLKYHEQIPLSHYWFDRSYRGKTVEPFDYACYKEPVILDANRSPRRLDGSKVTNYAWHFDAHLVADF 1f8rA 135 :KDPGLLKYPVKPSEAGKSAGQLYEESLGKVVEELKRTNCSYILNKYDTYSTKEYLIKEGDLSPGAVDMIGDLLNEDSGYYVSFIESLKH T0334 180 :LRRFATEKLG 1f8rA 243 :LPTAMYRDIQ T0334 191 :RHVEDRVEHVQRDANGNIESVRTATGR 1f8rA 255 :VHFNAQVIKIQQNDQKVTVVYETLSKE T0334 218 :VFDADLFVDCSGFRG 1f8rA 284 :SVTADYVIVCTTSRA T0334 238 :AMEEPFLD 1f8rA 299 :VRLIKFNP T0334 246 :MSDHLLNDSAVATQVPHDDDANGVEPFTSAIAMKSGWTWKIPMLGR 1f8rA 317 :RSVHYRSGTKIFLTCTTKFWEDDGIHGGKSTTDLPSRFIYYPNHNF T0334 292 :FGTGYVYSS 1f8rA 366 :VGVIIAYGI T0334 301 :RFATEDEAVREFCEMWHLDPETQ 1f8rA 382 :QALDFKDCADIVFNDLSLIHQLP T0334 324 :PLNRIRFRVGRNRRAW 1f8rA 427 :MGGITTFTPYQFQHFS T0334 340 :VGNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 1f8rA 449 :QGRIYFAGEYTAQAHGWIDSTIKSGLRAARDVNLASE Number of specific fragments extracted= 15 number of extra gaps= 0 total=3704 Number of alignments=162 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1lvl/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1lvl expands to /projects/compbio/data/pdb/1lvl.pdb.gz 1lvl:Warning: there is no chain 1lvl will retry with 1lvlA # T0334 read from 1lvl/merged-good-all-a2m # 1lvl read from 1lvl/merged-good-all-a2m # adding 1lvl to template set # found chain 1lvl in template set Warning: unaligning (T0334)N166 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1lvl)P157 Warning: unaligning (T0334)Y167 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1lvl)P157 Warning: unaligning (T0334)T213 because of BadResidue code BAD_PEPTIDE in next template residue (1lvl)G248 Warning: unaligning (T0334)A214 because of BadResidue code BAD_PEPTIDE at template residue (1lvl)G248 Warning: unaligning (T0334)R217 because of BadResidue code BAD_PEPTIDE at template residue (1lvl)L253 Warning: unaligning (T0334)K279 because of BadResidue code BAD_PEPTIDE in next template residue (1lvl)A375 Warning: unaligning (T0334)S280 because of BadResidue code BAD_PEPTIDE at template residue (1lvl)A375 T0334 2 :SGKIDKILIVGGGTAGWMAASYLGKA 1lvl 2 :QTIQTTLLIIGGGPGGYVAAIRAGQL T0334 31 :TADITLLQAPDIPTLGVGEATIPN 1lvl 28 :GIPTVLVEGQALGGTCLNIGCIPS T0334 57 :TAF 1lvl 52 :KAL T0334 64 :GI 1lvl 81 :RL T0334 73 :ECNASYKVAIKFINWRTAGE 1lvl 83 :DIGQSVAWKDGIVDRLTTGV T0334 123 :SHYWFDRSYR 1lvl 103 :AALLKKHGVK T0334 142 :ACYKEPVILD 1lvl 113 :VVHGWAKVLD T0334 152 :ANRSPRRLDGSKVT 1lvl 142 :TGSSSVELPMLPLG T0334 168 :AW 1lvl 158 :VI T0334 170 :HFDAHLVADFLRRFA 1lvl 208 :PTYDSELTAPVAESL T0334 186 :EKLGVRHVED 1lvl 223 :KKLGIALHLG T0334 196 :RVEHV 1lvl 234 :SVEGY T0334 204 :ANG 1lvl 239 :ENG T0334 208 :IESVR 1lvl 242 :CLLAN T0334 215 :TG 1lvl 249 :KG T0334 218 :VFDADLFVDCSGFRGLL 1lvl 254 :RLEADRVLVAVGRRPRT T0334 239 :MEEPFLDMSDHLLN 1lvl 328 :AGKARRFEPAAIAA T0334 253 :DSAVAT 1lvl 347 :PEVVVV T0334 260 :VPHDDDA 1lvl 353 :GKTPEQA T0334 267 :NGVEPFTSAIAM 1lvl 362 :QGLDCIVAQFPF T0334 281 :GWTWKIPMLGR 1lvl 387 :GFVRVVARRDN T0334 292 :FGTGYVY 1lvl 399 :LILGWQA T0334 299 :SSRFA 1lvl 407 :GVAVS T0334 307 :EAVREFCEMW 1lvl 412 :ELSTAFAQSL T0334 317 :HLD 1lvl 432 :GTI Number of specific fragments extracted= 25 number of extra gaps= 4 total=3729 Number of alignments=163 # 1lvl read from 1lvl/merged-good-all-a2m # found chain 1lvl in template set Warning: unaligning (T0334)D105 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1lvl)P157 Warning: unaligning (T0334)H106 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1lvl)P157 Warning: unaligning (T0334)T215 because of BadResidue code BAD_PEPTIDE in next template residue (1lvl)G248 Warning: unaligning (T0334)G216 because of BadResidue code BAD_PEPTIDE at template residue (1lvl)G248 T0334 3 :GKID 1lvl 2 :QTIQ T0334 7 :KILIVGGGTAGWMAASYLGK 1lvl 7 :TLLIIGGGPGGYVAAIRAGQ T0334 29 :QGT 1lvl 27 :LGI T0334 33 :DITLLQAPDIPTL 1lvl 30 :PTVLVEGQALGGT T0334 52 :IP 1lvl 76 :SV T0334 61 :DFLGIPEDEWMRECNASYKVAIKFINWRTAGEGTS 1lvl 78 :ASPRLDIGQSVAWKDGIVDRLTTGVAALLKKHGVK T0334 96 :EARELDG 1lvl 148 :ELPMLPL T0334 104 :P 1lvl 155 :G T0334 107 :FYHSFGLL 1lvl 158 :VISSTEAL T0334 115 :KYHEQIPLSHYWFDRSYRG 1lvl 169 :ALPQHLVVVGGGYIGLELG T0334 139 :FDYACYKEPVILD 1lvl 188 :IAYRKLGAQVSVV T0334 152 :ANRSPRRL 1lvl 202 :ARERILPT T0334 172 :DAHLVADFLRRFA 1lvl 210 :YDSELTAPVAESL T0334 186 :EKLGVRHVED 1lvl 223 :KKLGIALHLG T0334 196 :RVEHV 1lvl 234 :SVEGY T0334 203 :DANG 1lvl 239 :ENGC T0334 211 :VRTA 1lvl 243 :LLAN T0334 217 :R 1lvl 249 :K T0334 218 :VFDADLFVDCSGFRG 1lvl 254 :RLEADRVLVAVGRRP T0334 233 :LLINKAMEEPFL 1lvl 272 :GFNLECLDLKMN T0334 247 :SDHLLNDSAVATQVPHDDDANGV 1lvl 284 :GAAIAIDERCQTSMHNVWAIGDV Number of specific fragments extracted= 21 number of extra gaps= 2 total=3750 Number of alignments=164 # 1lvl read from 1lvl/merged-good-all-a2m # found chain 1lvl in template set Warning: unaligning (T0334)T213 because of BadResidue code BAD_PEPTIDE in next template residue (1lvl)G248 Warning: unaligning (T0334)A214 because of BadResidue code BAD_PEPTIDE at template residue (1lvl)G248 Warning: unaligning (T0334)C351 because of BadResidue code BAD_PEPTIDE in next template residue (1lvl)E309 Warning: unaligning (T0334)E354 because of BadResidue code BAD_PEPTIDE at template residue (1lvl)E309 Warning: unaligning (T0334)P355 because of BadResidue code BAD_PEPTIDE at template residue (1lvl)P310 T0334 5 :IDKILIVGGGTAGWMAASYLGK 1lvl 171 :PQHLVVVGGGYIGLELGIAYRK T0334 30 :GTADITLLQAPDI 1lvl 193 :LGAQVSVVEARER T0334 51 :TI 1lvl 206 :IL T0334 63 :LGIPE 1lvl 208 :PTYDS T0334 175 :LVADFLRRFATEKLGVRHVEDRVEHVQ 1lvl 213 :ELTAPVAESLKKLGIALHLGHSVEGYE T0334 205 :NG 1lvl 240 :NG T0334 208 :IESVR 1lvl 242 :CLLAN T0334 215 :TGR 1lvl 249 :KGG T0334 218 :VFDADLFVDCSGF 1lvl 254 :RLEADRVLVAVGR T0334 258 :TQV 1lvl 267 :RPR T0334 264 :DDANGVE 1lvl 270 :TKGFNLE T0334 322 :TQPLNRIRF 1lvl 277 :CLDLKMNGA T0334 331 :RVGRNRRAWVGNCVSIGTSS 1lvl 288 :AIDERCQTSMHNVWAIGDVA T0334 356 :LE 1lvl 311 :ML T0334 361 :IYFVYAALYQLVKHFPDKSLN 1lvl 313 :AHRAMAQGEMVAEIIAGKARR Number of specific fragments extracted= 15 number of extra gaps= 2 total=3765 Number of alignments=165 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1pn0A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1pn0A expands to /projects/compbio/data/pdb/1pn0.pdb.gz 1pn0A:# T0334 read from 1pn0A/merged-good-all-a2m # 1pn0A read from 1pn0A/merged-good-all-a2m # adding 1pn0A to template set # found chain 1pn0A in template set Warning: unaligning (T0334)S300 because of BadResidue code TOO_FEW_ATOMS+CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1pn0A)T305 T0334 4 :KIDKILIVGGGTAGWMAASYLGKAL 1pn0A 6 :SYCDVLIVGAGPAGLMAARVLSEYV T0334 29 :QGTADITLLQAP 1pn0A 33 :KPDLKVRIIDKR T0334 41 :DIPTLGVGEATIPNLQTAF 1pn0A 46 :TKVYNGQADGLQCRTLESL T0334 61 :DFLGI 1pn0A 65 :KNLGL T0334 123 :SHYWFDRSYR 1pn0A 70 :ADKILSEAND T0334 136 :VEP 1pn0A 80 :MST T0334 141 :YACYKEPVILD 1pn0A 88 :PDENGHIRRTD T0334 154 :RSPRRLDGSKVTNYAW 1pn0A 99 :RIPDTLPGISRYHQVV T0334 171 :FDAHLVADFLRRFATEKLG 1pn0A 115 :LHQGRIERRILDSIAEISD T0334 190 :VRHVED 1pn0A 136 :IKVERP T0334 196 :RVEHVQR 1pn0A 143 :IPEKMEI T0334 203 :DANGNIESVRTA 1pn0A 156 :DPEAYPVTMTLR T0334 216 :G 1pn0A 211 :G T0334 217 :RVFDADLFVDCSGFRGLL 1pn0A 214 :ETVHCKYVIGCDGGHSWV T0334 236 :NKAMEEPFLDMSDH 1pn0A 232 :RRTLGFEMIGEQTD T0334 253 :DSAVATQVPHDDDANGVEPFTSAIAMKSGWTWKIPMLGR 1pn0A 246 :YIWGVLDAVPASNFPDIRSRCAIHSAESGSIMIIPRENN T0334 292 :FGTGYVYS 1pn0A 286 :VRFYVQLQ T0334 306 :DEAVREFCEMWHL 1pn0A 310 :EVVIANAKKIFHP T0334 322 :TQ 1pn0A 323 :YT T0334 324 :PLNRIRFRVGRNRRAWVG 1pn0A 332 :WFTAYHIGQRVTEKFSKD T0334 342 :NCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHF 1pn0A 351 :RVFIAGDACHTHSPKAGQGMNTSMMDTYNLGWKL T0334 378 :KSLNPVLTARFNREIETMFDDTRDFIQAHFYFSPRTD 1pn0A 390 :GRAKRDILKTYEEERQPFAQALIDFDHQFSRLFSGRP T0334 481 :VPDAPSPRLAHMPQATESVDEVFG 1pn0A 427 :AKDVADEMGVSMDVFKEAFVKGNE Number of specific fragments extracted= 23 number of extra gaps= 0 total=3788 Number of alignments=166 # 1pn0A read from 1pn0A/merged-good-all-a2m # found chain 1pn0A in template set Warning: unaligning (T0334)S2 because first residue in template chain is (1pn0A)T1 Warning: unaligning (T0334)S300 because of BadResidue code TOO_FEW_ATOMS+CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1pn0A)T305 T0334 3 :GKID 1pn0A 2 :KYSE T0334 7 :KILIVGGGTAGWMAASYLGK 1pn0A 9 :DVLIVGAGPAGLMAARVLSE T0334 28 :L 1pn0A 29 :Y T0334 29 :QGT 1pn0A 34 :PDL T0334 33 :DITLLQAPD 1pn0A 37 :KVRIIDKRS T0334 42 :IPTLGVGEATIPNLQTAF 1pn0A 47 :KVYNGQADGLQCRTLESL T0334 61 :DFLGIPED 1pn0A 65 :KNLGLADK T0334 103 :GPDHFYHSFGLL 1pn0A 79 :DMSTIALYNPDE T0334 115 :KYHE 1pn0A 92 :GHIR T0334 152 :ANRSPRRLDGSKVTNYAWHFDAHLVADFLRRFATEKLG 1pn0A 96 :RTDRIPDTLPGISRYHQVVLHQGRIERRILDSIAEISD T0334 190 :VRHVED 1pn0A 136 :IKVERP T0334 196 :RVEHVQR 1pn0A 143 :IPEKMEI T0334 203 :DANGNIESVRTAT 1pn0A 156 :DPEAYPVTMTLRY T0334 216 :GR 1pn0A 211 :GE T0334 218 :VFDADLFVDCSGFRGLLI 1pn0A 215 :TVHCKYVIGCDGGHSWVR T0334 237 :KAMEEPFLDM 1pn0A 233 :RTLGFEMIGE T0334 247 :SD 1pn0A 245 :DY T0334 254 :SAVATQVPHDDDANGVEPFTSAIAMKSGWTWKIPM 1pn0A 247 :IWGVLDAVPASNFPDIRSRCAIHSAESGSIMIIPR T0334 289 :LGRFGTGYVYS 1pn0A 283 :NNLVRFYVQLQ T0334 306 :DEAVREFCEMWHLDP 1pn0A 310 :EVVIANAKKIFHPYT T0334 321 :ETQPLNRIRFRVGRNRRAWVG 1pn0A 329 :QLDWFTAYHIGQRVTEKFSKD T0334 342 :NCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 1pn0A 351 :RVFIAGDACHTHSPKAGQGMNTSMMDTYNLGWKLG T0334 377 :DKSLNPVLTARFNREIETMFDDTRDFIQAHFYFS 1pn0A 389 :TGRAKRDILKTYEEERQPFAQALIDFDHQFSRLF T0334 411 :PRTD 1pn0A 424 :GRPA T0334 427 :ADGMQEKIDMYRAGMAINA 1pn0A 438 :MDVFKEAFVKGNEFASGTA T0334 480 :LVPD 1pn0A 457 :INYD Number of specific fragments extracted= 26 number of extra gaps= 0 total=3814 Number of alignments=167 # 1pn0A read from 1pn0A/merged-good-all-a2m # found chain 1pn0A in template set Warning: unaligning (T0334)R301 because of BadResidue code TOO_FEW_ATOMS+CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1pn0A)T305 T0334 5 :IDKILIVGGGTAGWMAASYLGKAL 1pn0A 7 :YCDVLIVGAGPAGLMAARVLSEYV T0334 29 :QGTADITLLQAPDIPTL 1pn0A 33 :KPDLKVRIIDKRSTKVY T0334 46 :GVGEATIPNLQTAF 1pn0A 51 :GQADGLQCRTLESL T0334 61 :DFLGI 1pn0A 65 :KNLGL T0334 68 :DEWMRECNASYKVAIKFINWRTAGEGTSEARELDGG 1pn0A 70 :ADKILSEANDMSTIALYNPDENGHIRRTDRIPDTLP T0334 162 :SKVTNYAWHFDAHLVADFLRRFATEK 1pn0A 106 :GISRYHQVVLHQGRIERRILDSIAEI T0334 188 :LGVRHVEDRVEHVQRDANGN 1pn0A 135 :RIKVERPLIPEKMEIDSSKA T0334 214 :ATGR 1pn0A 209 :EAGE T0334 218 :VFDADLFVDCSGFRGLLIN 1pn0A 215 :TVHCKYVIGCDGGHSWVRR T0334 238 :AMEEPFLDMSDHLLNDSAVATQV 1pn0A 234 :TLGFEMIGEQTDYIWGVLDAVPA T0334 264 :DDANGVEPFTSAIAMKSGWTWKIPMLGRFGTGYVYSS 1pn0A 257 :SNFPDIRSRCAIHSAESGSIMIIPRENNLVRFYVQLQ T0334 307 :EAVREFCEMWHLDP 1pn0A 311 :VVIANAKKIFHPYT T0334 325 :LNRIRFRVGRNRRAWV 1pn0A 325 :FDVQQLDWFTAYHIGQ T0334 341 :GNCVSIGTSSCFVEPLESTGIYFVYAALYQLVKHFP 1pn0A 350 :ERVFIAGDACHTHSPKAGQGMNTSMMDTYNLGWKLG T0334 377 :DKSLNPVLTARFNREIETMFDDTRDFIQAHFY 1pn0A 393 :KRDILKTYEEERQPFAQALIDFDHQFSRLFSG T0334 442 :AINAPASDDA 1pn0A 425 :RPAKDVADEM T0334 452 :QLYYGNFEEEFRNFWNNSNYYC 1pn0A 439 :DVFKEAFVKGNEFASGTAINYD Number of specific fragments extracted= 17 number of extra gaps= 0 total=3831 Number of alignments=168 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1kssA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1kssA expands to /projects/compbio/data/pdb/1kss.pdb.gz 1kssA:# T0334 read from 1kssA/merged-good-all-a2m # 1kssA read from 1kssA/merged-good-all-a2m # adding 1kssA to template set # found chain 1kssA in template set T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1kssA 125 :DTVDVVVVGSGGAGFSAAISATD T0334 30 :GTADITLLQAPDIPTLGVGEATI 1kssA 148 :SGAKVILIEKEPVIGGNAKLAAG T0334 57 :TAF 1kssA 178 :DQQ T0334 61 :DFLGI 1kssA 181 :KAKKI T0334 66 :PEDEWMRECNA 1kssA 188 :SPELMFEDTMK T0334 77 :SYKVAIKFINWR 1kssA 208 :LVKVLSSHSKDS T0334 123 :SHYWFDRSYR 1kssA 220 :VDWMTAMGAD T0334 141 :YACYKEPVI 1kssA 230 :LTDVGMMGG T0334 155 :SPRRL 1kssA 239 :ASVNR T0334 162 :SKVTNYAW 1kssA 244 :AHRPTGGA T0334 171 :FDAHLVADFLRRFAT 1kssA 252 :GVGAHVVQVLYDNAV T0334 187 :KLGVRHVED 1kssA 267 :KRNIDLRMN T0334 196 :RVEHVQRDANGNIESVRTA 1kssA 277 :RGIEVLKDDKGTVKGILVK T0334 215 :TG 1kssA 299 :KG T0334 217 :RVFDADLFVDCSGFRGL 1kssA 302 :YWVKADAVILATGGFAK T0334 234 :L 1kssA 323 :V T0334 236 :NKA 1kssA 324 :AKL T0334 246 :MSDHLLNDS 1kssA 330 :LKGFISTNQ T0334 267 :NGVE 1kssA 339 :PGAV T0334 272 :FTSAIAMKSGWTWKIPM 1kssA 351 :NAGGALKDMQYIQAHPT T0334 289 :LGRFGT 1kssA 371 :KGGVMV T0334 295 :GYVYSSRFATE 1kssA 384 :GAILVNREGKR T0334 306 :DEAVREFCEMW 1kssA 459 :KALTETVARYN T0334 317 :HLDPETQ 1kssA 475 :GKDTDFE T0334 324 :PLNRIRFRVG 1kssA 493 :NYYAIEVTPG T0334 334 :RNRRAWVGNCVSIG 1kssA 520 :NAKKQVIPGLYGAG T0334 348 :TSSCFVEPLESTGIYFVYAALYQLVKHF 1kssA 537 :GGVHGANRLGGNAISDIITFGRLAGEEA Number of specific fragments extracted= 27 number of extra gaps= 0 total=3858 Number of alignments=169 # 1kssA read from 1kssA/merged-good-all-a2m # found chain 1kssA in template set Warning: unaligning (T0334)P66 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1kssA)W176 Warning: unaligning (T0334)E67 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1kssA)W176 T0334 3 :GKID 1kssA 122 :APHD T0334 7 :KILIVGGGTAGWMAASYLGK 1kssA 128 :DVVVVGSGGAGFSAAISATD T0334 29 :QGT 1kssA 148 :SGA T0334 33 :DITLLQAPD 1kssA 151 :KVILIEKEP T0334 42 :IPTL 1kssA 161 :IGGN T0334 59 :FFDFLGI 1kssA 168 :AAGGMNA T0334 68 :DEWMRECNASYKVAIKFINWRTAGEGTS 1kssA 177 :TDQQKAKKITDSPELMFEDTMKGGQNIN T0334 96 :EARELDGGPDHFYHSFGLL 1kssA 222 :WMTAMGADLTDVGMMGGAS T0334 115 :KYHE 1kssA 246 :RPTG T0334 152 :AN 1kssA 251 :AG T0334 172 :DAHLVADFLRRFA 1kssA 253 :VGAHVVQVLYDNA T0334 186 :EKLGVRHVED 1kssA 266 :VKRNIDLRMN T0334 196 :RVEHVQRDANGNIESVRTA 1kssA 277 :RGIEVLKDDKGTVKGILVK T0334 215 :T 1kssA 297 :M T0334 216 :GR 1kssA 299 :KG T0334 218 :VFDADLFVDCSGF 1kssA 303 :WVKADAVILATGG T0334 280 :SGWTWKIPM 1kssA 359 :MQYIQAHPT T0334 289 :LGR 1kssA 371 :KGG T0334 292 :FGTGYVYSSRFATE 1kssA 383 :NGAILVNREGKRFV T0334 306 :DEAVREFCEM 1kssA 462 :TETVARYNSL T0334 316 :WHLDPETQPLNRIRF 1kssA 473 :SSGKDTDFERPNLPR T0334 331 :RVGRNR 1kssA 500 :TPGVHA T0334 337 :RAWVGNCVSIGTSSCFVEP 1kssA 523 :KQVIPGLYGAGEVTGGVHG T0334 356 :LESTGIYFVYAALYQLVKHFP 1kssA 545 :LGGNAISDIITFGRLAGEEAA Number of specific fragments extracted= 24 number of extra gaps= 1 total=3882 Number of alignments=170 # 1kssA read from 1kssA/merged-good-all-a2m # found chain 1kssA in template set Warning: unaligning (T0334)K378 because of BadResidue code BAD_PEPTIDE in next template residue (1kssA)S568 T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1kssA 125 :DTVDVVVVGSGGAGFSAAISATD T0334 30 :GTADITLLQAPD 1kssA 148 :SGAKVILIEKEP T0334 44 :TLGVGEATI 1kssA 160 :VIGGNAKLA T0334 57 :TAF 1kssA 178 :DQQ T0334 61 :DFLGI 1kssA 181 :KAKKI T0334 66 :PEDEWMR 1kssA 188 :SPELMFE T0334 113 :LLKYHEQIPLSHYWFDRSY 1kssA 195 :DTMKGGQNINDPALVKVLS T0334 137 :EPFDYACYKEPVILDANRSPRRLDGSKVTN 1kssA 214 :SHSKDSVDWMTAMGADLTDVGMMGGASVNR T0334 169 :WHF 1kssA 244 :AHR T0334 172 :DAHLVADFLRRFATEKLGVRHVEDRVEHVQRDANGNIESVRT 1kssA 253 :VGAHVVQVLYDNAVKRNIDLRMNTRGIEVLKDDKGTVKGILV T0334 214 :ATGR 1kssA 297 :MYKG T0334 218 :VFDADLFVDCSGFRG 1kssA 303 :WVKADAVILATGGFA T0334 233 :LLINK 1kssA 322 :RVAKL T0334 243 :FLDMSDHLLND 1kssA 327 :DPSLKGFISTN T0334 307 :EAVREFCEMWHLDP 1kssA 463 :ETVARYNSLVSSGK T0334 322 :TQ 1kssA 477 :DT T0334 324 :PLNRIRFRVGRNRRA 1kssA 493 :NYYAIEVTPGVHATM T0334 339 :WVGNCVSIGTSSCFVEP 1kssA 525 :VIPGLYGAGEVTGGVHG T0334 356 :LESTGIYFVYAALYQLVKHFPD 1kssA 545 :LGGNAISDIITFGRLAGEEAAK Number of specific fragments extracted= 19 number of extra gaps= 1 total=3901 Number of alignments=171 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1m6iA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0334 read from 1m6iA/merged-good-all-a2m # 1m6iA read from 1m6iA/merged-good-all-a2m # found chain 1m6iA in training set Warning: unaligning (T0334)N326 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1m6iA)Y560 T0334 4 :KIDKILIVGGGTAGWMAASYLGK 1m6iA 130 :SHVPFLLIGGGTAAFAAARSIRA T0334 28 :LQGTADITLLQAPDIPTLGVGEAT 1m6iA 153 :RDPGARVLIVSEDPELPYMRPPLS T0334 56 :QTAF 1m6iA 177 :KELW T0334 62 :FLGI 1m6iA 270 :IDRA T0334 67 :EDEWMR 1m6iA 274 :GAEVKS T0334 73 :ECNASYKVAIK 1m6iA 289 :DFRSLEKISRE T0334 84 :FINWRTA 1m6iA 312 :GSELACA T0334 122 :LSHYWFDRSYR 1m6iA 319 :LGRKARALGTE T0334 170 :HFDAHLVADFLRRFA 1m6iA 342 :KILPEYLSNWTMEKV T0334 186 :EKLGVRHVED 1m6iA 357 :RREGVKVMPN T0334 196 :RVEHVQRDANG 1m6iA 368 :IVQSVGVSSGK T0334 209 :ESVRTATGRVFDADLFVDCSGFRGLL 1m6iA 379 :LLIKLKDGRKVETDHIVAAVGLEPNV T0334 235 :INKAMEEPFLDMSDH 1m6iA 406 :LAKTGGLEIDSDFGG T0334 266 :ANGVE 1m6iA 473 :AKPYW T0334 272 :FTSAIA 1m6iA 480 :SMFWSD T0334 278 :MKSGWTWKIPMLGR 1m6iA 487 :GPDVGYEAIGLVDS T0334 292 :FGTGYVYSS 1m6iA 502 :LPTVGVFAK T0334 301 :RFATE 1m6iA 513 :AQDNP T0334 327 :RIRFRVGRNRRAWV 1m6iA 561 :GKGVIFYLRDKVVV T0334 342 :NCVSIG 1m6iA 575 :GIVLWN T0334 398 :DTRDFIQAHFYFSPR 1m6iA 584 :RMPIARKIIKDGEQH T0334 483 :DAPSPRLAH 1m6iA 599 :EDLNEVAKL Number of specific fragments extracted= 22 number of extra gaps= 0 total=3923 Number of alignments=172 # 1m6iA read from 1m6iA/merged-good-all-a2m # found chain 1m6iA in training set T0334 5 :ID 1m6iA 130 :SH T0334 7 :KILIVGGGTAGWMAASYLGK 1m6iA 133 :PFLLIGGGTAAFAAARSIRA T0334 28 :L 1m6iA 153 :R T0334 29 :QGT 1m6iA 155 :PGA T0334 33 :DITLLQAPD 1m6iA 158 :RVLIVSEDP T0334 42 :IPTL 1m6iA 168 :LPYM T0334 139 :FDYACYKEPVILD 1m6iA 321 :RKARALGTEVIQL T0334 152 :ANRSPRRLD 1m6iA 335 :PEKGNMGKI T0334 172 :DAHLVADFLRRFA 1m6iA 344 :LPEYLSNWTMEKV T0334 186 :EKLGVRHVED 1m6iA 357 :RREGVKVMPN T0334 196 :RVEHVQRDANG 1m6iA 368 :IVQSVGVSSGK T0334 209 :ESVRTATGRVFDADLFVDCSGFRG 1m6iA 379 :LLIKLKDGRKVETDHIVAAVGLEP T0334 233 :LLINKAMEEPFLDMSDHLLNDSAV 1m6iA 404 :VELAKTGGLEIDSDFGGFRVNAEL T0334 338 :AWVGNCVSIGTSSCF 1m6iA 428 :QARSNIWVAGDAACF T0334 363 :FVYAALYQLVKHFPDKSLN 1m6iA 457 :HAVVSGRLAGENMTGAAKP Number of specific fragments extracted= 15 number of extra gaps= 0 total=3938 Number of alignments=173 # 1m6iA read from 1m6iA/merged-good-all-a2m # found chain 1m6iA in training set T0334 5 :IDKILIVGGGTAGWMAASYLGKAL 1m6iA 300 :VKSITIIGGGFLGSELACALGRKA T0334 29 :QGTADITLLQAPDI 1m6iA 325 :ALGTEVIQLFPEKG T0334 46 :GVGEATIPNLQTAF 1m6iA 339 :NMGKILPEYLSNWT T0334 181 :RRFATEKLGVRHVEDRVEHVQRDANG 1m6iA 353 :MEKVRREGVKVMPNAIVQSVGVSSGK T0334 209 :ESVRTATGRVFDADLFVDCSGF 1m6iA 379 :LLIKLKDGRKVETDHIVAAVGL T0334 235 :INKAMEEPFLDMSDH 1m6iA 406 :LAKTGGLEIDSDFGG T0334 297 :VYSSRFA 1m6iA 421 :FRVNAEL T0334 338 :AWVGNCVSIGTSSCFVE 1m6iA 428 :QARSNIWVAGDAACFYD T0334 359 :TGIYFVYAALYQLVKHFPDKS 1m6iA 453 :EHHDHAVVSGRLAGENMTGAA Number of specific fragments extracted= 9 number of extra gaps= 0 total=3947 Number of alignments=174 # command:Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0334//projects/compbio/experiments/protein-predict/casp7/T0334/align.constraints_v3.costfcn or /projects/compbio/experiments/protein-predict/casp7/T0334//projects/compbio/experiments/protein-predict/casp7/T0334/align.constraints_v3.costfcn.gz for input Trying /projects/compbio/experiments/protein-predict/casp7/T0334/align.constraints_v3.costfcn # reading script from file /projects/compbio/experiments/protein-predict/casp7/T0334/align.constraints_v3.costfcn # future Constraint commands -> align # future HelixConstraint commands -> align # future StrandConstraint commands -> align # future SheetConstraint commands -> align # future Hbond commands -> align # future SSbond commands -> align # Constraint # added constraint: constraint((T0334)G17.CA, (T0334)L36.CB) [> 4.0612 = 6.7687 < 8.7993] w=1.0000 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)L37.CB) [> 3.2646 = 5.4410 < 7.0733] w=1.0000 to align # Constraint # added constraint: constraint((T0334)I10.CB, (T0334)L37.CB) [> 4.3044 = 7.1740 < 9.3263] w=1.0000 to align # Constraint # added constraint: constraint((T0334)I10.CB, (T0334)L36.CB) [> 2.9193 = 4.8655 < 6.3252] w=1.0000 to align # Constraint # added constraint: constraint((T0334)L9.CB, (T0334)L37.CB) [> 4.0765 = 6.7942 < 8.8325] w=1.0000 to align # Constraint # added constraint: constraint((T0334)G12.CA, (T0334)L36.CB) [> 4.0412 = 6.7354 < 8.7559] w=0.9941 to align # Constraint # added constraint: constraint((T0334)G12.CA, (T0334)L37.CB) [> 3.8219 = 6.3699 < 8.2809] w=0.9941 to align # Constraint # added constraint: constraint((T0334)G12.CA, (T0334)Q38.CB) [> 2.9324 = 4.8873 < 6.3534] w=0.9941 to align # Constraint # added constraint: constraint((T0334)G13.CA, (T0334)L36.CB) [> 3.5028 = 5.8380 < 7.5894] w=0.9941 to align # Constraint # added constraint: constraint((T0334)G13.CA, (T0334)Q38.CB) [> 2.6346 = 4.3909 < 5.7082] w=0.9941 to align # Constraint # added constraint: constraint((T0334)K7.CB, (T0334)D33.CB) [> 2.9265 = 4.8775 < 6.3408] w=0.9882 to align # Constraint # added constraint: constraint((T0334)A21.CB, (T0334)L36.CB) [> 2.9792 = 4.9654 < 6.4550] w=0.9882 to align # Constraint # added constraint: constraint((T0334)I10.CB, (T0334)A21.CB) [> 3.1606 = 5.2677 < 6.8480] w=0.9882 to align # Constraint # added constraint: constraint((T0334)I10.CB, (T0334)A20.CB) [> 3.2701 = 5.4501 < 7.0852] w=0.9882 to align # Constraint # added constraint: constraint((T0334)I8.CB, (T0334)L24.CB) [> 3.3379 = 5.5631 < 7.2320] w=0.9882 to align # Constraint # added constraint: constraint((T0334)I8.CB, (T0334)I34.CB) [> 2.9465 = 4.9108 < 6.3840] w=0.9823 to align # Constraint # added constraint: constraint((T0334)L9.CB, (T0334)T35.CB) [> 3.1344 = 5.2239 < 6.7911] w=0.9823 to align # Constraint # added constraint: constraint((T0334)I10.CB, (T0334)I34.CB) [> 3.8785 = 6.4642 < 8.4035] w=0.9823 to align # Constraint # added constraint: constraint((T0334)I10.CB, (T0334)T35.CB) [> 4.2952 = 7.1587 < 9.3063] w=0.9823 to align # Constraint # added constraint: constraint((T0334)L24.CB, (T0334)I34.CB) [> 3.0056 = 5.0093 < 6.5121] w=0.9823 to align # Constraint # added constraint: constraint((T0334)G25.CA, (T0334)I34.CB) [> 3.4036 = 5.6726 < 7.3744] w=0.9823 to align # Constraint # added constraint: constraint((T0334)A21.CB, (T0334)I34.CB) [> 3.1899 = 5.3165 < 6.9115] w=0.9704 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)F224.CB) [> 3.8978 = 6.4963 < 8.4453] w=0.9409 to align # Constraint # added constraint: constraint((T0334)W18.CB, (T0334)L36.CB) [> 4.3391 = 7.2318 < 9.4013] w=0.9350 to align # Constraint # added constraint: constraint((T0334)I8.CB, (T0334)D33.CB) [> 4.3638 = 7.2730 < 9.4549] w=0.9231 to align # Constraint # added constraint: constraint((T0334)L9.CB, (T0334)I34.CB) [> 4.5194 = 7.5324 < 9.7921] w=0.9221 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)Q38.CB) [> 4.4394 = 7.3990 < 9.6187] w=0.9057 to align # Constraint # added constraint: constraint((T0334)E198.CB, (T0334)R212.CB) [> 3.2385 = 5.3975 < 7.0167] w=0.9036 to align # Constraint # added constraint: constraint((T0334)R196.CB, (T0334)T213.CB) [> 3.7895 = 6.3159 < 8.2107] w=0.8878 to align # Constraint # added constraint: constraint((T0334)K7.CB, (T0334)I34.CB) [> 4.2427 = 7.0712 < 9.1926] w=0.8817 to align # Constraint # added constraint: constraint((T0334)H199.CB, (T0334)V211.CB) [> 4.3229 = 7.2048 < 9.3663] w=0.8624 to align # Constraint # added constraint: constraint((T0334)E209.CB, (T0334)A221.CB) [> 3.7392 = 6.2320 < 8.1016] w=0.8581 to align # Constraint # added constraint: constraint((T0334)V197.CB, (T0334)V211.CB) [> 3.3306 = 5.5510 < 7.2163] w=0.8563 to align # Constraint # added constraint: constraint((T0334)H199.CB, (T0334)R212.CB) [> 2.6416 = 4.4028 < 5.7236] w=0.8387 to align # Constraint # added constraint: constraint((T0334)E209.CB, (T0334)D220.CB) [> 4.1315 = 6.8858 < 8.9516] w=0.8345 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)V211.CB) [> 3.3937 = 5.6562 < 7.3530] w=0.8328 to align # Constraint # added constraint: constraint((T0334)S210.CB, (T0334)F219.CB) [> 3.9051 = 6.5084 < 8.4610] w=0.8312 to align # Constraint # added constraint: constraint((T0334)V197.CB, (T0334)R212.CB) [> 4.3363 = 7.2272 < 9.3954] w=0.8275 to align # Constraint # added constraint: constraint((T0334)V211.CB, (T0334)F224.CB) [> 3.8484 = 6.4141 < 8.3383] w=0.8269 to align # Constraint # added constraint: constraint((T0334)E198.CB, (T0334)T213.CB) [> 3.7254 = 6.2090 < 8.0717] w=0.8050 to align # Constraint # added constraint: constraint((T0334)R196.CB, (T0334)A214.CB) [> 3.1707 = 5.2845 < 6.8698] w=0.7991 to align # Constraint # added constraint: constraint((T0334)V197.CB, (T0334)T213.CB) [> 3.4405 = 5.7341 < 7.4544] w=0.7991 to align # Constraint # added constraint: constraint((T0334)I8.CB, (T0334)T35.CB) [> 4.4462 = 7.4103 < 9.6334] w=0.7972 to align # Constraint # added constraint: constraint((T0334)G12.CA, (T0334)A39.CB) [> 4.4249 = 7.3749 < 9.5874] w=0.7928 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)S210.CB) [> 4.4264 = 7.3774 < 9.5906] w=0.7896 to align # Constraint # added constraint: constraint((T0334)K7.CB, (T0334)A221.CB) [> 3.5653 = 5.9422 < 7.7248] w=0.7835 to align # Constraint # added constraint: constraint((T0334)K7.CB, (T0334)D222.CB) [> 3.0982 = 5.1636 < 6.7127] w=0.7835 to align # Constraint # added constraint: constraint((T0334)I8.CB, (T0334)A221.CB) [> 3.6300 = 6.0500 < 7.8650] w=0.7835 to align # Constraint # added constraint: constraint((T0334)I8.CB, (T0334)L223.CB) [> 2.8321 = 4.7201 < 6.1361] w=0.7835 to align # Constraint # added constraint: constraint((T0334)I8.CB, (T0334)F224.CB) [> 4.3873 = 7.3121 < 9.5057] w=0.7835 to align # Constraint # added constraint: constraint((T0334)I8.CB, (T0334)V225.CB) [> 3.8594 = 6.4323 < 8.3620] w=0.7835 to align # Constraint # added constraint: constraint((T0334)L9.CB, (T0334)A221.CB) [> 2.5700 = 4.2833 < 5.5683] w=0.7835 to align # Constraint # added constraint: constraint((T0334)L9.CB, (T0334)L223.CB) [> 4.4368 = 7.3946 < 9.6130] w=0.7835 to align # Constraint # added constraint: constraint((T0334)L9.CB, (T0334)F224.CB) [> 3.0066 = 5.0110 < 6.5143] w=0.7835 to align # Constraint # added constraint: constraint((T0334)L9.CB, (T0334)V225.CB) [> 4.3035 = 7.1726 < 9.3243] w=0.7835 to align # Constraint # added constraint: constraint((T0334)I10.CB, (T0334)V225.CB) [> 2.6682 = 4.4471 < 5.7812] w=0.7835 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)F224.CB) [> 4.0844 = 6.8074 < 8.8496] w=0.7835 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)V225.CB) [> 4.1242 = 6.8736 < 8.9357] w=0.7835 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)D226.CB) [> 3.1531 = 5.2552 < 6.8317] w=0.7835 to align # Constraint # added constraint: constraint((T0334)G17.CA, (T0334)V225.CB) [> 4.1388 = 6.8980 < 8.9674] w=0.7835 to align # Constraint # added constraint: constraint((T0334)A20.CB, (T0334)V225.CB) [> 3.2221 = 5.3702 < 6.9812] w=0.7835 to align # Constraint # added constraint: constraint((T0334)Q201.CB, (T0334)S210.CB) [> 2.8032 = 4.6720 < 6.0736] w=0.7779 to align # Constraint # added constraint: constraint((T0334)A20.CB, (T0334)C227.CB) [> 3.7211 = 6.2018 < 8.0623] w=0.7776 to align # Constraint # added constraint: constraint((T0334)G17.CA, (T0334)C227.CB) [> 2.2521 = 3.7535 < 4.8796] w=0.7776 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)C227.CB) [> 2.6075 = 4.3458 < 5.6496] w=0.7776 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)C227.CB) [> 3.6252 = 6.0420 < 7.8546] w=0.7776 to align # Constraint # added constraint: constraint((T0334)I10.CB, (T0334)C227.CB) [> 3.4654 = 5.7756 < 7.5083] w=0.7776 to align # Constraint # added constraint: constraint((T0334)L36.CB, (T0334)H192.CB) [> 3.3925 = 5.6542 < 7.3505] w=0.7776 to align # Constraint # added constraint: constraint((T0334)G12.CA, (T0334)C227.CB) [> 2.8453 = 4.7422 < 6.1648] w=0.7717 to align # Constraint # added constraint: constraint((T0334)G13.CA, (T0334)C227.CB) [> 3.9854 = 6.6424 < 8.6351] w=0.7717 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)C227.CB) [> 4.0580 = 6.7633 < 8.7923] w=0.7717 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)S228.CB) [> 3.2614 = 5.4356 < 7.0663] w=0.7717 to align # Constraint # added constraint: constraint((T0334)Q38.CB, (T0334)H192.CB) [> 4.2589 = 7.0981 < 9.2276] w=0.7717 to align # Constraint # added constraint: constraint((T0334)G12.CA, (T0334)S228.CB) [> 3.2810 = 5.4683 < 7.1088] w=0.7658 to align # Constraint # added constraint: constraint((T0334)K7.CB, (T0334)L223.CB) [> 4.2156 = 7.0259 < 9.1337] w=0.7599 to align # Constraint # added constraint: constraint((T0334)Q38.CB, (T0334)V193.CB) [> 4.0591 = 6.7651 < 8.7947] w=0.7540 to align # Constraint # added constraint: constraint((T0334)L24.CB, (T0334)V372.CB) [> 3.3017 = 5.5028 < 7.1536] w=0.7498 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)V364.CB) [> 2.5776 = 4.2960 < 5.5848] w=0.7498 to align # Constraint # added constraint: constraint((T0334)V211.CB, (T0334)A221.CB) [> 3.9729 = 6.6216 < 8.6081] w=0.7441 to align # Constraint # added constraint: constraint((T0334)S210.CB, (T0334)D220.CB) [> 3.1847 = 5.3079 < 6.9003] w=0.7425 to align # Constraint # added constraint: constraint((T0334)A39.CB, (T0334)R196.CB) [> 2.7472 = 4.5786 < 5.9522] w=0.7421 to align # Constraint # added constraint: constraint((T0334)L9.CB, (T0334)F219.CB) [> 3.4524 = 5.7539 < 7.4801] w=0.7421 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)V364.CB) [> 3.2400 = 5.4000 < 7.0200] w=0.7379 to align # Constraint # added constraint: constraint((T0334)A20.CB, (T0334)L368.CB) [> 2.6448 = 4.4079 < 5.7303] w=0.7379 to align # Constraint # added constraint: constraint((T0334)I346.CB, (T0334)A367.CB) [> 2.7244 = 4.5407 < 5.9029] w=0.7338 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)L368.CB) [> 2.8648 = 4.7747 < 6.2071] w=0.7320 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)Y365.CB) [> 3.2650 = 5.4417 < 7.0742] w=0.7320 to align # Constraint # added constraint: constraint((T0334)I8.CB, (T0334)D222.CB) [> 4.0298 = 6.7163 < 8.7312] w=0.7303 to align # Constraint # added constraint: constraint((T0334)Y23.CB, (T0334)L368.CB) [> 3.4508 = 5.7513 < 7.4766] w=0.7261 to align # Constraint # added constraint: constraint((T0334)T35.CB, (T0334)F219.CB) [> 3.8672 = 6.4454 < 8.3790] w=0.7244 to align # Constraint # added constraint: constraint((T0334)A39.CB, (T0334)D195.CB) [> 4.1244 = 6.8740 < 8.9362] w=0.7244 to align # Constraint # added constraint: constraint((T0334)Q38.CB, (T0334)E194.CB) [> 3.7891 = 6.3151 < 8.2097] w=0.7151 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)I361.CB) [> 3.3651 = 5.6086 < 7.2911] w=0.7108 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)L371.CB) [> 3.1901 = 5.3169 < 6.9119] w=0.7101 to align # Constraint # added constraint: constraint((T0334)Y23.CB, (T0334)Y369.CB) [> 3.6018 = 6.0030 < 7.8038] w=0.7084 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)V364.CB) [> 3.4875 = 5.8125 < 7.5563] w=0.7084 to align # Constraint # added constraint: constraint((T0334)I10.CB, (T0334)F224.CB) [> 4.5885 = 7.6475 < 9.9417] w=0.7083 to align # Constraint # added constraint: constraint((T0334)S22.CB, (T0334)A184.CB) [> 3.4936 = 5.8227 < 7.5695] w=0.7067 to align # Constraint # added constraint: constraint((T0334)L36.CB, (T0334)R191.CB) [> 3.6002 = 6.0002 < 7.8003] w=0.7007 to align # Constraint # added constraint: constraint((T0334)I10.CB, (T0334)L24.CB) [> 4.4666 = 7.4444 < 9.6777] w=0.6948 to align # Constraint # added constraint: constraint((T0334)I346.CB, (T0334)V364.CB) [> 3.6324 = 6.0539 < 7.8701] w=0.6924 to align # Constraint # added constraint: constraint((T0334)G347.CA, (T0334)V364.CB) [> 2.8282 = 4.7136 < 6.1277] w=0.6924 to align # Constraint # added constraint: constraint((T0334)P40.CB, (T0334)E194.CB) [> 4.1446 = 6.9077 < 8.9800] w=0.6889 to align # Constraint # added constraint: constraint((T0334)W18.CB, (T0334)A184.CB) [> 3.7685 = 6.2809 < 8.1652] w=0.6889 to align # Constraint # added constraint: constraint((T0334)W18.CB, (T0334)L180.CB) [> 2.5325 = 4.2208 < 5.4870] w=0.6795 to align # Constraint # added constraint: constraint((T0334)Q201.CB, (T0334)R212.CB) [> 4.0604 = 6.7674 < 8.7976] w=0.6732 to align # Constraint # added constraint: constraint((T0334)L37.CB, (T0334)V197.CB) [> 3.5465 = 5.9109 < 7.6841] w=0.6712 to align # Constraint # added constraint: constraint((T0334)A21.CB, (T0334)A184.CB) [> 3.3510 = 5.5851 < 7.2606] w=0.6712 to align # Constraint # added constraint: constraint((T0334)G347.CA, (T0334)F363.CB) [> 3.4825 = 5.8041 < 7.5453] w=0.6687 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)V197.CB) [> 2.9806 = 4.9677 < 6.4580] w=0.6653 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)G229.CA) [> 4.4274 = 7.3790 < 9.5927] w=0.6653 to align # Constraint # added constraint: constraint((T0334)T35.CB, (T0334)A221.CB) [> 4.4831 = 7.4719 < 9.7134] w=0.6593 to align # Constraint # added constraint: constraint((T0334)S22.CB, (T0334)F183.CB) [> 3.4095 = 5.6825 < 7.3872] w=0.6575 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)A367.CB) [> 3.9683 = 6.6139 < 8.5980] w=0.6551 to align # Constraint # added constraint: constraint((T0334)G12.CA, (T0334)G229.CA) [> 4.5315 = 7.5525 < 9.8182] w=0.6499 to align # Constraint # added constraint: constraint((T0334)Q38.CB, (T0334)D195.CB) [> 4.4059 = 7.3432 < 9.5462] w=0.6475 to align # Constraint # added constraint: constraint((T0334)E198.CB, (T0334)A214.CB) [> 3.3922 = 5.6537 < 7.3499] w=0.6450 to align # Constraint # added constraint: constraint((T0334)L36.CB, (T0334)V190.CB) [> 4.0029 = 6.6715 < 8.6729] w=0.6416 to align # Constraint # added constraint: constraint((T0334)L9.CB, (T0334)V211.CB) [> 3.3371 = 5.5618 < 7.2304] w=0.6399 to align # Constraint # added constraint: constraint((T0334)I8.CB, (T0334)A32.CB) [> 3.4188 = 5.6981 < 7.4075] w=0.6387 to align # Constraint # added constraint: constraint((T0334)A20.CB, (T0334)L371.CB) [> 3.5425 = 5.9042 < 7.6755] w=0.6374 to align # Constraint # added constraint: constraint((T0334)L223.CB, (T0334)V344.CB) [> 3.9938 = 6.6563 < 8.6532] w=0.6280 to align # Constraint # added constraint: constraint((T0334)F224.CB, (T0334)V344.CB) [> 4.2117 = 7.0196 < 9.1254] w=0.6280 to align # Constraint # added constraint: constraint((T0334)V225.CB, (T0334)L371.CB) [> 3.6345 = 6.0574 < 7.8747] w=0.6280 to align # Constraint # added constraint: constraint((T0334)K7.CB, (T0334)A32.CB) [> 3.2573 = 5.4288 < 7.0574] w=0.6269 to align # Constraint # added constraint: constraint((T0334)G17.CA, (T0334)I346.CB) [> 3.9445 = 6.5741 < 8.5464] w=0.6197 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)I346.CB) [> 2.6037 = 4.3395 < 5.6413] w=0.6197 to align # Constraint # added constraint: constraint((T0334)L37.CB, (T0334)T213.CB) [> 3.8943 = 6.4905 < 8.4377] w=0.6180 to align # Constraint # added constraint: constraint((T0334)I34.CB, (T0334)V190.CB) [> 3.7924 = 6.3207 < 8.2169] w=0.6180 to align # Constraint # added constraint: constraint((T0334)S22.CB, (T0334)L180.CB) [> 3.5764 = 5.9606 < 7.7488] w=0.6162 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)G347.CA) [> 2.4657 = 4.1094 < 5.3422] w=0.6137 to align # Constraint # added constraint: constraint((T0334)A20.CB, (T0334)I346.CB) [> 3.6266 = 6.0444 < 7.8577] w=0.6078 to align # Constraint # added constraint: constraint((T0334)T35.CB, (T0334)H192.CB) [> 4.2818 = 7.1364 < 9.2773] w=0.6065 to align # Constraint # added constraint: constraint((T0334)D226.CB, (T0334)I346.CB) [> 4.1260 = 6.8767 < 8.9398] w=0.6043 to align # Constraint # added constraint: constraint((T0334)D226.CB, (T0334)S345.CB) [> 2.8436 = 4.7394 < 6.1612] w=0.6043 to align # Constraint # added constraint: constraint((T0334)I346.CB, (T0334)L371.CB) [> 3.2744 = 5.4573 < 7.0945] w=0.6037 to align # Constraint # added constraint: constraint((T0334)L9.CB, (T0334)L36.CB) [> 4.6720 = 7.7867 < 10.1227] w=0.6028 to align # Constraint # added constraint: constraint((T0334)F224.CB, (T0334)C343.CB) [> 3.1580 = 5.2634 < 6.8424] w=0.5984 to align # Constraint # added constraint: constraint((T0334)W18.CB, (T0334)A177.CB) [> 3.8401 = 6.4002 < 8.3203] w=0.5984 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)L180.CB) [> 3.8551 = 6.4251 < 8.3526] w=0.5984 to align # Constraint # added constraint: constraint((T0334)G347.CA, (T0334)A367.CB) [> 3.4810 = 5.8017 < 7.5423] w=0.5978 to align # Constraint # added constraint: constraint((T0334)Y23.CB, (T0334)V372.CB) [> 2.4984 = 4.1640 < 5.4132] w=0.5960 to align # Constraint # added constraint: constraint((T0334)V225.CB, (T0334)I346.CB) [> 3.5655 = 5.9425 < 7.7253] w=0.5925 to align # Constraint # added constraint: constraint((T0334)I8.CB, (T0334)F375.CB) [> 3.7594 = 6.2657 < 8.1454] w=0.5901 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)R212.CB) [> 4.4772 = 7.4621 < 9.7007] w=0.5899 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)V211.CB) [> 4.2706 = 7.1176 < 9.2529] w=0.5848 to align # Constraint # added constraint: constraint((T0334)D222.CB, (T0334)N342.CB) [> 3.9381 = 6.5634 < 8.5324] w=0.5807 to align # Constraint # added constraint: constraint((T0334)W18.CB, (T0334)R181.CB) [> 3.7258 = 6.2096 < 8.0725] w=0.5807 to align # Constraint # added constraint: constraint((T0334)T35.CB, (T0334)R191.CB) [> 3.5398 = 5.8998 < 7.6697] w=0.5768 to align # Constraint # added constraint: constraint((T0334)D226.CB, (T0334)V344.CB) [> 4.0964 = 6.8273 < 8.8755] w=0.5748 to align # Constraint # added constraint: constraint((T0334)V225.CB, (T0334)V344.CB) [> 2.8920 = 4.8200 < 6.2660] w=0.5748 to align # Constraint # added constraint: constraint((T0334)C227.CB, (T0334)G347.CA) [> 3.7847 = 6.3079 < 8.2003] w=0.5748 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)A177.CB) [> 3.7277 = 6.2128 < 8.0767] w=0.5748 to align # Constraint # added constraint: constraint((T0334)Q201.CB, (T0334)V211.CB) [> 4.1874 = 6.9791 < 9.0728] w=0.5730 to align # Constraint # added constraint: constraint((T0334)G347.CA, (T0334)G360.CA) [> 4.0642 = 6.7736 < 8.8057] w=0.5723 to align # Constraint # added constraint: constraint((T0334)D6.CB, (T0334)D33.CB) [> 3.3225 = 5.5374 < 7.1987] w=0.5721 to align # Constraint # added constraint: constraint((T0334)D41.CB, (T0334)E194.CB) [> 3.5163 = 5.8605 < 7.6187] w=0.5706 to align # Constraint # added constraint: constraint((T0334)D226.CB, (T0334)C343.CB) [> 4.0317 = 6.7195 < 8.7353] w=0.5689 to align # Constraint # added constraint: constraint((T0334)F224.CB, (T0334)N342.CB) [> 3.8183 = 6.3639 < 8.2730] w=0.5689 to align # Constraint # added constraint: constraint((T0334)L223.CB, (T0334)N342.CB) [> 2.9231 = 4.8718 < 6.3334] w=0.5689 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)E209.CB) [> 3.9043 = 6.5071 < 8.4593] w=0.5673 to align # Constraint # added constraint: constraint((T0334)L223.CB, (T0334)F375.CB) [> 3.4031 = 5.6718 < 7.3733] w=0.5629 to align # Constraint # added constraint: constraint((T0334)S210.CB, (T0334)A221.CB) [> 3.8586 = 6.4310 < 8.3603] w=0.5581 to align # Constraint # added constraint: constraint((T0334)C227.CB, (T0334)I346.CB) [> 2.9050 = 4.8417 < 6.2942] w=0.5511 to align # Constraint # added constraint: constraint((T0334)S350.CB, (T0334)A367.CB) [> 4.2054 = 7.0091 < 9.1118] w=0.5505 to align # Constraint # added constraint: constraint((T0334)I346.CB, (T0334)L368.CB) [> 3.1762 = 5.2936 < 6.8817] w=0.5505 to align # Constraint # added constraint: constraint((T0334)L37.CB, (T0334)V211.CB) [> 4.1656 = 6.9427 < 9.0255] w=0.5475 to align # Constraint # added constraint: constraint((T0334)L223.CB, (T0334)C343.CB) [> 4.5181 = 7.5302 < 9.7893] w=0.5452 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)A177.CB) [> 3.6548 = 6.0913 < 7.9187] w=0.5452 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)L368.CB) [> 3.0067 = 5.0112 < 6.5146] w=0.5428 to align # Constraint # added constraint: constraint((T0334)A20.CB, (T0334)V372.CB) [> 3.0947 = 5.1578 < 6.7052] w=0.5369 to align # Constraint # added constraint: constraint((T0334)F230.CB, (T0334)T348.CB) [> 3.1574 = 5.2623 < 6.8410] w=0.5323 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)T348.CB) [> 4.2311 = 7.0518 < 9.1674] w=0.5306 to align # Constraint # added constraint: constraint((T0334)G17.CA, (T0334)L368.CB) [> 3.6740 = 6.1233 < 7.9602] w=0.5191 to align # Constraint # added constraint: constraint((T0334)G25.CA, (T0334)L188.CB) [> 3.6596 = 6.0993 < 7.9290] w=0.5171 to align # Constraint # added constraint: constraint((T0334)G229.CA, (T0334)G347.CA) [> 3.8672 = 6.4453 < 8.3788] w=0.5156 to align # Constraint # added constraint: constraint((T0334)E209.CB, (T0334)F224.CB) [> 3.3943 = 5.6572 < 7.3544] w=0.5105 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)L180.CB) [> 4.1318 = 6.8863 < 8.9522] w=0.5097 to align # Constraint # added constraint: constraint((T0334)D195.CB, (T0334)T215.CB) [> 3.7755 = 6.2926 < 8.1804] w=0.5060 to align # Constraint # added constraint: constraint((T0334)I208.CB, (T0334)A221.CB) [> 4.0222 = 6.7037 < 8.7148] w=0.5053 to align # Constraint # added constraint: constraint((T0334)L37.CB, (T0334)V193.CB) [> 3.2647 = 5.4411 < 7.0734] w=0.5053 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)C343.CB) [> 4.1190 = 6.8650 < 8.9244] w=0.4920 to align # Constraint # added constraint: constraint((T0334)L24.CB, (T0334)F375.CB) [> 3.8370 = 6.3951 < 8.3136] w=0.4896 to align # Constraint # added constraint: constraint((T0334)G347.CA, (T0334)L368.CB) [> 4.3026 = 7.1709 < 9.3222] w=0.4855 to align # Constraint # added constraint: constraint((T0334)E209.CB, (T0334)D222.CB) [> 4.3609 = 7.2681 < 9.4486] w=0.4811 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)A173.CB) [> 4.1397 = 6.8996 < 8.9694] w=0.4802 to align # Constraint # added constraint: constraint((T0334)L37.CB, (T0334)H192.CB) [> 3.6277 = 6.0461 < 7.8599] w=0.4689 to align # Constraint # added constraint: constraint((T0334)L36.CB, (T0334)V193.CB) [> 4.2202 = 7.0337 < 9.1438] w=0.4620 to align # Constraint # added constraint: constraint((T0334)L37.CB, (T0334)F219.CB) [> 4.3641 = 7.2734 < 9.4555] w=0.4588 to align # Constraint # added constraint: constraint((T0334)V225.CB, (T0334)S345.CB) [> 4.4006 = 7.3343 < 9.5346] w=0.4565 to align # Constraint # added constraint: constraint((T0334)D6.CB, (T0334)F219.CB) [> 3.9523 = 6.5872 < 8.5634] w=0.4565 to align # Constraint # added constraint: constraint((T0334)G229.CA, (T0334)S349.CB) [> 2.8796 = 4.7994 < 6.2392] w=0.4561 to align # Constraint # added constraint: constraint((T0334)T348.CB, (T0334)V364.CB) [> 3.9556 = 6.5927 < 8.5705] w=0.4554 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)G229.CA) [> 4.5640 = 7.6067 < 9.8888] w=0.4549 to align # Constraint # added constraint: constraint((T0334)D6.CB, (T0334)D220.CB) [> 4.0268 = 6.7113 < 8.7247] w=0.4506 to align # Constraint # added constraint: constraint((T0334)A39.CB, (T0334)V197.CB) [> 4.4318 = 7.3863 < 9.6022] w=0.4506 to align # Constraint # added constraint: constraint((T0334)G13.CA, (T0334)L37.CB) [> 4.6315 = 7.7192 < 10.0350] w=0.4489 to align # Constraint # added constraint: constraint((T0334)G229.CA, (T0334)T348.CB) [> 2.4404 = 4.0673 < 5.2875] w=0.4384 to align # Constraint # added constraint: constraint((T0334)I208.CB, (T0334)F224.CB) [> 3.1822 = 5.3036 < 6.8947] w=0.4345 to align # Constraint # added constraint: constraint((T0334)C227.CB, (T0334)S349.CB) [> 3.7823 = 6.3038 < 8.1950] w=0.4325 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)Y365.CB) [> 3.6444 = 6.0740 < 7.8962] w=0.4304 to align # Constraint # added constraint: constraint((T0334)I34.CB, (T0334)G189.CA) [> 3.8195 = 6.3658 < 8.2755] w=0.4280 to align # Constraint # added constraint: constraint((T0334)E209.CB, (T0334)N342.CB) [> 3.9228 = 6.5380 < 8.4994] w=0.4269 to align # Constraint # added constraint: constraint((T0334)D226.CB, (T0334)S349.CB) [> 3.2018 = 5.3364 < 6.9373] w=0.4266 to align # Constraint # added constraint: constraint((T0334)L37.CB, (T0334)R196.CB) [> 4.5122 = 7.5204 < 9.7765] w=0.4252 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)S349.CB) [> 4.4442 = 7.4070 < 9.6291] w=0.4241 to align # Constraint # added constraint: constraint((T0334)R181.CB, (T0334)H192.CB) [> 3.8297 = 6.3829 < 8.2977] w=0.4234 to align # Constraint # added constraint: constraint((T0334)C227.CB, (T0334)S345.CB) [> 4.5483 = 7.5805 < 9.8547] w=0.4151 to align # Constraint # added constraint: constraint((T0334)G17.CA, (T0334)V364.CB) [> 3.8642 = 6.4404 < 8.3725] w=0.4151 to align # Constraint # added constraint: constraint((T0334)A275.CB, (T0334)W284.CB) [> 3.6017 = 6.0028 < 7.8036] w=0.4114 to align # Constraint # added constraint: constraint((T0334)D6.CB, (T0334)T35.CB) [> 2.9745 = 4.9575 < 6.4448] w=0.4110 to align # Constraint # added constraint: constraint((T0334)S228.CB, (T0334)S349.CB) [> 3.0468 = 5.0779 < 6.6013] w=0.4088 to align # Constraint # added constraint: constraint((T0334)D6.CB, (T0334)A221.CB) [> 3.3265 = 5.5442 < 7.2074] w=0.4088 to align # Constraint # added constraint: constraint((T0334)T348.CB, (T0334)G360.CA) [> 4.1536 = 6.9226 < 8.9994] w=0.4064 to align # Constraint # added constraint: constraint((T0334)K7.CB, (T0334)L24.CB) [> 4.5170 = 7.5284 < 9.7869] w=0.4060 to align # Constraint # added constraint: constraint((T0334)P40.CB, (T0334)D195.CB) [> 4.3277 = 7.2129 < 9.3767] w=0.4029 to align # Constraint # added constraint: constraint((T0334)A21.CB, (T0334)V190.CB) [> 3.2876 = 5.4794 < 7.1231] w=0.3852 to align # Constraint # added constraint: constraint((T0334)G13.CA, (T0334)I42.CB) [> 3.5397 = 5.8995 < 7.6693] w=0.3846 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)Y365.CB) [> 4.3180 = 7.1966 < 9.3556] w=0.3831 to align # Constraint # added constraint: constraint((T0334)A173.CB, (T0334)I361.CB) [> 3.7988 = 6.3313 < 8.2307] w=0.3796 to align # Constraint # added constraint: constraint((T0334)G25.CA, (T0334)V190.CB) [> 3.8448 = 6.4080 < 8.3304] w=0.3792 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)G347.CA) [> 4.6004 = 7.6674 < 9.9676] w=0.3772 to align # Constraint # added constraint: constraint((T0334)G13.CA, (T0334)P40.CB) [> 4.4561 = 7.4269 < 9.6550] w=0.3755 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)T44.CB) [> 3.0289 = 5.0481 < 6.5626] w=0.3742 to align # Constraint # added constraint: constraint((T0334)V197.CB, (T0334)S228.CB) [> 4.5328 = 7.5546 < 9.8209] w=0.3737 to align # Constraint # added constraint: constraint((T0334)F230.CB, (T0334)S349.CB) [> 4.1869 = 6.9782 < 9.0717] w=0.3733 to align # Constraint # added constraint: constraint((T0334)V193.CB, (T0334)T213.CB) [> 4.4117 = 7.3528 < 9.5586] w=0.3724 to align # Constraint # added constraint: constraint((T0334)E198.CB, (T0334)V211.CB) [> 4.1691 = 6.9484 < 9.0330] w=0.3718 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)W284.CB) [> 3.9213 = 6.5355 < 8.4961] w=0.3700 to align # Constraint # added constraint: constraint((T0334)D6.CB, (T0334)I34.CB) [> 3.8924 = 6.4873 < 8.4335] w=0.3692 to align # Constraint # added constraint: constraint((T0334)I42.CB, (T0334)R181.CB) [> 3.6612 = 6.1020 < 7.9325] w=0.3629 to align # Constraint # added constraint: constraint((T0334)C227.CB, (T0334)V364.CB) [> 4.2446 = 7.0743 < 9.1966] w=0.3625 to align # Constraint # added constraint: constraint((T0334)G206.CA, (T0334)A221.CB) [> 4.0352 = 6.7253 < 8.7429] w=0.3615 to align # Constraint # added constraint: constraint((T0334)D195.CB, (T0334)T213.CB) [> 3.0987 = 5.1645 < 6.7139] w=0.3571 to align # Constraint # added constraint: constraint((T0334)E209.CB, (T0334)L223.CB) [> 4.3029 = 7.1715 < 9.3230] w=0.3570 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)Y369.CB) [> 3.3709 = 5.6182 < 7.3036] w=0.3535 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)P43.CB) [> 3.6046 = 6.0077 < 7.8100] w=0.3530 to align # Constraint # added constraint: constraint((T0334)I208.CB, (T0334)L223.CB) [> 4.0897 = 6.8162 < 8.8611] w=0.3517 to align # Constraint # added constraint: constraint((T0334)I34.CB, (T0334)R191.CB) [> 4.3222 = 7.2037 < 9.3648] w=0.3497 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)L45.CB) [> 3.8593 = 6.4322 < 8.3619] w=0.3474 to align # Constraint # added constraint: constraint((T0334)I208.CB, (T0334)D222.CB) [> 4.1525 = 6.9208 < 8.9971] w=0.3458 to align # Constraint # added constraint: constraint((T0334)G12.CA, (T0334)V197.CB) [> 4.6552 = 7.7587 < 10.0863] w=0.3441 to align # Constraint # added constraint: constraint((T0334)I5.CB, (T0334)F219.CB) [> 4.3745 = 7.2908 < 9.4780] w=0.3441 to align # Constraint # added constraint: constraint((T0334)V197.CB, (T0334)A214.CB) [> 4.2045 = 7.0075 < 9.1098] w=0.3427 to align # Constraint # added constraint: constraint((T0334)I5.CB, (T0334)A221.CB) [> 4.3884 = 7.3140 < 9.5081] w=0.3421 to align # Constraint # added constraint: constraint((T0334)L37.CB, (T0334)D195.CB) [> 2.9153 = 4.8588 < 6.3164] w=0.3393 to align # Constraint # added constraint: constraint((T0334)A32.CB, (T0334)F375.CB) [> 4.1632 = 6.9387 < 9.0203] w=0.3378 to align # Constraint # added constraint: constraint((T0334)C351.CB, (T0334)F363.CB) [> 3.9010 = 6.5016 < 8.4521] w=0.3375 to align # Constraint # added constraint: constraint((T0334)V353.CB, (T0334)F363.CB) [> 3.6964 = 6.1607 < 8.0089] w=0.3362 to align # Constraint # added constraint: constraint((T0334)K285.CB, (T0334)G295.CA) [> 3.8318 = 6.3863 < 8.3022] w=0.3354 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)Q38.CB) [> 4.5392 = 7.5654 < 9.8350] w=0.3341 to align # Constraint # added constraint: constraint((T0334)A21.CB, (T0334)H192.CB) [> 4.6276 = 7.7126 < 10.0265] w=0.3321 to align # Constraint # added constraint: constraint((T0334)S345.CB, (T0334)A367.CB) [> 4.3710 = 7.2849 < 9.4704] w=0.3308 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)V47.CB) [> 3.6428 = 6.0713 < 7.8926] w=0.3278 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)I42.CB) [> 3.9855 = 6.6425 < 8.6352] w=0.3255 to align # Constraint # added constraint: constraint((T0334)T273.CB, (T0334)K285.CB) [> 3.6783 = 6.1305 < 7.9696] w=0.3227 to align # Constraint # added constraint: constraint((T0334)I8.CB, (T0334)T31.CB) [> 3.4313 = 5.7188 < 7.4345] w=0.3215 to align # Constraint # added constraint: constraint((T0334)T283.CB, (T0334)Y296.CB) [> 3.6250 = 6.0416 < 7.8541] w=0.3176 to align # Constraint # added constraint: constraint((T0334)S22.CB, (T0334)K187.CB) [> 4.0499 = 6.7498 < 8.7747] w=0.3172 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)F363.CB) [> 3.9536 = 6.5893 < 8.5660] w=0.3146 to align # Constraint # added constraint: constraint((T0334)K285.CB, (T0334)T294.CB) [> 3.5051 = 5.8418 < 7.5944] w=0.3118 to align # Constraint # added constraint: constraint((T0334)W284.CB, (T0334)G295.CA) [> 3.3882 = 5.6470 < 7.3411] w=0.3118 to align # Constraint # added constraint: constraint((T0334)L9.CB, (T0334)E209.CB) [> 4.1135 = 6.8558 < 8.9126] w=0.3109 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)K285.CB) [> 3.3860 = 5.6433 < 7.3363] w=0.3109 to align # Constraint # added constraint: constraint((T0334)W18.CB, (T0334)F183.CB) [> 4.4728 = 7.4546 < 9.6910] w=0.3087 to align # Constraint # added constraint: constraint((T0334)T283.CB, (T0334)V297.CB) [> 3.8641 = 6.4401 < 8.3722] w=0.3058 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)H374.CB) [> 4.1825 = 6.9708 < 9.0620] w=0.3038 to align # Constraint # added constraint: constraint((T0334)K7.CB, (T0334)T31.CB) [> 3.0891 = 5.1485 < 6.6931] w=0.3038 to align # Constraint # added constraint: constraint((T0334)L24.CB, (T0334)V225.CB) [> 4.6474 = 7.7456 < 10.0693] w=0.3027 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)F375.CB) [> 3.7392 = 6.2321 < 8.1017] w=0.3022 to align # Constraint # added constraint: constraint((T0334)I208.CB, (T0334)N342.CB) [> 2.5801 = 4.3002 < 5.5903] w=0.3010 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)I346.CB) [> 4.5717 = 7.6195 < 9.9053] w=0.3003 to align # Constraint # added constraint: constraint((T0334)A20.CB, (T0334)A367.CB) [> 3.6967 = 6.1611 < 8.0094] w=0.2957 to align # Constraint # added constraint: constraint((T0334)T273.CB, (T0334)W284.CB) [> 4.0732 = 6.7886 < 8.8252] w=0.2932 to align # Constraint # added constraint: constraint((T0334)W18.CB, (T0334)I42.CB) [> 4.0408 = 6.7346 < 8.7550] w=0.2901 to align # Constraint # added constraint: constraint((T0334)P40.CB, (T0334)V193.CB) [> 4.1818 = 6.9697 < 9.0606] w=0.2860 to align # Constraint # added constraint: constraint((T0334)G13.CA, (T0334)H192.CB) [> 4.4353 = 7.3922 < 9.6099] w=0.2850 to align # Constraint # added constraint: constraint((T0334)A21.CB, (T0334)L180.CB) [> 4.2026 = 7.0043 < 9.1056] w=0.2839 to align # Constraint # added constraint: constraint((T0334)N207.CB, (T0334)N342.CB) [> 3.2019 = 5.3365 < 6.9374] w=0.2832 to align # Constraint # added constraint: constraint((T0334)W284.CB, (T0334)Y296.CB) [> 3.5499 = 5.9165 < 7.6915] w=0.2821 to align # Constraint # added constraint: constraint((T0334)G232.CA, (T0334)S349.CB) [> 3.2970 = 5.4949 < 7.1434] w=0.2813 to align # Constraint # added constraint: constraint((T0334)G30.CA, (T0334)P376.CB) [> 3.8603 = 6.4338 < 8.3639] w=0.2788 to align # Constraint # added constraint: constraint((T0334)G48.CA, (T0334)A173.CB) [> 3.2849 = 5.4748 < 7.1172] w=0.2787 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)G360.CA) [> 3.6661 = 6.1101 < 7.9431] w=0.2779 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)V364.CB) [> 4.3627 = 7.2711 < 9.4525] w=0.2767 to align # Constraint # added constraint: constraint((T0334)D41.CB, (T0334)D195.CB) [> 3.5472 = 5.9120 < 7.6857] w=0.2728 to align # Constraint # added constraint: constraint((T0334)G46.CA, (T0334)A173.CB) [> 3.6254 = 6.0423 < 7.8549] w=0.2724 to align # Constraint # added constraint: constraint((T0334)T283.CB, (T0334)M315.CB) [> 2.8881 = 4.8135 < 6.2576] w=0.2720 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)V372.CB) [> 4.0985 = 6.8308 < 8.8801] w=0.2707 to align # Constraint # added constraint: constraint((T0334)Y23.CB, (T0334)K373.CB) [> 3.5238 = 5.8730 < 7.6349] w=0.2707 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)L36.CB) [> 4.7126 = 7.8542 < 10.2105] w=0.2696 to align # Constraint # added constraint: constraint((T0334)S345.CB, (T0334)L371.CB) [> 4.4278 = 7.3797 < 9.5936] w=0.2683 to align # Constraint # added constraint: constraint((T0334)A32.CB, (T0334)V372.CB) [> 4.4057 = 7.3429 < 9.5457] w=0.2669 to align # Constraint # added constraint: constraint((T0334)Y23.CB, (T0334)L371.CB) [> 4.5669 = 7.6115 < 9.8949] w=0.2648 to align # Constraint # added constraint: constraint((T0334)Y23.CB, (T0334)Y365.CB) [> 3.2540 = 5.4233 < 7.0503] w=0.2602 to align # Constraint # added constraint: constraint((T0334)I208.CB, (T0334)C343.CB) [> 3.2223 = 5.3704 < 6.9816] w=0.2596 to align # Constraint # added constraint: constraint((T0334)N207.CB, (T0334)D222.CB) [> 3.9145 = 6.5242 < 8.4815] w=0.2589 to align # Constraint # added constraint: constraint((T0334)I8.CB, (T0334)A20.CB) [> 4.6811 = 7.8019 < 10.1424] w=0.2586 to align # Constraint # added constraint: constraint((T0334)G281.CA, (T0334)Y298.CB) [> 3.3019 = 5.5032 < 7.1542] w=0.2585 to align # Constraint # added constraint: constraint((T0334)G12.CA, (T0334)D226.CB) [> 4.6037 = 7.6728 < 9.9746] w=0.2561 to align # Constraint # added constraint: constraint((T0334)R202.CB, (T0334)V340.CB) [> 4.2035 = 7.0058 < 9.1075] w=0.2557 to align # Constraint # added constraint: constraint((T0334)S350.CB, (T0334)F363.CB) [> 3.5711 = 5.9518 < 7.7374] w=0.2547 to align # Constraint # added constraint: constraint((T0334)D226.CB, (T0334)S350.CB) [> 4.5530 = 7.5884 < 9.8649] w=0.2543 to align # Constraint # added constraint: constraint((T0334)F272.CB, (T0334)P287.CB) [> 3.8066 = 6.3444 < 8.2477] w=0.2542 to align # Constraint # added constraint: constraint((T0334)W284.CB, (T0334)T294.CB) [> 4.2286 = 7.0476 < 9.1620] w=0.2527 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)V297.CB) [> 3.4298 = 5.7164 < 7.4313] w=0.2527 to align # Constraint # added constraint: constraint((T0334)K7.CB, (T0334)T35.CB) [> 4.3644 = 7.2740 < 9.4562] w=0.2501 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)G46.CA) [> 3.8926 = 6.4878 < 8.4341] w=0.2501 to align # Constraint # added constraint: constraint((T0334)K7.CB, (T0334)F375.CB) [> 4.2407 = 7.0678 < 9.1882] w=0.2495 to align # Constraint # added constraint: constraint((T0334)G295.CA, (T0334)F312.CB) [> 4.0817 = 6.8028 < 8.8436] w=0.2471 to align # Constraint # added constraint: constraint((T0334)T283.CB, (T0334)G295.CA) [> 3.9636 = 6.6061 < 8.5879] w=0.2468 to align # Constraint # added constraint: constraint((T0334)L9.CB, (T0334)S210.CB) [> 4.4381 = 7.3968 < 9.6159] w=0.2436 to align # Constraint # added constraint: constraint((T0334)E49.CB, (T0334)A173.CB) [> 3.3812 = 5.6354 < 7.3260] w=0.2432 to align # Constraint # added constraint: constraint((T0334)V225.CB, (T0334)C343.CB) [> 4.6904 = 7.8173 < 10.1625] w=0.2425 to align # Constraint # added constraint: constraint((T0334)D172.CB, (T0334)M288.CB) [> 3.6865 = 6.1441 < 7.9873] w=0.2425 to align # Constraint # added constraint: constraint((T0334)D226.CB, (T0334)I235.CB) [> 3.6323 = 6.0538 < 7.8700] w=0.2424 to align # Constraint # added constraint: constraint((T0334)I286.CB, (T0334)G295.CA) [> 3.8596 = 6.4327 < 8.3625] w=0.2424 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)A238.CB) [> 3.0565 = 5.0942 < 6.6224] w=0.2424 to align # Constraint # added constraint: constraint((T0334)G281.CA, (T0334)V297.CB) [> 3.8121 = 6.3534 < 8.2595] w=0.2409 to align # Constraint # added constraint: constraint((T0334)I346.CB, (T0334)Q370.CB) [> 4.3248 = 7.2080 < 9.3705] w=0.2388 to align # Constraint # added constraint: constraint((T0334)L36.CB, (T0334)G189.CA) [> 4.0983 = 6.8304 < 8.8796] w=0.2387 to align # Constraint # added constraint: constraint((T0334)M239.CB, (T0334)C343.CB) [> 3.9769 = 6.6282 < 8.6167] w=0.2375 to align # Constraint # added constraint: constraint((T0334)G232.CA, (T0334)H249.CB) [> 3.7299 = 6.2165 < 8.0814] w=0.2359 to align # Constraint # added constraint: constraint((T0334)F272.CB, (T0334)I286.CB) [> 3.7569 = 6.2615 < 8.1400] w=0.2345 to align # Constraint # added constraint: constraint((T0334)T258.CB, (T0334)T294.CB) [> 3.9230 = 6.5384 < 8.4999] w=0.2306 to align # Constraint # added constraint: constraint((T0334)A257.CB, (T0334)T294.CB) [> 3.8024 = 6.3374 < 8.2386] w=0.2306 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)Y298.CB) [> 3.7183 = 6.1972 < 8.0564] w=0.2306 to align # Constraint # added constraint: constraint((T0334)T31.CB, (T0334)P376.CB) [> 3.7693 = 6.2822 < 8.1669] w=0.2291 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)Y296.CB) [> 4.2887 = 7.1478 < 9.2921] w=0.2290 to align # Constraint # added constraint: constraint((T0334)P271.CB, (T0334)P287.CB) [> 3.9647 = 6.6079 < 8.5903] w=0.2281 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)L180.CB) [> 4.5318 = 7.5530 < 9.8189] w=0.2265 to align # Constraint # added constraint: constraint((T0334)I8.CB, (T0334)V372.CB) [> 4.3754 = 7.2924 < 9.4801] w=0.2259 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)G360.CA) [> 3.0525 = 5.0875 < 6.6137] w=0.2247 to align # Constraint # added constraint: constraint((T0334)D253.CB, (T0334)Y298.CB) [> 3.8033 = 6.3388 < 8.2404] w=0.2247 to align # Constraint # added constraint: constraint((T0334)H199.CB, (T0334)S210.CB) [> 3.9257 = 6.5428 < 8.5057] w=0.2246 to align # Constraint # added constraint: constraint((T0334)E354.CB, (T0334)F363.CB) [> 4.2466 = 7.0776 < 9.2009] w=0.2239 to align # Constraint # added constraint: constraint((T0334)A20.CB, (T0334)Y369.CB) [> 4.1316 = 6.8860 < 8.9518] w=0.2234 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)G48.CA) [> 3.8791 = 6.4652 < 8.4047] w=0.2214 to align # Constraint # added constraint: constraint((T0334)V47.CB, (T0334)A173.CB) [> 3.1332 = 5.2220 < 6.7886] w=0.2192 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)I361.CB) [> 3.0004 = 5.0007 < 6.5009] w=0.2188 to align # Constraint # added constraint: constraint((T0334)W18.CB, (T0334)V364.CB) [> 4.3379 = 7.2298 < 9.3988] w=0.2188 to align # Constraint # added constraint: constraint((T0334)G17.CA, (T0334)G347.CA) [> 4.5398 = 7.5662 < 9.8361] w=0.2188 to align # Constraint # added constraint: constraint((T0334)T258.CB, (T0334)G293.CA) [> 3.6495 = 6.0825 < 7.9072] w=0.2188 to align # Constraint # added constraint: constraint((T0334)A257.CB, (T0334)G293.CA) [> 3.7142 = 6.1903 < 8.0474] w=0.2188 to align # Constraint # added constraint: constraint((T0334)F230.CB, (T0334)F352.CB) [> 3.6770 = 6.1283 < 7.9668] w=0.2188 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)L371.CB) [> 4.4448 = 7.4081 < 9.6305] w=0.2175 to align # Constraint # added constraint: constraint((T0334)T348.CB, (T0334)F363.CB) [> 4.4219 = 7.3699 < 9.5809] w=0.2137 to align # Constraint # added constraint: constraint((T0334)N335.CB, (T0334)C351.CB) [> 3.9795 = 6.6325 < 8.6222] w=0.2134 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)I361.CB) [> 3.9046 = 6.5077 < 8.4600] w=0.2129 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)D226.CB) [> 4.6561 = 7.7602 < 10.0883] w=0.2129 to align # Constraint # added constraint: constraint((T0334)L55.CB, (T0334)I361.CB) [> 3.7798 = 6.2996 < 8.1895] w=0.2129 to align # Constraint # added constraint: constraint((T0334)A257.CB, (T0334)G295.CA) [> 3.5345 = 5.8908 < 7.6580] w=0.2129 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)T283.CB) [> 4.3854 = 7.3090 < 9.5017] w=0.2129 to align # Constraint # added constraint: constraint((T0334)G281.CA, (T0334)M315.CB) [> 3.6516 = 6.0860 < 7.9118] w=0.2129 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)F312.CB) [> 3.8238 = 6.3729 < 8.2848] w=0.2128 to align # Constraint # added constraint: constraint((T0334)T273.CB, (T0334)P287.CB) [> 4.4451 = 7.4085 < 9.6310] w=0.2128 to align # Constraint # added constraint: constraint((T0334)I208.CB, (T0334)G341.CA) [> 3.9298 = 6.5497 < 8.5146] w=0.2123 to align # Constraint # added constraint: constraint((T0334)N207.CB, (T0334)D220.CB) [> 3.5062 = 5.8437 < 7.5968] w=0.2115 to align # Constraint # added constraint: constraint((T0334)A20.CB, (T0334)V344.CB) [> 4.6086 = 7.6810 < 9.9854] w=0.2081 to align # Constraint # added constraint: constraint((T0334)M239.CB, (T0334)V340.CB) [> 3.2553 = 5.4255 < 7.0532] w=0.2079 to align # Constraint # added constraint: constraint((T0334)R202.CB, (T0334)C343.CB) [> 3.9113 = 6.5188 < 8.4744] w=0.2070 to align # Constraint # added constraint: constraint((T0334)Q259.CB, (T0334)F292.CB) [> 3.9390 = 6.5650 < 8.5345] w=0.2070 to align # Constraint # added constraint: constraint((T0334)V260.CB, (T0334)F292.CB) [> 3.5199 = 5.8664 < 7.6264] w=0.2070 to align # Constraint # added constraint: constraint((T0334)A255.CB, (T0334)V297.CB) [> 3.9190 = 6.5317 < 8.4913] w=0.2069 to align # Constraint # added constraint: constraint((T0334)D253.CB, (T0334)S299.CB) [> 3.7418 = 6.2363 < 8.1072] w=0.2069 to align # Constraint # added constraint: constraint((T0334)N207.CB, (T0334)G341.CA) [> 3.0770 = 5.1284 < 6.6669] w=0.2063 to align # Constraint # added constraint: constraint((T0334)G13.CA, (T0334)V47.CB) [> 3.8449 = 6.4081 < 8.3305] w=0.2053 to align # Constraint # added constraint: constraint((T0334)T283.CB, (T0334)F312.CB) [> 3.7441 = 6.2402 < 8.1123] w=0.2011 to align # Constraint # added constraint: constraint((T0334)T258.CB, (T0334)L325.CB) [> 3.2545 = 5.4241 < 7.0513] w=0.2011 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)M239.CB) [> 3.6150 = 6.0250 < 7.8325] w=0.2010 to align # Constraint # added constraint: constraint((T0334)Y296.CB, (T0334)F312.CB) [> 3.4295 = 5.7158 < 7.4306] w=0.2010 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)Y298.CB) [> 3.1113 = 5.1855 < 6.7411] w=0.2010 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)L234.CB) [> 3.5777 = 5.9628 < 7.7516] w=0.1994 to align # Constraint # added constraint: constraint((T0334)K4.CB, (T0334)F219.CB) [> 3.4222 = 5.7037 < 7.4148] w=0.1964 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)V332.CB) [> 4.1431 = 6.9051 < 8.9767] w=0.1959 to align # Constraint # added constraint: constraint((T0334)G12.CA, (T0334)T44.CB) [> 4.1368 = 6.8946 < 8.9630] w=0.1954 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)V297.CB) [> 3.8373 = 6.3955 < 8.3141] w=0.1952 to align # Constraint # added constraint: constraint((T0334)A338.CB, (T0334)S350.CB) [> 3.0776 = 5.1293 < 6.6681] w=0.1951 to align # Constraint # added constraint: constraint((T0334)G232.CA, (T0334)D248.CB) [> 3.4327 = 5.7212 < 7.4376] w=0.1945 to align # Constraint # added constraint: constraint((T0334)E209.CB, (T0334)F219.CB) [> 3.6052 = 6.0086 < 7.8112] w=0.1936 to align # Constraint # added constraint: constraint((T0334)S210.CB, (T0334)F224.CB) [> 4.4425 = 7.4041 < 9.6253] w=0.1907 to align # Constraint # added constraint: constraint((T0334)C351.CB, (T0334)G360.CA) [> 4.2245 = 7.0408 < 9.1531] w=0.1896 to align # Constraint # added constraint: constraint((T0334)I346.CB, (T0334)F363.CB) [> 3.2243 = 5.3738 < 6.9860] w=0.1892 to align # Constraint # added constraint: constraint((T0334)L55.CB, (T0334)Y362.CB) [> 3.3631 = 5.6051 < 7.2867] w=0.1892 to align # Constraint # added constraint: constraint((T0334)L45.CB, (T0334)A173.CB) [> 4.1242 = 6.8737 < 8.9358] w=0.1892 to align # Constraint # added constraint: constraint((T0334)A255.CB, (T0334)Y296.CB) [> 3.5246 = 5.8743 < 7.6366] w=0.1892 to align # Constraint # added constraint: constraint((T0334)A255.CB, (T0334)F330.CB) [> 4.0283 = 6.7138 < 8.7280] w=0.1892 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)F330.CB) [> 4.1235 = 6.8726 < 8.9343] w=0.1892 to align # Constraint # added constraint: constraint((T0334)I276.CB, (T0334)K285.CB) [> 4.2232 = 7.0386 < 9.1502] w=0.1892 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)L325.CB) [> 3.6862 = 6.1437 < 7.9868] w=0.1892 to align # Constraint # added constraint: constraint((T0334)S280.CB, (T0334)M315.CB) [> 3.2685 = 5.4475 < 7.0817] w=0.1892 to align # Constraint # added constraint: constraint((T0334)H374.CB, (T0334)L384.CB) [> 3.2973 = 5.4954 < 7.1441] w=0.1892 to align # Constraint # added constraint: constraint((T0334)N335.CB, (T0334)S345.CB) [> 4.0789 = 6.7982 < 8.8377] w=0.1892 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)A308.CB) [> 3.6060 = 6.0100 < 7.8130] w=0.1892 to align # Constraint # added constraint: constraint((T0334)A275.CB, (T0334)K285.CB) [> 4.1417 = 6.9028 < 8.9736] w=0.1867 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)V47.CB) [> 3.4365 = 5.7276 < 7.4459] w=0.1847 to align # Constraint # added constraint: constraint((T0334)T51.CB, (T0334)F171.CB) [> 3.5440 = 5.9067 < 7.6787] w=0.1837 to align # Constraint # added constraint: constraint((T0334)F59.CB, (T0334)V176.CB) [> 4.1808 = 6.9679 < 9.0583] w=0.1837 to align # Constraint # added constraint: constraint((T0334)T294.CB, (T0334)F312.CB) [> 3.6639 = 6.1065 < 7.9384] w=0.1833 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)G295.CA) [> 3.6496 = 6.0827 < 7.9075] w=0.1833 to align # Constraint # added constraint: constraint((T0334)A255.CB, (T0334)G295.CA) [> 3.6029 = 6.0048 < 7.8062] w=0.1833 to align # Constraint # added constraint: constraint((T0334)A257.CB, (T0334)I328.CB) [> 3.6963 = 6.1605 < 8.0087] w=0.1833 to align # Constraint # added constraint: constraint((T0334)Q259.CB, (T0334)G293.CA) [> 3.5889 = 5.9815 < 7.7760] w=0.1833 to align # Constraint # added constraint: constraint((T0334)M278.CB, (T0334)M315.CB) [> 3.1928 = 5.3213 < 6.9177] w=0.1833 to align # Constraint # added constraint: constraint((T0334)N335.CB, (T0334)S350.CB) [> 3.3472 = 5.5787 < 7.2523] w=0.1833 to align # Constraint # added constraint: constraint((T0334)W284.CB, (T0334)V297.CB) [> 3.9404 = 6.5674 < 8.5376] w=0.1832 to align # Constraint # added constraint: constraint((T0334)D226.CB, (T0334)N236.CB) [> 4.1269 = 6.8782 < 8.9417] w=0.1832 to align # Constraint # added constraint: constraint((T0334)I208.CB, (T0334)V340.CB) [> 4.0882 = 6.8136 < 8.8576] w=0.1827 to align # Constraint # added constraint: constraint((T0334)K285.CB, (T0334)Y296.CB) [> 4.1156 = 6.8593 < 8.9171] w=0.1816 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)G46.CA) [> 4.1387 = 6.8979 < 8.9673] w=0.1787 to align # Constraint # added constraint: constraint((T0334)A50.CB, (T0334)A173.CB) [> 2.9597 = 4.9329 < 6.4127] w=0.1782 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)L233.CB) [> 4.0476 = 6.7460 < 8.7698] w=0.1774 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)R327.CB) [> 3.6814 = 6.1357 < 7.9765] w=0.1774 to align # Constraint # added constraint: constraint((T0334)A257.CB, (T0334)R327.CB) [> 4.3240 = 7.2067 < 9.3687] w=0.1774 to align # Constraint # added constraint: constraint((T0334)Q370.CB, (T0334)F388.CB) [> 3.7346 = 6.2243 < 8.0916] w=0.1774 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)R327.CB) [> 3.4716 = 5.7859 < 7.5217] w=0.1774 to align # Constraint # added constraint: constraint((T0334)S280.CB, (T0334)E311.CB) [> 4.0976 = 6.8293 < 8.8781] w=0.1774 to align # Constraint # added constraint: constraint((T0334)E270.CB, (T0334)P287.CB) [> 3.6124 = 6.0207 < 7.8270] w=0.1774 to align # Constraint # added constraint: constraint((T0334)R334.CB, (T0334)S350.CB) [> 4.3920 = 7.3200 < 9.5160] w=0.1774 to align # Constraint # added constraint: constraint((T0334)I5.CB, (T0334)D33.CB) [> 4.1373 = 6.8955 < 8.9641] w=0.1773 to align # Constraint # added constraint: constraint((T0334)T258.CB, (T0334)G295.CA) [> 3.8427 = 6.4045 < 8.3258] w=0.1773 to align # Constraint # added constraint: constraint((T0334)D33.CB, (T0334)G189.CA) [> 4.2714 = 7.1191 < 9.2548] w=0.1758 to align # Constraint # added constraint: constraint((T0334)E209.CB, (T0334)V218.CB) [> 3.8495 = 6.4159 < 8.3406] w=0.1748 to align # Constraint # added constraint: constraint((T0334)K7.CB, (T0334)D220.CB) [> 3.8386 = 6.3976 < 8.3169] w=0.1733 to align # Constraint # added constraint: constraint((T0334)V47.CB, (T0334)I361.CB) [> 4.1377 = 6.8961 < 8.9649] w=0.1719 to align # Constraint # added constraint: constraint((T0334)I52.CB, (T0334)S358.CB) [> 3.5154 = 5.8591 < 7.6168] w=0.1719 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)G360.CA) [> 4.1772 = 6.9619 < 9.0505] w=0.1715 to align # Constraint # added constraint: constraint((T0334)L234.CB, (T0334)S345.CB) [> 3.6688 = 6.1146 < 7.9490] w=0.1715 to align # Constraint # added constraint: constraint((T0334)T283.CB, (T0334)W316.CB) [> 3.8851 = 6.4751 < 8.4176] w=0.1715 to align # Constraint # added constraint: constraint((T0334)A255.CB, (T0334)R327.CB) [> 3.9742 = 6.6237 < 8.6108] w=0.1715 to align # Constraint # added constraint: constraint((T0334)A257.CB, (T0334)L325.CB) [> 3.8849 = 6.4749 < 8.4173] w=0.1715 to align # Constraint # added constraint: constraint((T0334)T283.CB, (T0334)Y298.CB) [> 4.0165 = 6.6942 < 8.7025] w=0.1714 to align # Constraint # added constraint: constraint((T0334)V297.CB, (T0334)A308.CB) [> 3.6165 = 6.0275 < 7.8358] w=0.1703 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)A50.CB) [> 4.0640 = 6.7733 < 8.8053] w=0.1678 to align # Constraint # added constraint: constraint((T0334)I34.CB, (T0334)L188.CB) [> 4.2240 = 7.0399 < 9.1519] w=0.1674 to align # Constraint # added constraint: constraint((T0334)V225.CB, (T0334)V372.CB) [> 4.0929 = 6.8215 < 8.8680] w=0.1667 to align # Constraint # added constraint: constraint((T0334)V309.CB, (T0334)L325.CB) [> 4.0256 = 6.7093 < 8.7221] w=0.1661 to align # Constraint # added constraint: constraint((T0334)V297.CB, (T0334)F312.CB) [> 3.7373 = 6.2288 < 8.0975] w=0.1660 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)Q370.CB) [> 3.5417 = 5.9029 < 7.6738] w=0.1656 to align # Constraint # added constraint: constraint((T0334)Q259.CB, (T0334)L325.CB) [> 3.5119 = 5.8532 < 7.6092] w=0.1656 to align # Constraint # added constraint: constraint((T0334)F330.CB, (T0334)E354.CB) [> 2.8974 = 4.8290 < 6.2777] w=0.1656 to align # Constraint # added constraint: constraint((T0334)D253.CB, (T0334)F330.CB) [> 3.7258 = 6.2096 < 8.0725] w=0.1656 to align # Constraint # added constraint: constraint((T0334)A257.CB, (T0334)Y296.CB) [> 4.0611 = 6.7684 < 8.7990] w=0.1655 to align # Constraint # added constraint: constraint((T0334)H199.CB, (T0334)A238.CB) [> 4.0458 = 6.7430 < 8.7659] w=0.1655 to align # Constraint # added constraint: constraint((T0334)A308.CB, (T0334)L325.CB) [> 4.2449 = 7.0748 < 9.1972] w=0.1640 to align # Constraint # added constraint: constraint((T0334)G281.CA, (T0334)S299.CB) [> 3.6895 = 6.1491 < 7.9939] w=0.1639 to align # Constraint # added constraint: constraint((T0334)D172.CB, (T0334)I361.CB) [> 3.7895 = 6.3158 < 8.2105] w=0.1608 to align # Constraint # added constraint: constraint((T0334)D253.CB, (T0334)R334.CB) [> 4.0815 = 6.8025 < 8.8432] w=0.1601 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)S299.CB) [> 3.9135 = 6.5224 < 8.4792] w=0.1597 to align # Constraint # added constraint: constraint((T0334)Q259.CB, (T0334)R291.CB) [> 3.4157 = 5.6928 < 7.4007] w=0.1597 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)A308.CB) [> 3.6898 = 6.1497 < 7.9946] w=0.1597 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)L234.CB) [> 4.0544 = 6.7573 < 8.7844] w=0.1597 to align # Constraint # added constraint: constraint((T0334)H170.CB, (T0334)I286.CB) [> 4.0167 = 6.6945 < 8.7028] w=0.1597 to align # Constraint # added constraint: constraint((T0334)F363.CB, (T0334)M395.CB) [> 3.9550 = 6.5918 < 8.5693] w=0.1597 to align # Constraint # added constraint: constraint((T0334)C351.CB, (T0334)F396.CB) [> 3.3565 = 5.5942 < 7.2724] w=0.1597 to align # Constraint # added constraint: constraint((T0334)S350.CB, (T0334)I392.CB) [> 4.3963 = 7.3272 < 9.5254] w=0.1597 to align # Constraint # added constraint: constraint((T0334)R334.CB, (T0334)C351.CB) [> 2.8886 = 4.8143 < 6.2586] w=0.1597 to align # Constraint # added constraint: constraint((T0334)G333.CA, (T0334)F352.CB) [> 2.8037 = 4.6729 < 6.0747] w=0.1597 to align # Constraint # added constraint: constraint((T0334)V332.CB, (T0334)E354.CB) [> 3.9293 = 6.5488 < 8.5134] w=0.1597 to align # Constraint # added constraint: constraint((T0334)T51.CB, (T0334)I361.CB) [> 4.2381 = 7.0635 < 9.1825] w=0.1597 to align # Constraint # added constraint: constraint((T0334)V260.CB, (T0334)G293.CA) [> 3.5773 = 5.9622 < 7.7508] w=0.1596 to align # Constraint # added constraint: constraint((T0334)A255.CB, (T0334)Y298.CB) [> 3.8755 = 6.4592 < 8.3970] w=0.1596 to align # Constraint # added constraint: constraint((T0334)I286.CB, (T0334)Y296.CB) [> 4.1822 = 6.9703 < 9.0614] w=0.1596 to align # Constraint # added constraint: constraint((T0334)H192.CB, (T0334)T213.CB) [> 4.2931 = 7.1552 < 9.3018] w=0.1578 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)E49.CB) [> 2.9172 = 4.8619 < 6.3205] w=0.1560 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)I235.CB) [> 4.1343 = 6.8905 < 8.9577] w=0.1547 to align # Constraint # added constraint: constraint((T0334)T51.CB, (T0334)A173.CB) [> 3.5997 = 5.9994 < 7.7993] w=0.1545 to align # Constraint # added constraint: constraint((T0334)T258.CB, (T0334)F292.CB) [> 3.7418 = 6.2363 < 8.1072] w=0.1538 to align # Constraint # added constraint: constraint((T0334)L63.CB, (T0334)F183.CB) [> 4.0758 = 6.7929 < 8.8308] w=0.1538 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)F388.CB) [> 3.6540 = 6.0900 < 7.9170] w=0.1538 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)V200.CB) [> 4.6175 = 7.6958 < 10.0045] w=0.1538 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)I328.CB) [> 3.8268 = 6.3780 < 8.2915] w=0.1538 to align # Constraint # added constraint: constraint((T0334)L234.CB, (T0334)C343.CB) [> 3.8588 = 6.4313 < 8.3607] w=0.1538 to align # Constraint # added constraint: constraint((T0334)F224.CB, (T0334)L234.CB) [> 4.2449 = 7.0748 < 9.1973] w=0.1538 to align # Constraint # added constraint: constraint((T0334)L55.CB, (T0334)Y365.CB) [> 3.1018 = 5.1696 < 6.7205] w=0.1538 to align # Constraint # added constraint: constraint((T0334)R202.CB, (T0334)N342.CB) [> 3.7111 = 6.1851 < 8.0407] w=0.1538 to align # Constraint # added constraint: constraint((T0334)A58.CB, (T0334)Y365.CB) [> 3.6188 = 6.0314 < 7.8408] w=0.1538 to align # Constraint # added constraint: constraint((T0334)K285.CB, (T0334)W316.CB) [> 4.1038 = 6.8397 < 8.8916] w=0.1538 to align # Constraint # added constraint: constraint((T0334)I52.CB, (T0334)Y362.CB) [> 2.8667 = 4.7778 < 6.2112] w=0.1538 to align # Constraint # added constraint: constraint((T0334)I65.CB, (T0334)F179.CB) [> 3.4897 = 5.8162 < 7.5611] w=0.1538 to align # Constraint # added constraint: constraint((T0334)G333.CA, (T0334)C351.CB) [> 3.4403 = 5.7338 < 7.4540] w=0.1538 to align # Constraint # added constraint: constraint((T0334)G333.CA, (T0334)V353.CB) [> 4.4749 = 7.4581 < 9.6955] w=0.1538 to align # Constraint # added constraint: constraint((T0334)R334.CB, (T0334)F396.CB) [> 3.4841 = 5.8069 < 7.5490] w=0.1538 to align # Constraint # added constraint: constraint((T0334)W339.CB, (T0334)T385.CB) [> 4.0317 = 6.7195 < 8.7354] w=0.1538 to align # Constraint # added constraint: constraint((T0334)V353.CB, (T0334)T399.CB) [> 3.3910 = 5.6517 < 7.3472] w=0.1538 to align # Constraint # added constraint: constraint((T0334)T359.CB, (T0334)T399.CB) [> 2.9971 = 4.9951 < 6.4936] w=0.1538 to align # Constraint # added constraint: constraint((T0334)D253.CB, (T0334)R329.CB) [> 3.5552 = 5.9253 < 7.7028] w=0.1538 to align # Constraint # added constraint: constraint((T0334)G347.CA, (T0334)T359.CB) [> 4.4436 = 7.4061 < 9.6279] w=0.1538 to align # Constraint # added constraint: constraint((T0334)M246.CB, (T0334)G333.CA) [> 4.1219 = 6.8698 < 8.9308] w=0.1535 to align # Constraint # added constraint: constraint((T0334)E241.CB, (T0334)L250.CB) [> 3.6211 = 6.0352 < 7.8458] w=0.1531 to align # Constraint # added constraint: constraint((T0334)F230.CB, (T0334)R334.CB) [> 2.9622 = 4.9370 < 6.4181] w=0.1483 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)E49.CB) [> 3.6126 = 6.0209 < 7.8272] w=0.1482 to align # Constraint # added constraint: constraint((T0334)F230.CB, (T0334)R336.CB) [> 3.0504 = 5.0839 < 6.6091] w=0.1481 to align # Constraint # added constraint: constraint((T0334)L356.CB, (T0334)H406.CB) [> 3.0963 = 5.1604 < 6.7086] w=0.1478 to align # Constraint # added constraint: constraint((T0334)I346.CB, (T0334)G360.CA) [> 4.2963 = 7.1605 < 9.3086] w=0.1478 to align # Constraint # added constraint: constraint((T0334)V260.CB, (T0334)R291.CB) [> 3.9867 = 6.6446 < 8.6379] w=0.1478 to align # Constraint # added constraint: constraint((T0334)D253.CB, (T0334)V297.CB) [> 3.7644 = 6.2740 < 8.1561] w=0.1478 to align # Constraint # added constraint: constraint((T0334)G46.CA, (T0334)D172.CB) [> 3.6190 = 6.0316 < 7.8411] w=0.1478 to align # Constraint # added constraint: constraint((T0334)L234.CB, (T0334)S349.CB) [> 3.4894 = 5.8156 < 7.5603] w=0.1478 to align # Constraint # added constraint: constraint((T0334)T51.CB, (T0334)H170.CB) [> 4.3481 = 7.2469 < 9.4210] w=0.1478 to align # Constraint # added constraint: constraint((T0334)I328.CB, (T0334)P355.CB) [> 4.0792 = 6.7986 < 8.8382] w=0.1478 to align # Constraint # added constraint: constraint((T0334)A338.CB, (T0334)F388.CB) [> 3.8203 = 6.3672 < 8.2774] w=0.1478 to align # Constraint # added constraint: constraint((T0334)A338.CB, (T0334)N389.CB) [> 2.9976 = 4.9961 < 6.4949] w=0.1478 to align # Constraint # added constraint: constraint((T0334)V332.CB, (T0334)V353.CB) [> 3.7806 = 6.3010 < 8.1912] w=0.1478 to align # Constraint # added constraint: constraint((T0334)L244.CB, (T0334)R336.CB) [> 4.0125 = 6.6875 < 8.6938] w=0.1477 to align # Constraint # added constraint: constraint((T0334)E240.CB, (T0334)V340.CB) [> 4.2142 = 7.0236 < 9.1307] w=0.1429 to align # Constraint # added constraint: constraint((T0334)G13.CA, (T0334)L45.CB) [> 3.6426 = 6.0711 < 7.8924] w=0.1427 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)T294.CB) [> 3.7297 = 6.2162 < 8.0811] w=0.1419 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)E357.CB) [> 2.9691 = 4.9485 < 6.4330] w=0.1419 to align # Constraint # added constraint: constraint((T0334)G281.CA, (T0334)Y296.CB) [> 4.0257 = 6.7095 < 8.7223] w=0.1419 to align # Constraint # added constraint: constraint((T0334)E357.CB, (T0334)F402.CB) [> 3.3814 = 5.6357 < 7.3264] w=0.1419 to align # Constraint # added constraint: constraint((T0334)L356.CB, (T0334)I403.CB) [> 3.2525 = 5.4208 < 7.0471] w=0.1419 to align # Constraint # added constraint: constraint((T0334)E354.CB, (T0334)I403.CB) [> 3.1419 = 5.2365 < 6.8074] w=0.1419 to align # Constraint # added constraint: constraint((T0334)Q259.CB, (T0334)T294.CB) [> 4.0028 = 6.6714 < 8.6728] w=0.1419 to align # Constraint # added constraint: constraint((T0334)T51.CB, (T0334)Y362.CB) [> 4.0766 = 6.7944 < 8.8327] w=0.1419 to align # Constraint # added constraint: constraint((T0334)R334.CB, (T0334)F352.CB) [> 4.6052 = 7.6753 < 9.9779] w=0.1419 to align # Constraint # added constraint: constraint((T0334)D203.CB, (T0334)N342.CB) [> 3.9722 = 6.6203 < 8.6064] w=0.1419 to align # Constraint # added constraint: constraint((T0334)R337.CB, (T0334)N389.CB) [> 3.2036 = 5.3394 < 6.9412] w=0.1419 to align # Constraint # added constraint: constraint((T0334)V332.CB, (T0334)F352.CB) [> 3.8011 = 6.3352 < 8.2357] w=0.1419 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)R331.CB) [> 3.9024 = 6.5039 < 8.4551] w=0.1419 to align # Constraint # added constraint: constraint((T0334)Y23.CB, (T0334)Q370.CB) [> 4.6024 = 7.6707 < 9.9719] w=0.1406 to align # Constraint # added constraint: constraint((T0334)F352.CB, (T0334)F363.CB) [> 3.7234 = 6.2057 < 8.0674] w=0.1403 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)L45.CB) [> 4.5016 = 7.5027 < 9.7535] w=0.1395 to align # Constraint # added constraint: constraint((T0334)I10.CB, (T0334)D226.CB) [> 4.6871 = 7.8118 < 10.1553] w=0.1394 to align # Constraint # added constraint: constraint((T0334)E49.CB, (T0334)F171.CB) [> 4.1731 = 6.9551 < 9.0417] w=0.1364 to align # Constraint # added constraint: constraint((T0334)M246.CB, (T0334)R334.CB) [> 3.5760 = 5.9600 < 7.7480] w=0.1364 to align # Constraint # added constraint: constraint((T0334)S130.CB, (T0334)F139.CB) [> 3.8158 = 6.3596 < 8.2675] w=0.1363 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)Y362.CB) [> 3.9890 = 6.6484 < 8.6429] w=0.1360 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)G293.CA) [> 4.0086 = 6.6810 < 8.6853] w=0.1360 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)S300.CB) [> 3.8946 = 6.4910 < 8.4383] w=0.1360 to align # Constraint # added constraint: constraint((T0334)T258.CB, (T0334)T322.CB) [> 3.4954 = 5.8257 < 7.5735] w=0.1360 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)V332.CB) [> 4.0783 = 6.7972 < 8.8364] w=0.1360 to align # Constraint # added constraint: constraint((T0334)R331.CB, (T0334)F352.CB) [> 3.3695 = 5.6158 < 7.3005] w=0.1360 to align # Constraint # added constraint: constraint((T0334)F243.CB, (T0334)V340.CB) [> 3.8195 = 6.3658 < 8.2755] w=0.1360 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)S299.CB) [> 3.8134 = 6.3557 < 8.2624] w=0.1359 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)Y298.CB) [> 3.9922 = 6.6536 < 8.6497] w=0.1359 to align # Constraint # added constraint: constraint((T0334)V260.CB, (T0334)T294.CB) [> 3.9740 = 6.6234 < 8.6103] w=0.1359 to align # Constraint # added constraint: constraint((T0334)G232.CA, (T0334)T348.CB) [> 4.3046 = 7.1743 < 9.3265] w=0.1336 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)I52.CB) [> 3.9700 = 6.6167 < 8.6017] w=0.1331 to align # Constraint # added constraint: constraint((T0334)V193.CB, (T0334)R217.CB) [> 4.4359 = 7.3932 < 9.6111] w=0.1312 to align # Constraint # added constraint: constraint((T0334)F312.CB, (T0334)L325.CB) [> 3.9029 = 6.5048 < 8.4562] w=0.1306 to align # Constraint # added constraint: constraint((T0334)V297.CB, (T0334)E311.CB) [> 3.8551 = 6.4252 < 8.3528] w=0.1306 to align # Constraint # added constraint: constraint((T0334)T31.CB, (T0334)V372.CB) [> 4.4298 = 7.3830 < 9.5979] w=0.1305 to align # Constraint # added constraint: constraint((T0334)V260.CB, (T0334)L325.CB) [> 3.4625 = 5.7708 < 7.5020] w=0.1301 to align # Constraint # added constraint: constraint((T0334)Q259.CB, (T0334)I328.CB) [> 3.7119 = 6.1865 < 8.0425] w=0.1301 to align # Constraint # added constraint: constraint((T0334)A58.CB, (T0334)Y369.CB) [> 3.3951 = 5.6586 < 7.3561] w=0.1301 to align # Constraint # added constraint: constraint((T0334)T51.CB, (T0334)W169.CB) [> 3.0275 = 5.0458 < 6.5595] w=0.1301 to align # Constraint # added constraint: constraint((T0334)I65.CB, (T0334)F183.CB) [> 3.1620 = 5.2699 < 6.8509] w=0.1301 to align # Constraint # added constraint: constraint((T0334)E357.CB, (T0334)I403.CB) [> 3.2146 = 5.3577 < 6.9650] w=0.1301 to align # Constraint # added constraint: constraint((T0334)T258.CB, (T0334)I328.CB) [> 3.5286 = 5.8810 < 7.6453] w=0.1301 to align # Constraint # added constraint: constraint((T0334)E357.CB, (T0334)T399.CB) [> 3.7293 = 6.2154 < 8.0801] w=0.1301 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)R329.CB) [> 4.4460 = 7.4100 < 9.6330] w=0.1301 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)I286.CB) [> 3.6892 = 6.1486 < 7.9932] w=0.1277 to align # Constraint # added constraint: constraint((T0334)V197.CB, (T0334)D226.CB) [> 4.6232 = 7.7054 < 10.0170] w=0.1253 to align # Constraint # added constraint: constraint((T0334)I10.CB, (T0334)V372.CB) [> 4.2597 = 7.0994 < 9.2292] w=0.1253 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)G333.CA) [> 3.7638 = 6.2730 < 8.1549] w=0.1249 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)G48.CA) [> 4.3733 = 7.2888 < 9.4755] w=0.1246 to align # Constraint # added constraint: constraint((T0334)E49.CB, (T0334)I361.CB) [> 4.1663 = 6.9438 < 9.0269] w=0.1246 to align # Constraint # added constraint: constraint((T0334)I52.CB, (T0334)A173.CB) [> 2.6756 = 4.4594 < 5.7972] w=0.1246 to align # Constraint # added constraint: constraint((T0334)A50.CB, (T0334)I361.CB) [> 3.6121 = 6.0202 < 7.8263] w=0.1246 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)R334.CB) [> 3.6921 = 6.1535 < 7.9995] w=0.1246 to align # Constraint # added constraint: constraint((T0334)I346.CB, (T0334)A366.CB) [> 4.4901 = 7.4836 < 9.7286] w=0.1242 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)F330.CB) [> 3.5127 = 5.8545 < 7.6108] w=0.1242 to align # Constraint # added constraint: constraint((T0334)I235.CB, (T0334)S345.CB) [> 3.4278 = 5.7130 < 7.4269] w=0.1242 to align # Constraint # added constraint: constraint((T0334)E49.CB, (T0334)I286.CB) [> 3.8438 = 6.4063 < 8.3281] w=0.1242 to align # Constraint # added constraint: constraint((T0334)G48.CA, (T0334)I361.CB) [> 3.8203 = 6.3671 < 8.2772] w=0.1242 to align # Constraint # added constraint: constraint((T0334)G48.CA, (T0334)S358.CB) [> 4.2615 = 7.1025 < 9.2332] w=0.1242 to align # Constraint # added constraint: constraint((T0334)L244.CB, (T0334)N335.CB) [> 3.8187 = 6.3645 < 8.2739] w=0.1242 to align # Constraint # added constraint: constraint((T0334)T51.CB, (T0334)A168.CB) [> 3.6378 = 6.0630 < 7.8819] w=0.1242 to align # Constraint # added constraint: constraint((T0334)I52.CB, (T0334)A168.CB) [> 3.6225 = 6.0374 < 7.8486] w=0.1242 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)F330.CB) [> 3.0725 = 5.1209 < 6.6571] w=0.1242 to align # Constraint # added constraint: constraint((T0334)L244.CB, (T0334)V340.CB) [> 3.4948 = 5.8247 < 7.5721] w=0.1242 to align # Constraint # added constraint: constraint((T0334)N236.CB, (T0334)S345.CB) [> 4.0769 = 6.7948 < 8.8332] w=0.1241 to align # Constraint # added constraint: constraint((T0334)Q38.CB, (T0334)V47.CB) [> 3.5691 = 5.9485 < 7.7331] w=0.1231 to align # Constraint # added constraint: constraint((T0334)T294.CB, (T0334)W316.CB) [> 3.7594 = 6.2657 < 8.1455] w=0.1226 to align # Constraint # added constraint: constraint((T0334)E241.CB, (T0334)V340.CB) [> 3.5745 = 5.9574 < 7.7447] w=0.1192 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)G333.CA) [> 3.1419 = 5.2365 < 6.8075] w=0.1190 to align # Constraint # added constraint: constraint((T0334)I52.CB, (T0334)D172.CB) [> 3.6159 = 6.0266 < 7.8345] w=0.1190 to align # Constraint # added constraint: constraint((T0334)W126.CB, (T0334)V176.CB) [> 4.0554 = 6.7589 < 8.7866] w=0.1187 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)Y298.CB) [> 3.7698 = 6.2830 < 8.1679] w=0.1183 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)S299.CB) [> 3.7453 = 6.2422 < 8.1149] w=0.1183 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)V332.CB) [> 3.4832 = 5.8053 < 7.5469] w=0.1183 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)I328.CB) [> 4.2819 = 7.1365 < 9.2775] w=0.1183 to align # Constraint # added constraint: constraint((T0334)P53.CB, (T0334)N166.CB) [> 3.4977 = 5.8295 < 7.5783] w=0.1183 to align # Constraint # added constraint: constraint((T0334)L356.CB, (T0334)F407.CB) [> 3.3126 = 5.5210 < 7.1774] w=0.1183 to align # Constraint # added constraint: constraint((T0334)P53.CB, (T0334)Y167.CB) [> 3.9618 = 6.6031 < 8.5840] w=0.1183 to align # Constraint # added constraint: constraint((T0334)F363.CB, (T0334)T399.CB) [> 3.5327 = 5.8879 < 7.6543] w=0.1183 to align # Constraint # added constraint: constraint((T0334)P53.CB, (T0334)A168.CB) [> 4.1482 = 6.9137 < 8.9878] w=0.1183 to align # Constraint # added constraint: constraint((T0334)A168.CB, (T0334)S358.CB) [> 4.2205 = 7.0341 < 9.1443] w=0.1183 to align # Constraint # added constraint: constraint((T0334)R331.CB, (T0334)E354.CB) [> 4.1198 = 6.8663 < 8.9262] w=0.1183 to align # Constraint # added constraint: constraint((T0334)V332.CB, (T0334)R400.CB) [> 3.5191 = 5.8651 < 7.6246] w=0.1183 to align # Constraint # added constraint: constraint((T0334)T258.CB, (T0334)Y296.CB) [> 4.1159 = 6.8599 < 8.9178] w=0.1182 to align # Constraint # added constraint: constraint((T0334)E198.CB, (T0334)S210.CB) [> 3.3226 = 5.5377 < 7.1991] w=0.1181 to align # Constraint # added constraint: constraint((T0334)G232.CA, (T0334)V269.CB) [> 3.3596 = 5.5994 < 7.2792] w=0.1171 to align # Constraint # added constraint: constraint((T0334)I120.CB, (T0334)V148.CB) [> 3.1922 = 5.3203 < 6.9163] w=0.1166 to align # Constraint # added constraint: constraint((T0334)I5.CB, (T0334)A32.CB) [> 3.6084 = 6.0140 < 7.8182] w=0.1158 to align # Constraint # added constraint: constraint((T0334)D33.CB, (T0334)V190.CB) [> 4.5729 = 7.6215 < 9.9080] w=0.1142 to align # Constraint # added constraint: constraint((T0334)R157.CB, (T0334)D172.CB) [> 3.0537 = 5.0895 < 6.6163] w=0.1141 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)G333.CA) [> 3.1479 = 5.2465 < 6.8205] w=0.1131 to align # Constraint # added constraint: constraint((T0334)A338.CB, (T0334)C351.CB) [> 4.4422 = 7.4037 < 9.6248] w=0.1127 to align # Constraint # added constraint: constraint((T0334)I52.CB, (T0334)I361.CB) [> 3.7480 = 6.2466 < 8.1206] w=0.1127 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)A338.CB) [> 3.3952 = 5.6587 < 7.3563] w=0.1124 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)S300.CB) [> 3.7335 = 6.2225 < 8.0892] w=0.1124 to align # Constraint # added constraint: constraint((T0334)A50.CB, (T0334)S358.CB) [> 2.4602 = 4.1004 < 5.3305] w=0.1124 to align # Constraint # added constraint: constraint((T0334)W18.CB, (T0334)V176.CB) [> 3.8634 = 6.4390 < 8.3707] w=0.1124 to align # Constraint # added constraint: constraint((T0334)A50.CB, (T0334)H170.CB) [> 3.3324 = 5.5540 < 7.2202] w=0.1124 to align # Constraint # added constraint: constraint((T0334)D226.CB, (T0334)G347.CA) [> 3.7910 = 6.3183 < 8.2138] w=0.1124 to align # Constraint # added constraint: constraint((T0334)A50.CB, (T0334)A168.CB) [> 3.6624 = 6.1040 < 7.9352] w=0.1124 to align # Constraint # added constraint: constraint((T0334)W339.CB, (T0334)F388.CB) [> 3.4218 = 5.7030 < 7.4139] w=0.1124 to align # Constraint # added constraint: constraint((T0334)F363.CB, (T0334)F396.CB) [> 3.8062 = 6.3436 < 8.2467] w=0.1124 to align # Constraint # added constraint: constraint((T0334)Q370.CB, (T0334)I392.CB) [> 3.4866 = 5.8111 < 7.5544] w=0.1124 to align # Constraint # added constraint: constraint((T0334)V353.CB, (T0334)I403.CB) [> 2.8421 = 4.7368 < 6.1579] w=0.1124 to align # Constraint # added constraint: constraint((T0334)F330.CB, (T0334)P355.CB) [> 4.1702 = 6.9503 < 9.0354] w=0.1124 to align # Constraint # added constraint: constraint((T0334)V197.CB, (T0334)I235.CB) [> 4.1686 = 6.9476 < 9.0319] w=0.1123 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)G232.CA) [> 4.4287 = 7.3812 < 9.5955] w=0.1123 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)S299.CB) [> 3.9092 = 6.5153 < 8.4698] w=0.1107 to align # Constraint # added constraint: constraint((T0334)S123.CB, (T0334)F224.CB) [> 4.0062 = 6.6769 < 8.6800] w=0.1107 to align # Constraint # added constraint: constraint((T0334)S123.CB, (T0334)V225.CB) [> 4.0940 = 6.8234 < 8.8704] w=0.1107 to align # Constraint # added constraint: constraint((T0334)S123.CB, (T0334)D226.CB) [> 3.1197 = 5.1996 < 6.7594] w=0.1107 to align # Constraint # added constraint: constraint((T0334)G13.CA, (T0334)G46.CA) [> 3.7752 = 6.2919 < 8.1795] w=0.1103 to align # Constraint # added constraint: constraint((T0334)L234.CB, (T0334)F243.CB) [> 3.7136 = 6.1893 < 8.0461] w=0.1103 to align # Constraint # added constraint: constraint((T0334)L28.CB, (T0334)V372.CB) [> 3.8689 = 6.4482 < 8.3827] w=0.1099 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)T51.CB) [> 3.7445 = 6.2409 < 8.1131] w=0.1091 to align # Constraint # added constraint: constraint((T0334)P40.CB, (T0334)E49.CB) [> 3.6342 = 6.0570 < 7.8741] w=0.1083 to align # Constraint # added constraint: constraint((T0334)G13.CA, (T0334)G48.CA) [> 3.6875 = 6.1458 < 7.9895] w=0.1083 to align # Constraint # added constraint: constraint((T0334)V148.CB, (T0334)V190.CB) [> 2.9984 = 4.9973 < 6.4964] w=0.1082 to align # Constraint # added constraint: constraint((T0334)I149.CB, (T0334)V193.CB) [> 3.8389 = 6.3982 < 8.3177] w=0.1082 to align # Constraint # added constraint: constraint((T0334)D151.CB, (T0334)V193.CB) [> 3.0023 = 5.0038 < 6.5049] w=0.1082 to align # Constraint # added constraint: constraint((T0334)D151.CB, (T0334)T213.CB) [> 3.9248 = 6.5413 < 8.5036] w=0.1082 to align # Constraint # added constraint: constraint((T0334)A152.CB, (T0334)D195.CB) [> 4.1652 = 6.9421 < 9.0247] w=0.1082 to align # Constraint # added constraint: constraint((T0334)N153.CB, (T0334)D195.CB) [> 4.2717 = 7.1196 < 9.2554] w=0.1082 to align # Constraint # added constraint: constraint((T0334)I34.CB, (T0334)V372.CB) [> 4.5931 = 7.6551 < 9.9516] w=0.1076 to align # Constraint # added constraint: constraint((T0334)V47.CB, (T0334)V176.CB) [> 4.2127 = 7.0212 < 9.1276] w=0.1068 to align # Constraint # added constraint: constraint((T0334)F59.CB, (T0334)I361.CB) [> 3.5796 = 5.9660 < 7.7558] w=0.1068 to align # Constraint # added constraint: constraint((T0334)I52.CB, (T0334)E357.CB) [> 3.8977 = 6.4961 < 8.4449] w=0.1068 to align # Constraint # added constraint: constraint((T0334)W126.CB, (T0334)F179.CB) [> 3.7682 = 6.2804 < 8.1645] w=0.1068 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)R331.CB) [> 4.1011 = 6.8351 < 8.8857] w=0.1065 to align # Constraint # added constraint: constraint((T0334)A50.CB, (T0334)I286.CB) [> 4.0654 = 6.7756 < 8.8083] w=0.1065 to align # Constraint # added constraint: constraint((T0334)G48.CA, (T0334)D172.CB) [> 3.8425 = 6.4042 < 8.3254] w=0.1064 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)F330.CB) [> 3.5928 = 5.9881 < 7.7845] w=0.1064 to align # Constraint # added constraint: constraint((T0334)A27.CB, (T0334)V372.CB) [> 2.9211 = 4.8685 < 6.3291] w=0.1064 to align # Constraint # added constraint: constraint((T0334)H262.CB, (T0334)G290.CA) [> 3.9766 = 6.6276 < 8.6159] w=0.1064 to align # Constraint # added constraint: constraint((T0334)A50.CB, (T0334)W169.CB) [> 4.2772 = 7.1287 < 9.2674] w=0.1064 to align # Constraint # added constraint: constraint((T0334)D265.CB, (T0334)F292.CB) [> 3.8867 = 6.4778 < 8.4211] w=0.1064 to align # Constraint # added constraint: constraint((T0334)E49.CB, (T0334)H170.CB) [> 3.4465 = 5.7442 < 7.4675] w=0.1064 to align # Constraint # added constraint: constraint((T0334)Q56.CB, (T0334)W169.CB) [> 3.4004 = 5.6673 < 7.3674] w=0.1064 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)E354.CB) [> 3.9085 = 6.5142 < 8.4684] w=0.1064 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)R329.CB) [> 3.4670 = 5.7783 < 7.5118] w=0.1064 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)A58.CB) [> 4.1177 = 6.8629 < 8.9218] w=0.1064 to align # Constraint # added constraint: constraint((T0334)V269.CB, (T0334)P287.CB) [> 3.6498 = 6.0830 < 7.9080] w=0.1064 to align # Constraint # added constraint: constraint((T0334)A39.CB, (T0334)S228.CB) [> 4.6477 = 7.7462 < 10.0700] w=0.1064 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)V309.CB) [> 3.7611 = 6.2685 < 8.1490] w=0.1064 to align # Constraint # added constraint: constraint((T0334)V197.CB, (T0334)S210.CB) [> 3.9785 = 6.6309 < 8.6202] w=0.1063 to align # Constraint # added constraint: constraint((T0334)W284.CB, (T0334)G293.CA) [> 4.4864 = 7.4774 < 9.7206] w=0.1048 to align # Constraint # added constraint: constraint((T0334)I120.CB, (T0334)P147.CB) [> 4.2785 = 7.1308 < 9.2701] w=0.1047 to align # Constraint # added constraint: constraint((T0334)I120.CB, (T0334)L223.CB) [> 2.9768 = 4.9614 < 6.4498] w=0.1047 to align # Constraint # added constraint: constraint((T0334)H124.CB, (T0334)D226.CB) [> 4.1529 = 6.9214 < 8.9979] w=0.1047 to align # Constraint # added constraint: constraint((T0334)P121.CB, (T0334)I149.CB) [> 2.8499 = 4.7499 < 6.1749] w=0.1047 to align # Constraint # added constraint: constraint((T0334)I120.CB, (T0334)F224.CB) [> 4.4617 = 7.4362 < 9.6670] w=0.1047 to align # Constraint # added constraint: constraint((T0334)L122.CB, (T0334)V225.CB) [> 3.0189 = 5.0315 < 6.5409] w=0.1047 to align # Constraint # added constraint: constraint((T0334)G133.CA, (T0334)L150.CB) [> 3.8526 = 6.4209 < 8.3472] w=0.1047 to align # Constraint # added constraint: constraint((T0334)F107.CB, (T0334)V200.CB) [> 3.8038 = 6.3396 < 8.2415] w=0.1047 to align # Constraint # added constraint: constraint((T0334)T348.CB, (T0334)T359.CB) [> 3.6791 = 6.1318 < 7.9714] w=0.1040 to align # Constraint # added constraint: constraint((T0334)L233.CB, (T0334)F243.CB) [> 3.7003 = 6.1672 < 8.0173] w=0.1039 to align # Constraint # added constraint: constraint((T0334)I149.CB, (T0334)F219.CB) [> 3.6679 = 6.1132 < 7.9471] w=0.1023 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)G333.CA) [> 3.6956 = 6.1593 < 8.0071] w=0.1013 to align # Constraint # added constraint: constraint((T0334)F84.CB, (T0334)A366.CB) [> 2.9295 = 4.8825 < 6.3473] w=0.1009 to align # Constraint # added constraint: constraint((T0334)S350.CB, (T0334)T359.CB) [> 3.3512 = 5.5854 < 7.2610] w=0.1009 to align # Constraint # added constraint: constraint((T0334)P156.CB, (T0334)N166.CB) [> 4.1196 = 6.8661 < 8.9259] w=0.1009 to align # Constraint # added constraint: constraint((T0334)E357.CB, (T0334)H406.CB) [> 3.3453 = 5.5755 < 7.2482] w=0.1005 to align # Constraint # added constraint: constraint((T0334)F107.CB, (T0334)S274.CB) [> 4.1464 = 6.9106 < 8.9838] w=0.1005 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)G295.CA) [> 3.8658 = 6.4429 < 8.3758] w=0.1005 to align # Constraint # added constraint: constraint((T0334)H262.CB, (T0334)F292.CB) [> 3.3044 = 5.5073 < 7.1595] w=0.1005 to align # Constraint # added constraint: constraint((T0334)I235.CB, (T0334)S349.CB) [> 3.2200 = 5.3667 < 6.9767] w=0.1005 to align # Constraint # added constraint: constraint((T0334)E270.CB, (T0334)K285.CB) [> 3.7627 = 6.2711 < 8.1525] w=0.1005 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)W316.CB) [> 4.5518 = 7.5863 < 9.8622] w=0.1005 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)R329.CB) [> 4.3604 = 7.2674 < 9.4476] w=0.1005 to align # Constraint # added constraint: constraint((T0334)T359.CB, (T0334)I403.CB) [> 3.4671 = 5.7784 < 7.5120] w=0.1005 to align # Constraint # added constraint: constraint((T0334)A39.CB, (T0334)E198.CB) [> 4.1299 = 6.8832 < 8.9482] w=0.1005 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)R331.CB) [> 3.3212 = 5.5353 < 7.1959] w=0.1005 to align # Constraint # added constraint: constraint((T0334)P271.CB, (T0334)K285.CB) [> 4.0062 = 6.6771 < 8.6802] w=0.1005 to align # Constraint # added constraint: constraint((T0334)A366.CB, (T0334)M395.CB) [> 3.4281 = 5.7136 < 7.4276] w=0.1005 to align # Constraint # added constraint: constraint((T0334)Y131.CB, (T0334)D140.CB) [> 3.8224 = 6.3707 < 8.2819] w=0.1004 to align # Constraint # added constraint: constraint((T0334)L63.CB, (T0334)V176.CB) [> 4.2129 = 7.0215 < 9.1279] w=0.1003 to align # Constraint # added constraint: constraint((T0334)L159.CB, (T0334)D172.CB) [> 3.5692 = 5.9487 < 7.7333] w=0.0988 to align # Constraint # added constraint: constraint((T0334)H124.CB, (T0334)G229.CA) [> 4.0527 = 6.7546 < 8.7809] w=0.0988 to align # Constraint # added constraint: constraint((T0334)Q119.CB, (T0334)P147.CB) [> 2.9401 = 4.9002 < 6.3703] w=0.0988 to align # Constraint # added constraint: constraint((T0334)Q119.CB, (T0334)D222.CB) [> 3.3203 = 5.5338 < 7.1940] w=0.0988 to align # Constraint # added constraint: constraint((T0334)I120.CB, (T0334)I149.CB) [> 4.3614 = 7.2690 < 9.4497] w=0.0988 to align # Constraint # added constraint: constraint((T0334)P121.CB, (T0334)V211.CB) [> 3.3242 = 5.5403 < 7.2024] w=0.0988 to align # Constraint # added constraint: constraint((T0334)P121.CB, (T0334)L223.CB) [> 4.3241 = 7.2069 < 9.3690] w=0.0988 to align # Constraint # added constraint: constraint((T0334)L122.CB, (T0334)R132.CB) [> 3.6243 = 6.0406 < 7.8527] w=0.0988 to align # Constraint # added constraint: constraint((T0334)L122.CB, (T0334)V148.CB) [> 3.9003 = 6.5004 < 8.4506] w=0.0988 to align # Constraint # added constraint: constraint((T0334)S130.CB, (T0334)L150.CB) [> 4.3325 = 7.2208 < 9.3870] w=0.0988 to align # Constraint # added constraint: constraint((T0334)R129.CB, (T0334)C227.CB) [> 2.4257 = 4.0428 < 5.2556] w=0.0988 to align # Constraint # added constraint: constraint((T0334)A97.CB, (T0334)D226.CB) [> 3.7662 = 6.2770 < 8.1601] w=0.0988 to align # Constraint # added constraint: constraint((T0334)F139.CB, (T0334)V190.CB) [> 4.2539 = 7.0898 < 9.2167] w=0.0988 to align # Constraint # added constraint: constraint((T0334)G133.CA, (T0334)V190.CB) [> 3.8833 = 6.4722 < 8.4138] w=0.0988 to align # Constraint # added constraint: constraint((T0334)R129.CB, (T0334)L150.CB) [> 3.7697 = 6.2829 < 8.1677] w=0.0988 to align # Constraint # added constraint: constraint((T0334)W18.CB, (T0334)V47.CB) [> 4.0234 = 6.7056 < 8.7173] w=0.0981 to align # Constraint # added constraint: constraint((T0334)E198.CB, (T0334)G216.CA) [> 4.5842 = 7.6404 < 9.9325] w=0.0957 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)S350.CB) [> 3.6295 = 6.0491 < 7.8639] w=0.0957 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)R334.CB) [> 2.8555 = 4.7592 < 6.1869] w=0.0950 to align # Constraint # added constraint: constraint((T0334)I5.CB, (T0334)V218.CB) [> 4.0964 = 6.8274 < 8.8756] w=0.0950 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)S358.CB) [> 3.6325 = 6.0542 < 7.8704] w=0.0946 to align # Constraint # added constraint: constraint((T0334)E354.CB, (T0334)H406.CB) [> 4.5875 = 7.6459 < 9.9396] w=0.0946 to align # Constraint # added constraint: constraint((T0334)L223.CB, (T0334)G341.CA) [> 4.7629 = 7.9381 < 10.3196] w=0.0946 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)R329.CB) [> 4.1208 = 6.8680 < 8.9284] w=0.0946 to align # Constraint # added constraint: constraint((T0334)I235.CB, (T0334)S350.CB) [> 4.2983 = 7.1638 < 9.3130] w=0.0946 to align # Constraint # added constraint: constraint((T0334)M71.CB, (T0334)F179.CB) [> 3.9749 = 6.6249 < 8.6123] w=0.0946 to align # Constraint # added constraint: constraint((T0334)M278.CB, (T0334)W316.CB) [> 4.6467 = 7.7445 < 10.0679] w=0.0946 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)S410.CB) [> 3.3350 = 5.5584 < 7.2259] w=0.0946 to align # Constraint # added constraint: constraint((T0334)S350.CB, (T0334)F396.CB) [> 4.2852 = 7.1420 < 9.2846] w=0.0946 to align # Constraint # added constraint: constraint((T0334)C351.CB, (T0334)R400.CB) [> 4.1738 = 6.9563 < 9.0432] w=0.0946 to align # Constraint # added constraint: constraint((T0334)E198.CB, (T0334)S228.CB) [> 4.6429 = 7.7382 < 10.0596] w=0.0946 to align # Constraint # added constraint: constraint((T0334)L37.CB, (T0334)E198.CB) [> 3.4935 = 5.8225 < 7.5692] w=0.0946 to align # Constraint # added constraint: constraint((T0334)D195.CB, (T0334)R212.CB) [> 3.8310 = 6.3849 < 8.3004] w=0.0945 to align # Constraint # added constraint: constraint((T0334)L63.CB, (T0334)S358.CB) [> 3.9120 = 6.5200 < 8.4761] w=0.0944 to align # Constraint # added constraint: constraint((T0334)L63.CB, (T0334)D172.CB) [> 3.3506 = 5.5843 < 7.2596] w=0.0944 to align # Constraint # added constraint: constraint((T0334)S300.CB, (T0334)L325.CB) [> 3.5272 = 5.8787 < 7.6423] w=0.0930 to align # Constraint # added constraint: constraint((T0334)Y125.CB, (T0334)P156.CB) [> 3.0143 = 5.0238 < 6.5310] w=0.0929 to align # Constraint # added constraint: constraint((T0334)Y125.CB, (T0334)R157.CB) [> 3.8870 = 6.4784 < 8.4219] w=0.0929 to align # Constraint # added constraint: constraint((T0334)Y108.CB, (T0334)F224.CB) [> 4.1372 = 6.8954 < 8.9640] w=0.0929 to align # Constraint # added constraint: constraint((T0334)L122.CB, (T0334)C227.CB) [> 3.6471 = 6.0785 < 7.9021] w=0.0929 to align # Constraint # added constraint: constraint((T0334)H124.CB, (T0334)C227.CB) [> 2.5296 = 4.2160 < 5.4809] w=0.0929 to align # Constraint # added constraint: constraint((T0334)Y108.CB, (T0334)V225.CB) [> 3.1474 = 5.2457 < 6.8194] w=0.0929 to align # Constraint # added constraint: constraint((T0334)Y108.CB, (T0334)D226.CB) [> 4.2447 = 7.0744 < 9.1967] w=0.0929 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)C351.CB) [> 2.8019 = 4.6698 < 6.0707] w=0.0898 to align # Constraint # added constraint: constraint((T0334)L113.CB, (T0334)L356.CB) [> 3.9526 = 6.5877 < 8.5641] w=0.0895 to align # Constraint # added constraint: constraint((T0334)P156.CB, (T0334)T165.CB) [> 3.3539 = 5.5898 < 7.2667] w=0.0891 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)A173.CB) [> 4.5880 = 7.6467 < 9.9406] w=0.0887 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)S350.CB) [> 4.1414 = 6.9024 < 8.9732] w=0.0887 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)F407.CB) [> 3.7995 = 6.3325 < 8.2322] w=0.0887 to align # Constraint # added constraint: constraint((T0334)F330.CB, (T0334)F407.CB) [> 3.6674 = 6.1123 < 7.9459] w=0.0887 to align # Constraint # added constraint: constraint((T0334)P261.CB, (T0334)R291.CB) [> 3.5388 = 5.8980 < 7.6675] w=0.0887 to align # Constraint # added constraint: constraint((T0334)V309.CB, (T0334)R327.CB) [> 3.9042 = 6.5070 < 8.4591] w=0.0887 to align # Constraint # added constraint: constraint((T0334)Q259.CB, (T0334)T322.CB) [> 3.8712 = 6.4520 < 8.3876] w=0.0887 to align # Constraint # added constraint: constraint((T0334)I235.CB, (T0334)N335.CB) [> 3.8609 = 6.4349 < 8.3654] w=0.0887 to align # Constraint # added constraint: constraint((T0334)K83.CB, (T0334)S274.CB) [> 3.4378 = 5.7297 < 7.4486] w=0.0887 to align # Constraint # added constraint: constraint((T0334)F84.CB, (T0334)I276.CB) [> 3.9455 = 6.5759 < 8.5486] w=0.0887 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)R329.CB) [> 3.9883 = 6.6471 < 8.6412] w=0.0887 to align # Constraint # added constraint: constraint((T0334)G12.CA, (T0334)P40.CB) [> 4.6888 = 7.8147 < 10.1591] w=0.0887 to align # Constraint # added constraint: constraint((T0334)V332.CB, (T0334)I403.CB) [> 4.1498 = 6.9163 < 8.9912] w=0.0887 to align # Constraint # added constraint: constraint((T0334)F59.CB, (T0334)F179.CB) [> 4.5019 = 7.5031 < 9.7541] w=0.0887 to align # Constraint # added constraint: constraint((T0334)H199.CB, (T0334)T213.CB) [> 4.5403 = 7.5671 < 9.8372] w=0.0887 to align # Constraint # added constraint: constraint((T0334)L55.CB, (T0334)A366.CB) [> 4.1167 = 6.8612 < 8.9196] w=0.0887 to align # Constraint # added constraint: constraint((T0334)V260.CB, (T0334)N326.CB) [> 3.3645 = 5.6075 < 7.2898] w=0.0887 to align # Constraint # added constraint: constraint((T0334)T258.CB, (T0334)V309.CB) [> 4.1433 = 6.9056 < 8.9772] w=0.0886 to align # Constraint # added constraint: constraint((T0334)D195.CB, (T0334)V211.CB) [> 3.2494 = 5.4156 < 7.0403] w=0.0886 to align # Constraint # added constraint: constraint((T0334)A142.CB, (T0334)V190.CB) [> 3.2046 = 5.3410 < 6.9433] w=0.0886 to align # Constraint # added constraint: constraint((T0334)W126.CB, (T0334)G229.CA) [> 3.8371 = 6.3951 < 8.3137] w=0.0870 to align # Constraint # added constraint: constraint((T0334)S130.CB, (T0334)A184.CB) [> 4.2048 = 7.0080 < 9.1104] w=0.0870 to align # Constraint # added constraint: constraint((T0334)H124.CB, (T0334)S228.CB) [> 2.6719 = 4.4532 < 5.7891] w=0.0870 to align # Constraint # added constraint: constraint((T0334)W126.CB, (T0334)C227.CB) [> 3.7281 = 6.2136 < 8.0776] w=0.0870 to align # Constraint # added constraint: constraint((T0334)S130.CB, (T0334)P156.CB) [> 3.7819 = 6.3032 < 8.1941] w=0.0870 to align # Constraint # added constraint: constraint((T0334)F107.CB, (T0334)F224.CB) [> 2.8268 = 4.7113 < 6.1247] w=0.0870 to align # Constraint # added constraint: constraint((T0334)F107.CB, (T0334)D226.CB) [> 3.5938 = 5.9896 < 7.7865] w=0.0870 to align # Constraint # added constraint: constraint((T0334)Y108.CB, (T0334)L223.CB) [> 3.9493 = 6.5822 < 8.5569] w=0.0870 to align # Constraint # added constraint: constraint((T0334)H109.CB, (T0334)V225.CB) [> 4.3556 = 7.2594 < 9.4372] w=0.0870 to align # Constraint # added constraint: constraint((T0334)H109.CB, (T0334)D226.CB) [> 3.4502 = 5.7503 < 7.4755] w=0.0870 to align # Constraint # added constraint: constraint((T0334)R129.CB, (T0334)V225.CB) [> 4.3385 = 7.2309 < 9.4002] w=0.0870 to align # Constraint # added constraint: constraint((T0334)S110.CB, (T0334)D128.CB) [> 3.4266 = 5.7110 < 7.4243] w=0.0870 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)A366.CB) [> 4.5542 = 7.5904 < 9.8675] w=0.0863 to align # Constraint # added constraint: constraint((T0334)F139.CB, (T0334)L188.CB) [> 4.2439 = 7.0732 < 9.1951] w=0.0846 to align # Constraint # added constraint: constraint((T0334)V197.CB, (T0334)F224.CB) [> 4.6311 = 7.7185 < 10.0340] w=0.0843 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)S349.CB) [> 3.8684 = 6.4473 < 8.3815] w=0.0839 to align # Constraint # added constraint: constraint((T0334)N153.CB, (T0334)D172.CB) [> 3.9816 = 6.6359 < 8.6267] w=0.0835 to align # Constraint # added constraint: constraint((T0334)G48.CA, (T0334)V176.CB) [> 4.6059 = 7.6764 < 9.9793] w=0.0832 to align # Constraint # added constraint: constraint((T0334)V80.CB, (T0334)A366.CB) [> 3.2699 = 5.4498 < 7.0847] w=0.0832 to align # Constraint # added constraint: constraint((T0334)A81.CB, (T0334)Y362.CB) [> 3.5296 = 5.8827 < 7.6475] w=0.0832 to align # Constraint # added constraint: constraint((T0334)E146.CB, (T0334)F179.CB) [> 3.5544 = 5.9240 < 7.7012] w=0.0832 to align # Constraint # added constraint: constraint((T0334)E146.CB, (T0334)V176.CB) [> 3.8549 = 6.4248 < 8.3522] w=0.0832 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)G293.CA) [> 3.2569 = 5.4282 < 7.0566] w=0.0832 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)F363.CB) [> 4.3190 = 7.1982 < 9.3577] w=0.0828 to align # Constraint # added constraint: constraint((T0334)E354.CB, (T0334)F407.CB) [> 2.6880 = 4.4800 < 5.8240] w=0.0828 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)F59.CB) [> 4.3938 = 7.3230 < 9.5199] w=0.0828 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)V353.CB) [> 3.3585 = 5.5975 < 7.2768] w=0.0828 to align # Constraint # added constraint: constraint((T0334)Y108.CB, (T0334)S274.CB) [> 3.3054 = 5.5089 < 7.1616] w=0.0828 to align # Constraint # added constraint: constraint((T0334)H106.CB, (T0334)F272.CB) [> 2.8822 = 4.8036 < 6.2447] w=0.0828 to align # Constraint # added constraint: constraint((T0334)C227.CB, (T0334)T348.CB) [> 3.7933 = 6.3221 < 8.2187] w=0.0828 to align # Constraint # added constraint: constraint((T0334)F230.CB, (T0334)P355.CB) [> 4.5041 = 7.5068 < 9.7589] w=0.0828 to align # Constraint # added constraint: constraint((T0334)G281.CA, (T0334)F302.CB) [> 4.2245 = 7.0408 < 9.1531] w=0.0828 to align # Constraint # added constraint: constraint((T0334)W70.CB, (T0334)F179.CB) [> 3.4959 = 5.8265 < 7.5745] w=0.0828 to align # Constraint # added constraint: constraint((T0334)Q370.CB, (T0334)L384.CB) [> 3.8745 = 6.4575 < 8.3947] w=0.0828 to align # Constraint # added constraint: constraint((T0334)A76.CB, (T0334)F179.CB) [> 3.1624 = 5.2706 < 6.8518] w=0.0828 to align # Constraint # added constraint: constraint((T0334)I10.CB, (T0334)V364.CB) [> 4.7118 = 7.8530 < 10.2088] w=0.0828 to align # Constraint # added constraint: constraint((T0334)I10.CB, (T0334)I346.CB) [> 4.4793 = 7.4654 < 9.7051] w=0.0828 to align # Constraint # added constraint: constraint((T0334)A58.CB, (T0334)I361.CB) [> 3.7608 = 6.2680 < 8.1484] w=0.0828 to align # Constraint # added constraint: constraint((T0334)L356.CB, (T0334)S410.CB) [> 3.5187 = 5.8644 < 7.6238] w=0.0828 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)P411.CB) [> 3.3123 = 5.5205 < 7.1767] w=0.0828 to align # Constraint # added constraint: constraint((T0334)A266.CB, (T0334)F292.CB) [> 3.7634 = 6.2723 < 8.1541] w=0.0828 to align # Constraint # added constraint: constraint((T0334)S300.CB, (T0334)R327.CB) [> 3.2928 = 5.4880 < 7.1345] w=0.0828 to align # Constraint # added constraint: constraint((T0334)F243.CB, (T0334)R337.CB) [> 4.2250 = 7.0416 < 9.1541] w=0.0828 to align # Constraint # added constraint: constraint((T0334)D265.CB, (T0334)R291.CB) [> 3.9669 = 6.6115 < 8.5949] w=0.0828 to align # Constraint # added constraint: constraint((T0334)V332.CB, (T0334)Q404.CB) [> 3.6054 = 6.0090 < 7.8116] w=0.0828 to align # Constraint # added constraint: constraint((T0334)T359.CB, (T0334)F402.CB) [> 4.3076 = 7.1793 < 9.3330] w=0.0828 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)T385.CB) [> 4.4998 = 7.4996 < 9.7495] w=0.0828 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)S300.CB) [> 3.8014 = 6.3356 < 8.2363] w=0.0827 to align # Constraint # added constraint: constraint((T0334)F139.CB, (T0334)A184.CB) [> 4.1188 = 6.8646 < 8.9240] w=0.0827 to align # Constraint # added constraint: constraint((T0334)F62.CB, (T0334)S358.CB) [> 3.1602 = 5.2670 < 6.8471] w=0.0826 to align # Constraint # added constraint: constraint((T0334)I8.CB, (T0334)L28.CB) [> 4.2469 = 7.0782 < 9.2016] w=0.0812 to align # Constraint # added constraint: constraint((T0334)W126.CB, (T0334)R157.CB) [> 4.0236 = 6.7060 < 8.7178] w=0.0811 to align # Constraint # added constraint: constraint((T0334)H124.CB, (T0334)L150.CB) [> 4.5908 = 7.6513 < 9.9467] w=0.0811 to align # Constraint # added constraint: constraint((T0334)Y125.CB, (T0334)L150.CB) [> 3.7391 = 6.2318 < 8.1013] w=0.0811 to align # Constraint # added constraint: constraint((T0334)S110.CB, (T0334)V225.CB) [> 4.1419 = 6.9031 < 8.9741] w=0.0811 to align # Constraint # added constraint: constraint((T0334)H192.CB, (T0334)R217.CB) [> 4.3298 = 7.2164 < 9.3813] w=0.0804 to align # Constraint # added constraint: constraint((T0334)G17.CA, (T0334)V372.CB) [> 4.7496 = 7.9160 < 10.2908] w=0.0783 to align # Constraint # added constraint: constraint((T0334)A81.CB, (T0334)A366.CB) [> 3.8497 = 6.4162 < 8.3411] w=0.0773 to align # Constraint # added constraint: constraint((T0334)A81.CB, (T0334)F363.CB) [> 3.6426 = 6.0709 < 7.8922] w=0.0773 to align # Constraint # added constraint: constraint((T0334)F59.CB, (T0334)D172.CB) [> 3.5273 = 5.8788 < 7.6424] w=0.0773 to align # Constraint # added constraint: constraint((T0334)D226.CB, (T0334)C351.CB) [> 4.0411 = 6.7351 < 8.7556] w=0.0769 to align # Constraint # added constraint: constraint((T0334)S280.CB, (T0334)S299.CB) [> 3.7181 = 6.1967 < 8.0558] w=0.0769 to align # Constraint # added constraint: constraint((T0334)R231.CB, (T0334)S247.CB) [> 4.1399 = 6.8999 < 8.9698] w=0.0769 to align # Constraint # added constraint: constraint((T0334)V47.CB, (T0334)D172.CB) [> 4.1244 = 6.8739 < 8.9361] w=0.0769 to align # Constraint # added constraint: constraint((T0334)F230.CB, (T0334)H249.CB) [> 3.7000 = 6.1666 < 8.0166] w=0.0769 to align # Constraint # added constraint: constraint((T0334)D105.CB, (T0334)F272.CB) [> 3.9207 = 6.5346 < 8.4950] w=0.0769 to align # Constraint # added constraint: constraint((T0334)G229.CA, (T0334)E354.CB) [> 3.1436 = 5.2393 < 6.8111] w=0.0769 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)R334.CB) [> 4.1438 = 6.9064 < 8.9783] w=0.0769 to align # Constraint # added constraint: constraint((T0334)F84.CB, (T0334)A275.CB) [> 3.6066 = 6.0110 < 7.8143] w=0.0769 to align # Constraint # added constraint: constraint((T0334)L55.CB, (T0334)S358.CB) [> 2.9618 = 4.9363 < 6.4171] w=0.0769 to align # Constraint # added constraint: constraint((T0334)A277.CB, (T0334)F409.CB) [> 4.1958 = 6.9929 < 9.0908] w=0.0769 to align # Constraint # added constraint: constraint((T0334)A366.CB, (T0334)I392.CB) [> 4.3682 = 7.2804 < 9.4645] w=0.0769 to align # Constraint # added constraint: constraint((T0334)V260.CB, (T0334)G295.CA) [> 4.1204 = 6.8673 < 8.9275] w=0.0768 to align # Constraint # added constraint: constraint((T0334)Y116.CB, (T0334)Y144.CB) [> 3.4473 = 5.7455 < 7.4691] w=0.0768 to align # Constraint # added constraint: constraint((T0334)H199.CB, (T0334)M239.CB) [> 4.1024 = 6.8374 < 8.8886] w=0.0768 to align # Constraint # added constraint: constraint((T0334)A142.CB, (T0334)L188.CB) [> 3.5424 = 5.9041 < 7.6753] w=0.0768 to align # Constraint # added constraint: constraint((T0334)Q38.CB, (T0334)G48.CA) [> 3.9805 = 6.6342 < 8.6245] w=0.0753 to align # Constraint # added constraint: constraint((T0334)H106.CB, (T0334)F224.CB) [> 3.8272 = 6.3786 < 8.2922] w=0.0752 to align # Constraint # added constraint: constraint((T0334)S110.CB, (T0334)C227.CB) [> 3.5657 = 5.9428 < 7.7256] w=0.0752 to align # Constraint # added constraint: constraint((T0334)H117.CB, (T0334)L223.CB) [> 2.6650 = 4.4416 < 5.7741] w=0.0752 to align # Constraint # added constraint: constraint((T0334)H117.CB, (T0334)D222.CB) [> 2.5715 = 4.2858 < 5.5715] w=0.0752 to align # Constraint # added constraint: constraint((T0334)L234.CB, (T0334)H249.CB) [> 4.3922 = 7.3204 < 9.5165] w=0.0742 to align # Constraint # added constraint: constraint((T0334)W87.CB, (T0334)A366.CB) [> 3.8031 = 6.3384 < 8.2399] w=0.0714 to align # Constraint # added constraint: constraint((T0334)P104.CB, (T0334)Y116.CB) [> 3.9280 = 6.5467 < 8.5107] w=0.0713 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)E354.CB) [> 4.2959 = 7.1599 < 9.3079] w=0.0713 to align # Constraint # added constraint: constraint((T0334)G64.CA, (T0334)Y362.CB) [> 3.3248 = 5.5414 < 7.2038] w=0.0713 to align # Constraint # added constraint: constraint((T0334)W18.CB, (T0334)I361.CB) [> 4.3477 = 7.2462 < 9.4200] w=0.0710 to align # Constraint # added constraint: constraint((T0334)C227.CB, (T0334)V353.CB) [> 3.1494 = 5.2490 < 6.8236] w=0.0710 to align # Constraint # added constraint: constraint((T0334)N86.CB, (T0334)I276.CB) [> 3.7538 = 6.2564 < 8.1334] w=0.0710 to align # Constraint # added constraint: constraint((T0334)H106.CB, (T0334)T273.CB) [> 4.0114 = 6.6858 < 8.6915] w=0.0710 to align # Constraint # added constraint: constraint((T0334)I82.CB, (T0334)S274.CB) [> 4.0356 = 6.7261 < 8.7439] w=0.0710 to align # Constraint # added constraint: constraint((T0334)C227.CB, (T0334)E354.CB) [> 3.9378 = 6.5630 < 8.5318] w=0.0710 to align # Constraint # added constraint: constraint((T0334)D226.CB, (T0334)E354.CB) [> 3.9548 = 6.5913 < 8.5687] w=0.0710 to align # Constraint # added constraint: constraint((T0334)V136.CB, (T0334)W169.CB) [> 4.0119 = 6.6864 < 8.6924] w=0.0710 to align # Constraint # added constraint: constraint((T0334)F84.CB, (T0334)A277.CB) [> 3.3642 = 5.6071 < 7.2892] w=0.0710 to align # Constraint # added constraint: constraint((T0334)K83.CB, (T0334)A275.CB) [> 3.8954 = 6.4924 < 8.4401] w=0.0710 to align # Constraint # added constraint: constraint((T0334)Y131.CB, (T0334)F171.CB) [> 4.0320 = 6.7200 < 8.7359] w=0.0710 to align # Constraint # added constraint: constraint((T0334)V80.CB, (T0334)R158.CB) [> 4.0483 = 6.7471 < 8.7712] w=0.0710 to align # Constraint # added constraint: constraint((T0334)F84.CB, (T0334)S274.CB) [> 3.6913 = 6.1521 < 7.9977] w=0.0710 to align # Constraint # added constraint: constraint((T0334)I85.CB, (T0334)I276.CB) [> 3.8200 = 6.3666 < 8.2766] w=0.0710 to align # Constraint # added constraint: constraint((T0334)A76.CB, (T0334)F171.CB) [> 3.6433 = 6.0722 < 7.8939] w=0.0710 to align # Constraint # added constraint: constraint((T0334)V269.CB, (T0334)F292.CB) [> 4.1918 = 6.9864 < 9.0823] w=0.0710 to align # Constraint # added constraint: constraint((T0334)K285.CB, (T0334)L318.CB) [> 3.8017 = 6.3362 < 8.2371] w=0.0710 to align # Constraint # added constraint: constraint((T0334)S155.CB, (T0334)Y167.CB) [> 3.8963 = 6.4938 < 8.4419] w=0.0710 to align # Constraint # added constraint: constraint((T0334)Y78.CB, (T0334)H170.CB) [> 3.8600 = 6.4333 < 8.3632] w=0.0710 to align # Constraint # added constraint: constraint((T0334)L36.CB, (T0334)M71.CB) [> 4.1216 = 6.8693 < 8.9301] w=0.0710 to align # Constraint # added constraint: constraint((T0334)M278.CB, (T0334)R412.CB) [> 4.5813 = 7.6354 < 9.9261] w=0.0710 to align # Constraint # added constraint: constraint((T0334)K279.CB, (T0334)R412.CB) [> 4.2306 = 7.0510 < 9.1663] w=0.0710 to align # Constraint # added constraint: constraint((T0334)G281.CA, (T0334)P411.CB) [> 4.2113 = 7.0189 < 9.1245] w=0.0710 to align # Constraint # added constraint: constraint((T0334)G281.CA, (T0334)R412.CB) [> 2.7001 = 4.5001 < 5.8502] w=0.0710 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)R412.CB) [> 4.1586 = 6.9310 < 9.0102] w=0.0710 to align # Constraint # added constraint: constraint((T0334)L223.CB, (T0334)T385.CB) [> 4.6781 = 7.7969 < 10.1359] w=0.0710 to align # Constraint # added constraint: constraint((T0334)L159.CB, (T0334)A168.CB) [> 3.8542 = 6.4236 < 8.3507] w=0.0710 to align # Constraint # added constraint: constraint((T0334)C313.CB, (T0334)L325.CB) [> 3.3974 = 5.6623 < 7.3609] w=0.0710 to align # Constraint # added constraint: constraint((T0334)A97.CB, (T0334)S228.CB) [> 3.9005 = 6.5008 < 8.4510] w=0.0709 to align # Constraint # added constraint: constraint((T0334)L113.CB, (T0334)V225.CB) [> 3.4903 = 5.8172 < 7.5623] w=0.0693 to align # Constraint # added constraint: constraint((T0334)H109.CB, (T0334)C227.CB) [> 4.3790 = 7.2983 < 9.4878] w=0.0693 to align # Constraint # added constraint: constraint((T0334)F127.CB, (T0334)R157.CB) [> 4.1650 = 6.9416 < 9.0241] w=0.0693 to align # Constraint # added constraint: constraint((T0334)F127.CB, (T0334)V136.CB) [> 3.6594 = 6.0989 < 7.9286] w=0.0685 to align # Constraint # added constraint: constraint((T0334)A97.CB, (T0334)S123.CB) [> 4.1323 = 6.8871 < 8.9532] w=0.0685 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)S349.CB) [> 3.5441 = 5.9069 < 7.6790] w=0.0661 to align # Constraint # added constraint: constraint((T0334)M239.CB, (T0334)T283.CB) [> 2.9626 = 4.9376 < 6.4189] w=0.0659 to align # Constraint # added constraint: constraint((T0334)R129.CB, (T0334)F179.CB) [> 3.2095 = 5.3492 < 6.9539] w=0.0654 to align # Constraint # added constraint: constraint((T0334)L122.CB, (T0334)F352.CB) [> 3.8975 = 6.4958 < 8.4446] w=0.0654 to align # Constraint # added constraint: constraint((T0334)P138.CB, (T0334)A366.CB) [> 2.8977 = 4.8294 < 6.2783] w=0.0654 to align # Constraint # added constraint: constraint((T0334)V80.CB, (T0334)Q370.CB) [> 4.4607 = 7.4345 < 9.6649] w=0.0654 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)R334.CB) [> 3.2067 = 5.3445 < 6.9479] w=0.0654 to align # Constraint # added constraint: constraint((T0334)I65.CB, (T0334)Y362.CB) [> 3.7473 = 6.2456 < 8.1193] w=0.0654 to align # Constraint # added constraint: constraint((T0334)H106.CB, (T0334)H117.CB) [> 3.7373 = 6.2288 < 8.0974] w=0.0654 to align # Constraint # added constraint: constraint((T0334)Q56.CB, (T0334)A168.CB) [> 3.9348 = 6.5580 < 8.5254] w=0.0651 to align # Constraint # added constraint: constraint((T0334)W339.CB, (T0334)P355.CB) [> 3.2021 = 5.3368 < 6.9378] w=0.0651 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)V353.CB) [> 4.2765 = 7.1275 < 9.2657] w=0.0651 to align # Constraint # added constraint: constraint((T0334)N205.CB, (T0334)G341.CA) [> 4.2135 = 7.0225 < 9.1293] w=0.0651 to align # Constraint # added constraint: constraint((T0334)F352.CB, (T0334)V364.CB) [> 4.0868 = 6.8114 < 8.8548] w=0.0651 to align # Constraint # added constraint: constraint((T0334)G48.CA, (T0334)P355.CB) [> 4.5141 = 7.5234 < 9.7805] w=0.0651 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)L356.CB) [> 4.4961 = 7.4935 < 9.7416] w=0.0651 to align # Constraint # added constraint: constraint((T0334)G17.CA, (T0334)V353.CB) [> 4.3596 = 7.2660 < 9.4458] w=0.0651 to align # Constraint # added constraint: constraint((T0334)V225.CB, (T0334)V353.CB) [> 3.8735 = 6.4558 < 8.3926] w=0.0651 to align # Constraint # added constraint: constraint((T0334)H106.CB, (T0334)S274.CB) [> 3.1579 = 5.2631 < 6.8421] w=0.0651 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)L356.CB) [> 3.9983 = 6.6638 < 8.6629] w=0.0651 to align # Constraint # added constraint: constraint((T0334)F272.CB, (T0334)W284.CB) [> 4.2311 = 7.0518 < 9.1673] w=0.0651 to align # Constraint # added constraint: constraint((T0334)L223.CB, (T0334)S345.CB) [> 3.8291 = 6.3819 < 8.2964] w=0.0651 to align # Constraint # added constraint: constraint((T0334)F224.CB, (T0334)S345.CB) [> 3.6539 = 6.0898 < 7.9168] w=0.0651 to align # Constraint # added constraint: constraint((T0334)P261.CB, (T0334)F292.CB) [> 3.8918 = 6.4863 < 8.4321] w=0.0651 to align # Constraint # added constraint: constraint((T0334)W126.CB, (T0334)L175.CB) [> 4.4176 = 7.3626 < 9.5714] w=0.0650 to align # Constraint # added constraint: constraint((T0334)V353.CB, (T0334)F396.CB) [> 3.7280 = 6.2133 < 8.0773] w=0.0650 to align # Constraint # added constraint: constraint((T0334)L513.CB, (T0334)F523.CB) [> 3.5493 = 5.9155 < 7.6901] w=0.0650 to align # Constraint # added constraint: constraint((T0334)F352.CB, (T0334)Y362.CB) [> 3.9035 = 6.5059 < 8.4576] w=0.0650 to align # Constraint # added constraint: constraint((T0334)S345.CB, (T0334)F363.CB) [> 4.4409 = 7.4015 < 9.6219] w=0.0650 to align # Constraint # added constraint: constraint((T0334)L55.CB, (T0334)E357.CB) [> 3.5573 = 5.9288 < 7.7074] w=0.0650 to align # Constraint # added constraint: constraint((T0334)S77.CB, (T0334)W169.CB) [> 3.7411 = 6.2352 < 8.1058] w=0.0650 to align # Constraint # added constraint: constraint((T0334)E99.CB, (T0334)V200.CB) [> 3.8214 = 6.3691 < 8.2798] w=0.0650 to align # Constraint # added constraint: constraint((T0334)I34.CB, (T0334)A76.CB) [> 3.0435 = 5.0726 < 6.5943] w=0.0650 to align # Constraint # added constraint: constraint((T0334)T35.CB, (T0334)S77.CB) [> 2.8360 = 4.7267 < 6.1447] w=0.0650 to align # Constraint # added constraint: constraint((T0334)L36.CB, (T0334)A76.CB) [> 3.3438 = 5.5730 < 7.2448] w=0.0650 to align # Constraint # added constraint: constraint((T0334)P261.CB, (T0334)L325.CB) [> 3.6464 = 6.0773 < 7.9005] w=0.0650 to align # Constraint # added constraint: constraint((T0334)L100.CB, (T0334)V200.CB) [> 3.7851 = 6.3084 < 8.2010] w=0.0650 to align # Constraint # added constraint: constraint((T0334)A97.CB, (T0334)V197.CB) [> 4.0548 = 6.7580 < 8.7854] w=0.0650 to align # Constraint # added constraint: constraint((T0334)Y116.CB, (T0334)K145.CB) [> 3.6709 = 6.1182 < 7.9536] w=0.0650 to align # Constraint # added constraint: constraint((T0334)S350.CB, (T0334)G360.CA) [> 3.7638 = 6.2730 < 8.1549] w=0.0650 to align # Constraint # added constraint: constraint((T0334)F62.CB, (T0334)I361.CB) [> 4.0076 = 6.6793 < 8.6831] w=0.0648 to align # Constraint # added constraint: constraint((T0334)W126.CB, (T0334)S228.CB) [> 4.4538 = 7.4231 < 9.6500] w=0.0634 to align # Constraint # added constraint: constraint((T0334)Y125.CB, (T0334)S155.CB) [> 4.3872 = 7.3120 < 9.5056] w=0.0634 to align # Constraint # added constraint: constraint((T0334)F171.CB, (T0334)L289.CB) [> 4.0830 = 6.8050 < 8.8464] w=0.0626 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)S345.CB) [> 2.7679 = 4.6131 < 5.9971] w=0.0602 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)S350.CB) [> 3.2245 = 5.3742 < 6.9865] w=0.0602 to align # Constraint # added constraint: constraint((T0334)G229.CA, (T0334)R334.CB) [> 4.6157 = 7.6929 < 10.0008] w=0.0596 to align # Constraint # added constraint: constraint((T0334)R334.CB, (T0334)T348.CB) [> 3.7771 = 6.2951 < 8.1837] w=0.0596 to align # Constraint # added constraint: constraint((T0334)I85.CB, (T0334)Y362.CB) [> 3.6252 = 6.0421 < 7.8547] w=0.0596 to align # Constraint # added constraint: constraint((T0334)L113.CB, (T0334)K163.CB) [> 3.6373 = 6.0621 < 7.8808] w=0.0595 to align # Constraint # added constraint: constraint((T0334)G293.CA, (T0334)I328.CB) [> 4.3878 = 7.3130 < 9.5068] w=0.0595 to align # Constraint # added constraint: constraint((T0334)G46.CA, (T0334)S254.CB) [> 3.4873 = 5.8121 < 7.5558] w=0.0595 to align # Constraint # added constraint: constraint((T0334)I149.CB, (T0334)F179.CB) [> 3.3774 = 5.6290 < 7.3177] w=0.0595 to align # Constraint # added constraint: constraint((T0334)N86.CB, (T0334)L356.CB) [> 3.9948 = 6.6580 < 8.6554] w=0.0595 to align # Constraint # added constraint: constraint((T0334)W284.CB, (T0334)P355.CB) [> 3.3811 = 5.6352 < 7.3258] w=0.0595 to align # Constraint # added constraint: constraint((T0334)A97.CB, (T0334)F179.CB) [> 3.8188 = 6.3647 < 8.2741] w=0.0595 to align # Constraint # added constraint: constraint((T0334)L100.CB, (T0334)F179.CB) [> 3.1470 = 5.2449 < 6.8184] w=0.0595 to align # Constraint # added constraint: constraint((T0334)R231.CB, (T0334)V269.CB) [> 4.1065 = 6.8442 < 8.8974] w=0.0595 to align # Constraint # added constraint: constraint((T0334)T165.CB, (T0334)L175.CB) [> 3.2599 = 5.4331 < 7.0630] w=0.0595 to align # Constraint # added constraint: constraint((T0334)S123.CB, (T0334)F352.CB) [> 2.3078 = 3.8463 < 5.0002] w=0.0595 to align # Constraint # added constraint: constraint((T0334)F139.CB, (T0334)Y362.CB) [> 3.1610 = 5.2684 < 6.8489] w=0.0595 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)R334.CB) [> 4.2487 = 7.0811 < 9.2055] w=0.0595 to align # Constraint # added constraint: constraint((T0334)C74.CB, (T0334)T359.CB) [> 3.8405 = 6.4008 < 8.3210] w=0.0595 to align # Constraint # added constraint: constraint((T0334)V197.CB, (T0334)L234.CB) [> 4.2835 = 7.1392 < 9.2809] w=0.0591 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)Y362.CB) [> 3.9945 = 6.6575 < 8.6548] w=0.0591 to align # Constraint # added constraint: constraint((T0334)S110.CB, (T0334)A277.CB) [> 3.9495 = 6.5825 < 8.5572] w=0.0591 to align # Constraint # added constraint: constraint((T0334)Y108.CB, (T0334)A275.CB) [> 3.9484 = 6.5806 < 8.5548] w=0.0591 to align # Constraint # added constraint: constraint((T0334)A277.CB, (T0334)R412.CB) [> 4.4525 = 7.4208 < 9.6471] w=0.0591 to align # Constraint # added constraint: constraint((T0334)E357.CB, (T0334)F407.CB) [> 4.5470 = 7.5783 < 9.8518] w=0.0591 to align # Constraint # added constraint: constraint((T0334)H109.CB, (T0334)I276.CB) [> 3.8861 = 6.4768 < 8.4199] w=0.0591 to align # Constraint # added constraint: constraint((T0334)D226.CB, (T0334)T348.CB) [> 3.7485 = 6.2474 < 8.1216] w=0.0591 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)R301.CB) [> 3.9587 = 6.5978 < 8.5772] w=0.0591 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)E354.CB) [> 4.3261 = 7.2102 < 9.3733] w=0.0591 to align # Constraint # added constraint: constraint((T0334)F224.CB, (T0334)I346.CB) [> 3.7918 = 6.3197 < 8.2156] w=0.0591 to align # Constraint # added constraint: constraint((T0334)L223.CB, (T0334)I346.CB) [> 4.3383 = 7.2305 < 9.3997] w=0.0591 to align # Constraint # added constraint: constraint((T0334)P104.CB, (T0334)F272.CB) [> 3.2178 = 5.3630 < 6.9719] w=0.0591 to align # Constraint # added constraint: constraint((T0334)V136.CB, (T0334)A168.CB) [> 3.4573 = 5.7622 < 7.4909] w=0.0591 to align # Constraint # added constraint: constraint((T0334)Y125.CB, (T0334)F179.CB) [> 3.4941 = 5.8234 < 7.5705] w=0.0591 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)L325.CB) [> 4.1936 = 6.9894 < 9.0863] w=0.0591 to align # Constraint # added constraint: constraint((T0334)R334.CB, (T0334)I392.CB) [> 3.9061 = 6.5101 < 8.4632] w=0.0591 to align # Constraint # added constraint: constraint((T0334)V80.CB, (T0334)F272.CB) [> 3.4232 = 5.7053 < 7.4170] w=0.0591 to align # Constraint # added constraint: constraint((T0334)S349.CB, (T0334)F363.CB) [> 2.6017 = 4.3361 < 5.6370] w=0.0591 to align # Constraint # added constraint: constraint((T0334)P156.CB, (T0334)Y167.CB) [> 3.1698 = 5.2830 < 6.8679] w=0.0591 to align # Constraint # added constraint: constraint((T0334)A275.CB, (T0334)S410.CB) [> 3.3886 = 5.6476 < 7.3419] w=0.0591 to align # Constraint # added constraint: constraint((T0334)E99.CB, (T0334)E198.CB) [> 3.8539 = 6.4232 < 8.3501] w=0.0591 to align # Constraint # added constraint: constraint((T0334)H117.CB, (T0334)Y141.CB) [> 3.8453 = 6.4089 < 8.3315] w=0.0590 to align # Constraint # added constraint: constraint((T0334)F84.CB, (T0334)Y362.CB) [> 3.5769 = 5.9615 < 7.7500] w=0.0590 to align # Constraint # added constraint: constraint((T0334)F62.CB, (T0334)E357.CB) [> 4.0913 = 6.8189 < 8.8645] w=0.0589 to align # Constraint # added constraint: constraint((T0334)F62.CB, (T0334)D172.CB) [> 3.5743 = 5.9571 < 7.7442] w=0.0589 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)G295.CA) [> 4.6738 = 7.7896 < 10.1265] w=0.0575 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)N267.CB) [> 4.5022 = 7.5036 < 9.7547] w=0.0574 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)A266.CB) [> 2.5589 = 4.2649 < 5.5443] w=0.0574 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)A266.CB) [> 3.4453 = 5.7422 < 7.4648] w=0.0574 to align # Constraint # added constraint: constraint((T0334)F139.CB, (T0334)V148.CB) [> 4.2640 = 7.1067 < 9.2387] w=0.0574 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)S350.CB) [> 3.0231 = 5.0385 < 6.5501] w=0.0567 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)S345.CB) [> 3.1355 = 5.2259 < 6.7937] w=0.0567 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)W339.CB) [> 3.6618 = 6.1029 < 7.9338] w=0.0543 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)W339.CB) [> 4.0506 = 6.7510 < 8.7763] w=0.0543 to align # Constraint # added constraint: constraint((T0334)W284.CB, (T0334)E354.CB) [> 4.1474 = 6.9123 < 8.9860] w=0.0542 to align # Constraint # added constraint: constraint((T0334)K115.CB, (T0334)F127.CB) [> 3.7672 = 6.2786 < 8.1622] w=0.0536 to align # Constraint # added constraint: constraint((T0334)L114.CB, (T0334)F127.CB) [> 3.1120 = 5.1866 < 6.7426] w=0.0536 to align # Constraint # added constraint: constraint((T0334)W87.CB, (T0334)T359.CB) [> 3.6399 = 6.0665 < 7.8864] w=0.0536 to align # Constraint # added constraint: constraint((T0334)W87.CB, (T0334)L356.CB) [> 3.6187 = 6.0312 < 7.8406] w=0.0536 to align # Constraint # added constraint: constraint((T0334)S110.CB, (T0334)L356.CB) [> 4.0826 = 6.8043 < 8.8456] w=0.0536 to align # Constraint # added constraint: constraint((T0334)N86.CB, (T0334)L113.CB) [> 3.2392 = 5.3987 < 7.0183] w=0.0536 to align # Constraint # added constraint: constraint((T0334)Y125.CB, (T0334)Y365.CB) [> 4.2730 = 7.1216 < 9.2581] w=0.0536 to align # Constraint # added constraint: constraint((T0334)Y131.CB, (T0334)F179.CB) [> 2.7868 = 4.6447 < 6.0381] w=0.0536 to align # Constraint # added constraint: constraint((T0334)S130.CB, (T0334)F179.CB) [> 3.2131 = 5.3552 < 6.9618] w=0.0536 to align # Constraint # added constraint: constraint((T0334)G112.CA, (T0334)L356.CB) [> 3.7277 = 6.2128 < 8.0766] w=0.0536 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)P355.CB) [> 3.9996 = 6.6661 < 8.6659] w=0.0536 to align # Constraint # added constraint: constraint((T0334)Y144.CB, (T0334)V164.CB) [> 4.0672 = 6.7787 < 8.8123] w=0.0536 to align # Constraint # added constraint: constraint((T0334)R231.CB, (T0334)E270.CB) [> 3.8823 = 6.4705 < 8.4116] w=0.0536 to align # Constraint # added constraint: constraint((T0334)Y125.CB, (T0334)Y369.CB) [> 4.0555 = 6.7591 < 8.7868] w=0.0536 to align # Constraint # added constraint: constraint((T0334)C74.CB, (T0334)L356.CB) [> 3.5089 = 5.8481 < 7.6025] w=0.0536 to align # Constraint # added constraint: constraint((T0334)A39.CB, (T0334)G268.CA) [> 4.3621 = 7.2701 < 9.4511] w=0.0536 to align # Constraint # added constraint: constraint((T0334)F127.CB, (T0334)V353.CB) [> 3.8080 = 6.3467 < 8.2507] w=0.0536 to align # Constraint # added constraint: constraint((T0334)C74.CB, (T0334)F179.CB) [> 3.2136 = 5.3560 < 6.9628] w=0.0532 to align # Constraint # added constraint: constraint((T0334)G17.CA, (T0334)Q38.CB) [> 4.5688 = 7.6147 < 9.8991] w=0.0532 to align # Constraint # added constraint: constraint((T0334)V225.CB, (T0334)S350.CB) [> 4.5386 = 7.5643 < 9.8336] w=0.0532 to align # Constraint # added constraint: constraint((T0334)F84.CB, (T0334)F363.CB) [> 3.3350 = 5.5583 < 7.2258] w=0.0532 to align # Constraint # added constraint: constraint((T0334)K83.CB, (T0334)A366.CB) [> 3.4232 = 5.7053 < 7.4169] w=0.0532 to align # Constraint # added constraint: constraint((T0334)R231.CB, (T0334)H249.CB) [> 4.1694 = 6.9491 < 9.0338] w=0.0532 to align # Constraint # added constraint: constraint((T0334)D264.CB, (T0334)T294.CB) [> 4.2303 = 7.0504 < 9.1656] w=0.0532 to align # Constraint # added constraint: constraint((T0334)P40.CB, (T0334)A50.CB) [> 3.7859 = 6.3099 < 8.2029] w=0.0532 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)C313.CB) [> 3.9463 = 6.5771 < 8.5503] w=0.0532 to align # Constraint # added constraint: constraint((T0334)F107.CB, (T0334)T273.CB) [> 3.2566 = 5.4276 < 7.0559] w=0.0532 to align # Constraint # added constraint: constraint((T0334)H109.CB, (T0334)S274.CB) [> 3.8104 = 6.3507 < 8.2559] w=0.0532 to align # Constraint # added constraint: constraint((T0334)I82.CB, (T0334)T273.CB) [> 3.3462 = 5.5770 < 7.2501] w=0.0532 to align # Constraint # added constraint: constraint((T0334)F107.CB, (T0334)F272.CB) [> 3.7637 = 6.2728 < 8.1546] w=0.0532 to align # Constraint # added constraint: constraint((T0334)K83.CB, (T0334)T273.CB) [> 3.8696 = 6.4493 < 8.3841] w=0.0532 to align # Constraint # added constraint: constraint((T0334)T283.CB, (T0334)L318.CB) [> 3.9433 = 6.5722 < 8.5438] w=0.0532 to align # Constraint # added constraint: constraint((T0334)F292.CB, (T0334)L325.CB) [> 4.2688 = 7.1147 < 9.2492] w=0.0532 to align # Constraint # added constraint: constraint((T0334)D222.CB, (T0334)V344.CB) [> 3.7737 = 6.2896 < 8.1764] w=0.0532 to align # Constraint # added constraint: constraint((T0334)Y144.CB, (T0334)F179.CB) [> 2.9350 = 4.8917 < 6.3592] w=0.0532 to align # Constraint # added constraint: constraint((T0334)F127.CB, (T0334)Y141.CB) [> 3.6545 = 6.0909 < 7.9181] w=0.0532 to align # Constraint # added constraint: constraint((T0334)I85.CB, (T0334)A277.CB) [> 3.7287 = 6.2144 < 8.0788] w=0.0532 to align # Constraint # added constraint: constraint((T0334)Q56.CB, (T0334)P66.CB) [> 4.2757 = 7.1261 < 9.2639] w=0.0532 to align # Constraint # added constraint: constraint((T0334)Q370.CB, (T0334)R387.CB) [> 3.3605 = 5.6008 < 7.2810] w=0.0532 to align # Constraint # added constraint: constraint((T0334)W70.CB, (T0334)Y369.CB) [> 3.4957 = 5.8262 < 7.5741] w=0.0532 to align # Constraint # added constraint: constraint((T0334)A266.CB, (T0334)G293.CA) [> 3.9059 = 6.5099 < 8.4628] w=0.0532 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)W70.CB) [> 4.3098 = 7.1830 < 9.3379] w=0.0532 to align # Constraint # added constraint: constraint((T0334)W70.CB, (T0334)Y365.CB) [> 3.2645 = 5.4408 < 7.0730] w=0.0532 to align # Constraint # added constraint: constraint((T0334)H262.CB, (T0334)K285.CB) [> 4.1585 = 6.9309 < 9.0101] w=0.0532 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)F407.CB) [> 3.1386 = 5.2311 < 6.8004] w=0.0532 to align # Constraint # added constraint: constraint((T0334)A277.CB, (T0334)V506.CB) [> 4.6501 = 7.7501 < 10.0751] w=0.0532 to align # Constraint # added constraint: constraint((T0334)A173.CB, (T0334)E357.CB) [> 4.1192 = 6.8654 < 8.9250] w=0.0532 to align # Constraint # added constraint: constraint((T0334)E49.CB, (T0334)G293.CA) [> 4.2811 = 7.1351 < 9.2756] w=0.0532 to align # Constraint # added constraint: constraint((T0334)Y78.CB, (T0334)A168.CB) [> 3.7560 = 6.2599 < 8.1379] w=0.0532 to align # Constraint # added constraint: constraint((T0334)K83.CB, (T0334)G93.CA) [> 3.6998 = 6.1663 < 8.0161] w=0.0532 to align # Constraint # added constraint: constraint((T0334)D263.CB, (T0334)K285.CB) [> 3.4828 = 5.8046 < 7.5460] w=0.0532 to align # Constraint # added constraint: constraint((T0334)A39.CB, (T0334)A81.CB) [> 3.9056 = 6.5093 < 8.4621] w=0.0532 to align # Constraint # added constraint: constraint((T0334)Q38.CB, (T0334)V80.CB) [> 3.8513 = 6.4189 < 8.3445] w=0.0532 to align # Constraint # added constraint: constraint((T0334)S349.CB, (T0334)A366.CB) [> 4.3187 = 7.1978 < 9.3571] w=0.0532 to align # Constraint # added constraint: constraint((T0334)R327.CB, (T0334)S350.CB) [> 3.5850 = 5.9750 < 7.7675] w=0.0532 to align # Constraint # added constraint: constraint((T0334)R334.CB, (T0334)Q370.CB) [> 3.0972 = 5.1619 < 6.7105] w=0.0532 to align # Constraint # added constraint: constraint((T0334)F62.CB, (T0334)Y108.CB) [> 3.5876 = 5.9794 < 7.7732] w=0.0530 to align # Constraint # added constraint: constraint((T0334)S123.CB, (T0334)Y144.CB) [> 3.4573 = 5.7621 < 7.4907] w=0.0520 to align # Constraint # added constraint: constraint((T0334)H106.CB, (T0334)V200.CB) [> 3.5384 = 5.8974 < 7.6666] w=0.0516 to align # Constraint # added constraint: constraint((T0334)F107.CB, (T0334)V225.CB) [> 4.3544 = 7.2573 < 9.4345] w=0.0515 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)V344.CB) [> 4.4372 = 7.3954 < 9.6140] w=0.0508 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)V344.CB) [> 3.0100 = 5.0167 < 6.5217] w=0.0508 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)S345.CB) [> 3.8496 = 6.4161 < 8.3409] w=0.0508 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)S345.CB) [> 4.4423 = 7.4039 < 9.6251] w=0.0484 to align # Constraint # added constraint: constraint((T0334)T57.CB, (T0334)A173.CB) [> 3.3096 = 5.5160 < 7.1708] w=0.0478 to align # Constraint # added constraint: constraint((T0334)A152.CB, (T0334)S358.CB) [> 3.2181 = 5.3635 < 6.9726] w=0.0477 to align # Constraint # added constraint: constraint((T0334)E67.CB, (T0334)I82.CB) [> 2.7551 = 4.5919 < 5.9694] w=0.0477 to align # Constraint # added constraint: constraint((T0334)M71.CB, (T0334)I82.CB) [> 2.5425 = 4.2375 < 5.5087] w=0.0477 to align # Constraint # added constraint: constraint((T0334)L150.CB, (T0334)F179.CB) [> 3.0876 = 5.1459 < 6.6897] w=0.0477 to align # Constraint # added constraint: constraint((T0334)I82.CB, (T0334)L114.CB) [> 3.2249 = 5.3749 < 6.9873] w=0.0477 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)R334.CB) [> 3.3428 = 5.5713 < 7.2427] w=0.0477 to align # Constraint # added constraint: constraint((T0334)I276.CB, (T0334)R334.CB) [> 3.4933 = 5.8222 < 7.5689] w=0.0477 to align # Constraint # added constraint: constraint((T0334)S110.CB, (T0334)S358.CB) [> 2.8471 = 4.7452 < 6.1687] w=0.0477 to align # Constraint # added constraint: constraint((T0334)L113.CB, (T0334)S358.CB) [> 4.1576 = 6.9293 < 9.0081] w=0.0477 to align # Constraint # added constraint: constraint((T0334)D61.CB, (T0334)S110.CB) [> 3.5593 = 5.9321 < 7.7117] w=0.0477 to align # Constraint # added constraint: constraint((T0334)Y131.CB, (T0334)T165.CB) [> 4.5765 = 7.6275 < 9.9158] w=0.0477 to align # Constraint # added constraint: constraint((T0334)F60.CB, (T0334)A173.CB) [> 3.6713 = 6.1189 < 7.9545] w=0.0477 to align # Constraint # added constraint: constraint((T0334)Y116.CB, (T0334)D172.CB) [> 4.0576 = 6.7626 < 8.7914] w=0.0477 to align # Constraint # added constraint: constraint((T0334)R129.CB, (T0334)P138.CB) [> 3.0809 = 5.1349 < 6.6753] w=0.0477 to align # Constraint # added constraint: constraint((T0334)P138.CB, (T0334)Q370.CB) [> 4.4341 = 7.3901 < 9.6071] w=0.0477 to align # Constraint # added constraint: constraint((T0334)F139.CB, (T0334)A366.CB) [> 3.9695 = 6.6158 < 8.6006] w=0.0477 to align # Constraint # added constraint: constraint((T0334)A58.CB, (T0334)Y144.CB) [> 3.4910 = 5.8184 < 7.5639] w=0.0477 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)F363.CB) [> 4.2577 = 7.0962 < 9.2250] w=0.0473 to align # Constraint # added constraint: constraint((T0334)C343.CB, (T0334)F388.CB) [> 3.6549 = 6.0915 < 7.9190] w=0.0473 to align # Constraint # added constraint: constraint((T0334)R231.CB, (T0334)S349.CB) [> 4.1210 = 6.8684 < 8.9289] w=0.0473 to align # Constraint # added constraint: constraint((T0334)N86.CB, (T0334)A277.CB) [> 3.4500 = 5.7501 < 7.4751] w=0.0473 to align # Constraint # added constraint: constraint((T0334)F59.CB, (T0334)Y78.CB) [> 3.9092 = 6.5153 < 8.4699] w=0.0473 to align # Constraint # added constraint: constraint((T0334)A27.CB, (T0334)Y369.CB) [> 3.2293 = 5.3821 < 6.9967] w=0.0473 to align # Constraint # added constraint: constraint((T0334)S345.CB, (T0334)P355.CB) [> 3.1033 = 5.1722 < 6.7238] w=0.0473 to align # Constraint # added constraint: constraint((T0334)S345.CB, (T0334)E354.CB) [> 3.1047 = 5.1745 < 6.7268] w=0.0473 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)P355.CB) [> 3.2364 = 5.3941 < 7.0123] w=0.0473 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)E354.CB) [> 4.2334 = 7.0557 < 9.1725] w=0.0473 to align # Constraint # added constraint: constraint((T0334)F224.CB, (T0334)S350.CB) [> 2.8616 = 4.7694 < 6.2002] w=0.0473 to align # Constraint # added constraint: constraint((T0334)F224.CB, (T0334)S349.CB) [> 4.0273 = 6.7121 < 8.7257] w=0.0473 to align # Constraint # added constraint: constraint((T0334)L223.CB, (T0334)S350.CB) [> 4.3213 = 7.2021 < 9.3628] w=0.0473 to align # Constraint # added constraint: constraint((T0334)L223.CB, (T0334)S349.CB) [> 2.9981 = 4.9969 < 6.4959] w=0.0473 to align # Constraint # added constraint: constraint((T0334)D222.CB, (T0334)S349.CB) [> 3.8484 = 6.4140 < 8.3382] w=0.0473 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)S350.CB) [> 4.3878 = 7.3131 < 9.5070] w=0.0473 to align # Constraint # added constraint: constraint((T0334)R212.CB, (T0334)T385.CB) [> 3.9731 = 6.6217 < 8.6083] w=0.0473 to align # Constraint # added constraint: constraint((T0334)G13.CA, (T0334)A39.CB) [> 4.6413 = 7.7355 < 10.0561] w=0.0473 to align # Constraint # added constraint: constraint((T0334)I82.CB, (T0334)A275.CB) [> 3.3761 = 5.6269 < 7.3149] w=0.0473 to align # Constraint # added constraint: constraint((T0334)F84.CB, (T0334)D160.CB) [> 3.0746 = 5.1243 < 6.6616] w=0.0473 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)W282.CB) [> 4.6020 = 7.6700 < 9.9710] w=0.0473 to align # Constraint # added constraint: constraint((T0334)E357.CB, (T0334)A405.CB) [> 4.6660 = 7.7767 < 10.1097] w=0.0473 to align # Constraint # added constraint: constraint((T0334)H109.CB, (T0334)A275.CB) [> 3.2781 = 5.4635 < 7.1026] w=0.0473 to align # Constraint # added constraint: constraint((T0334)T57.CB, (T0334)D172.CB) [> 3.4067 = 5.6779 < 7.3813] w=0.0473 to align # Constraint # added constraint: constraint((T0334)N86.CB, (T0334)M278.CB) [> 3.3410 = 5.5683 < 7.2387] w=0.0473 to align # Constraint # added constraint: constraint((T0334)H262.CB, (T0334)L325.CB) [> 3.6181 = 6.0301 < 7.8391] w=0.0473 to align # Constraint # added constraint: constraint((T0334)I85.CB, (T0334)A275.CB) [> 4.2145 = 7.0242 < 9.1315] w=0.0473 to align # Constraint # added constraint: constraint((T0334)T294.CB, (T0334)C313.CB) [> 4.2636 = 7.1059 < 9.2377] w=0.0473 to align # Constraint # added constraint: constraint((T0334)D222.CB, (T0334)C343.CB) [> 3.6026 = 6.0044 < 7.8057] w=0.0473 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)M288.CB) [> 3.6438 = 6.0730 < 7.8948] w=0.0473 to align # Constraint # added constraint: constraint((T0334)L514.CB, (T0334)F523.CB) [> 4.3630 = 7.2716 < 9.4531] w=0.0473 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)T294.CB) [> 3.2173 = 5.3622 < 6.9708] w=0.0473 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)F409.CB) [> 3.7856 = 6.3093 < 8.2021] w=0.0473 to align # Constraint # added constraint: constraint((T0334)V269.CB, (T0334)L318.CB) [> 4.0062 = 6.6770 < 8.6801] w=0.0473 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)T294.CB) [> 4.0755 = 6.7925 < 8.8302] w=0.0473 to align # Constraint # added constraint: constraint((T0334)S350.CB, (T0334)Y362.CB) [> 3.0827 = 5.1378 < 6.6791] w=0.0473 to align # Constraint # added constraint: constraint((T0334)F84.CB, (T0334)G93.CA) [> 3.3860 = 5.6433 < 7.3363] w=0.0473 to align # Constraint # added constraint: constraint((T0334)L37.CB, (T0334)I82.CB) [> 3.5691 = 5.9485 < 7.7330] w=0.0473 to align # Constraint # added constraint: constraint((T0334)H106.CB, (T0334)L223.CB) [> 3.1296 = 5.2160 < 6.7808] w=0.0473 to align # Constraint # added constraint: constraint((T0334)H262.CB, (T0334)I286.CB) [> 4.4778 = 7.4630 < 9.7019] w=0.0472 to align # Constraint # added constraint: constraint((T0334)F107.CB, (T0334)L223.CB) [> 4.6713 = 7.7855 < 10.1212] w=0.0472 to align # Constraint # added constraint: constraint((T0334)W87.CB, (T0334)Y365.CB) [> 2.8335 = 4.7225 < 6.1392] w=0.0472 to align # Constraint # added constraint: constraint((T0334)L100.CB, (T0334)D226.CB) [> 3.9492 = 6.5820 < 8.5566] w=0.0456 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)Q370.CB) [> 3.8510 = 6.4183 < 8.3438] w=0.0449 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)I346.CB) [> 3.5975 = 5.9957 < 7.7945] w=0.0449 to align # Constraint # added constraint: constraint((T0334)A266.CB, (T0334)K285.CB) [> 4.0656 = 6.7760 < 8.8088] w=0.0419 to align # Constraint # added constraint: constraint((T0334)W87.CB, (T0334)E354.CB) [> 4.6151 = 7.6918 < 9.9993] w=0.0418 to align # Constraint # added constraint: constraint((T0334)A97.CB, (T0334)Y365.CB) [> 3.8193 = 6.3656 < 8.2752] w=0.0418 to align # Constraint # added constraint: constraint((T0334)E67.CB, (T0334)K83.CB) [> 3.2090 = 5.3484 < 6.9529] w=0.0418 to align # Constraint # added constraint: constraint((T0334)F60.CB, (T0334)D172.CB) [> 4.0206 = 6.7010 < 8.7114] w=0.0418 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)I286.CB) [> 3.4625 = 5.7709 < 7.5021] w=0.0418 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)K285.CB) [> 4.0526 = 6.7543 < 8.7806] w=0.0418 to align # Constraint # added constraint: constraint((T0334)K279.CB, (T0334)S349.CB) [> 3.7344 = 6.2240 < 8.0912] w=0.0418 to align # Constraint # added constraint: constraint((T0334)A277.CB, (T0334)T348.CB) [> 3.7359 = 6.2266 < 8.0945] w=0.0418 to align # Constraint # added constraint: constraint((T0334)H117.CB, (T0334)L356.CB) [> 2.7365 = 4.5608 < 5.9290] w=0.0418 to align # Constraint # added constraint: constraint((T0334)F111.CB, (T0334)E357.CB) [> 3.2846 = 5.4743 < 7.1166] w=0.0418 to align # Constraint # added constraint: constraint((T0334)R129.CB, (T0334)Q370.CB) [> 4.3861 = 7.3102 < 9.5033] w=0.0418 to align # Constraint # added constraint: constraint((T0334)R129.CB, (T0334)A366.CB) [> 3.9534 = 6.5890 < 8.5658] w=0.0418 to align # Constraint # added constraint: constraint((T0334)K7.CB, (T0334)L28.CB) [> 4.5774 = 7.6291 < 9.9178] w=0.0414 to align # Constraint # added constraint: constraint((T0334)Q370.CB, (T0334)T385.CB) [> 4.5285 = 7.5475 < 9.8118] w=0.0414 to align # Constraint # added constraint: constraint((T0334)C227.CB, (T0334)S350.CB) [> 3.7028 = 6.1713 < 8.0227] w=0.0414 to align # Constraint # added constraint: constraint((T0334)F62.CB, (T0334)Y369.CB) [> 4.1905 = 6.9841 < 9.0794] w=0.0414 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)L356.CB) [> 3.0845 = 5.1409 < 6.6831] w=0.0414 to align # Constraint # added constraint: constraint((T0334)A405.CB, (T0334)K433.CB) [> 4.3185 = 7.1976 < 9.3568] w=0.0414 to align # Constraint # added constraint: constraint((T0334)G3.CA, (T0334)F219.CB) [> 3.4397 = 5.7328 < 7.4527] w=0.0414 to align # Constraint # added constraint: constraint((T0334)G341.CA, (T0334)H374.CB) [> 4.1778 = 6.9630 < 9.0519] w=0.0414 to align # Constraint # added constraint: constraint((T0334)E354.CB, (T0334)F402.CB) [> 4.6282 = 7.7137 < 10.0278] w=0.0414 to align # Constraint # added constraint: constraint((T0334)L356.CB, (T0334)F402.CB) [> 2.6816 = 4.4693 < 5.8101] w=0.0414 to align # Constraint # added constraint: constraint((T0334)S110.CB, (T0334)Y167.CB) [> 3.7704 = 6.2840 < 8.1693] w=0.0414 to align # Constraint # added constraint: constraint((T0334)I82.CB, (T0334)E96.CB) [> 3.9432 = 6.5720 < 8.5436] w=0.0414 to align # Constraint # added constraint: constraint((T0334)C143.CB, (T0334)N166.CB) [> 4.0939 = 6.8232 < 8.8701] w=0.0414 to align # Constraint # added constraint: constraint((T0334)V136.CB, (T0334)Y167.CB) [> 3.8186 = 6.3643 < 8.2737] w=0.0414 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)Y408.CB) [> 4.1229 = 6.8716 < 8.9330] w=0.0414 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)G295.CA) [> 3.1855 = 5.3091 < 6.9019] w=0.0414 to align # Constraint # added constraint: constraint((T0334)P53.CB, (T0334)T165.CB) [> 3.2918 = 5.4863 < 7.1321] w=0.0414 to align # Constraint # added constraint: constraint((T0334)Y78.CB, (T0334)Y167.CB) [> 3.5151 = 5.8584 < 7.6160] w=0.0414 to align # Constraint # added constraint: constraint((T0334)R334.CB, (T0334)V344.CB) [> 3.4823 = 5.8038 < 7.5450] w=0.0414 to align # Constraint # added constraint: constraint((T0334)L234.CB, (T0334)L250.CB) [> 3.3306 = 5.5511 < 7.2164] w=0.0414 to align # Constraint # added constraint: constraint((T0334)L100.CB, (T0334)V197.CB) [> 4.1577 = 6.9295 < 9.0083] w=0.0397 to align # Constraint # added constraint: constraint((T0334)R157.CB, (T0334)S358.CB) [> 4.5076 = 7.5127 < 9.7665] w=0.0361 to align # Constraint # added constraint: constraint((T0334)R231.CB, (T0334)R334.CB) [> 2.8881 = 4.8135 < 6.2576] w=0.0361 to align # Constraint # added constraint: constraint((T0334)I85.CB, (T0334)A366.CB) [> 4.0311 = 6.7185 < 8.7340] w=0.0360 to align # Constraint # added constraint: constraint((T0334)F111.CB, (T0334)F127.CB) [> 3.3419 = 5.5699 < 7.2409] w=0.0360 to align # Constraint # added constraint: constraint((T0334)H117.CB, (T0334)T359.CB) [> 4.7219 = 7.8699 < 10.2309] w=0.0359 to align # Constraint # added constraint: constraint((T0334)L63.CB, (T0334)T165.CB) [> 4.6199 = 7.6999 < 10.0099] w=0.0359 to align # Constraint # added constraint: constraint((T0334)L234.CB, (T0334)R334.CB) [> 3.4448 = 5.7413 < 7.4637] w=0.0359 to align # Constraint # added constraint: constraint((T0334)I346.CB, (T0334)V372.CB) [> 4.4858 = 7.4763 < 9.7192] w=0.0355 to align # Constraint # added constraint: constraint((T0334)I149.CB, (T0334)V164.CB) [> 4.0604 = 6.7673 < 8.7975] w=0.0355 to align # Constraint # added constraint: constraint((T0334)F60.CB, (T0334)L356.CB) [> 3.7876 = 6.3127 < 8.2065] w=0.0355 to align # Constraint # added constraint: constraint((T0334)G46.CA, (T0334)D195.CB) [> 4.2270 = 7.0450 < 9.1585] w=0.0355 to align # Constraint # added constraint: constraint((T0334)K285.CB, (T0334)Y298.CB) [> 3.6894 = 6.1490 < 7.9938] w=0.0355 to align # Constraint # added constraint: constraint((T0334)W284.CB, (T0334)L356.CB) [> 3.9549 = 6.5914 < 8.5689] w=0.0355 to align # Constraint # added constraint: constraint((T0334)F60.CB, (T0334)E357.CB) [> 3.8054 = 6.3424 < 8.2451] w=0.0355 to align # Constraint # added constraint: constraint((T0334)P53.CB, (T0334)V164.CB) [> 2.9078 = 4.8464 < 6.3003] w=0.0355 to align # Constraint # added constraint: constraint((T0334)D172.CB, (T0334)K285.CB) [> 3.9299 = 6.5498 < 8.5148] w=0.0355 to align # Constraint # added constraint: constraint((T0334)F402.CB, (T0334)V502.CB) [> 3.7583 = 6.2638 < 8.1429] w=0.0355 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)M71.CB) [> 4.5033 = 7.5054 < 9.7571] w=0.0355 to align # Constraint # added constraint: constraint((T0334)F60.CB, (T0334)Y362.CB) [> 3.6304 = 6.0506 < 7.8658] w=0.0355 to align # Constraint # added constraint: constraint((T0334)I85.CB, (T0334)S274.CB) [> 3.8628 = 6.4379 < 8.3693] w=0.0355 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)E354.CB) [> 4.1898 = 6.9831 < 9.0780] w=0.0355 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)Y298.CB) [> 4.3290 = 7.2150 < 9.3795] w=0.0355 to align # Constraint # added constraint: constraint((T0334)V225.CB, (T0334)T348.CB) [> 3.7462 = 6.2437 < 8.1168] w=0.0355 to align # Constraint # added constraint: constraint((T0334)I149.CB, (T0334)L356.CB) [> 3.5471 = 5.9119 < 7.6855] w=0.0355 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)R412.CB) [> 4.6400 = 7.7333 < 10.0533] w=0.0355 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)G295.CA) [> 4.5705 = 7.6176 < 9.9029] w=0.0355 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)E354.CB) [> 3.7680 = 6.2800 < 8.1639] w=0.0355 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)S299.CB) [> 2.8657 = 4.7762 < 6.2091] w=0.0355 to align # Constraint # added constraint: constraint((T0334)F409.CB, (T0334)L513.CB) [> 3.7156 = 6.1927 < 8.0505] w=0.0355 to align # Constraint # added constraint: constraint((T0334)F409.CB, (T0334)Q510.CB) [> 3.4262 = 5.7103 < 7.4234] w=0.0355 to align # Constraint # added constraint: constraint((T0334)M278.CB, (T0334)Y408.CB) [> 4.5555 = 7.5926 < 9.8703] w=0.0355 to align # Constraint # added constraint: constraint((T0334)S349.CB, (T0334)T359.CB) [> 4.7660 = 7.9433 < 10.3263] w=0.0355 to align # Constraint # added constraint: constraint((T0334)G12.CA, (T0334)I346.CB) [> 4.6488 = 7.7481 < 10.0725] w=0.0355 to align # Constraint # added constraint: constraint((T0334)W87.CB, (T0334)Y369.CB) [> 4.0315 = 6.7192 < 8.7350] w=0.0354 to align # Constraint # added constraint: constraint((T0334)P156.CB, (T0334)D172.CB) [> 4.0621 = 6.7702 < 8.8013] w=0.0331 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)S350.CB) [> 3.9515 = 6.5859 < 8.5617] w=0.0331 to align # Constraint # added constraint: constraint((T0334)A39.CB, (T0334)I276.CB) [> 3.7646 = 6.2743 < 8.1565] w=0.0300 to align # Constraint # added constraint: constraint((T0334)N166.CB, (T0334)S358.CB) [> 4.1993 = 6.9988 < 9.0985] w=0.0299 to align # Constraint # added constraint: constraint((T0334)M436.CB, (T0334)V506.CB) [> 3.5263 = 5.8772 < 7.6404] w=0.0296 to align # Constraint # added constraint: constraint((T0334)H262.CB, (T0334)T294.CB) [> 3.8407 = 6.4012 < 8.3216] w=0.0296 to align # Constraint # added constraint: constraint((T0334)T35.CB, (T0334)Y78.CB) [> 4.6589 = 7.7649 < 10.0943] w=0.0296 to align # Constraint # added constraint: constraint((T0334)L37.CB, (T0334)S210.CB) [> 3.8068 = 6.3447 < 8.2482] w=0.0296 to align # Constraint # added constraint: constraint((T0334)A173.CB, (T0334)T294.CB) [> 3.4572 = 5.7621 < 7.4907] w=0.0296 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)S350.CB) [> 4.6104 = 7.6840 < 9.9892] w=0.0296 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)L356.CB) [> 3.9741 = 6.6235 < 8.6105] w=0.0296 to align # Constraint # added constraint: constraint((T0334)R88.CB, (T0334)V164.CB) [> 4.1180 = 6.8633 < 8.9223] w=0.0296 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)E354.CB) [> 3.6899 = 6.1498 < 7.9947] w=0.0296 to align # Constraint # added constraint: constraint((T0334)G12.CA, (T0334)R231.CB) [> 4.6762 = 7.7937 < 10.1318] w=0.0296 to align # Constraint # added constraint: constraint((T0334)S350.CB, (T0334)I361.CB) [> 4.0272 = 6.7119 < 8.7255] w=0.0296 to align # Constraint # added constraint: constraint((T0334)A405.CB, (T0334)M430.CB) [> 3.7637 = 6.2728 < 8.1547] w=0.0296 to align # Constraint # added constraint: constraint((T0334)V136.CB, (T0334)T165.CB) [> 4.4078 = 7.3464 < 9.5503] w=0.0296 to align # Constraint # added constraint: constraint((T0334)N86.CB, (T0334)S358.CB) [> 4.2957 = 7.1596 < 9.3074] w=0.0296 to align # Constraint # added constraint: constraint((T0334)W87.CB, (T0334)S358.CB) [> 4.2582 = 7.0970 < 9.2261] w=0.0296 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)Y362.CB) [> 3.9587 = 6.5979 < 8.5772] w=0.0296 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)I361.CB) [> 4.7365 = 7.8942 < 10.2624] w=0.0296 to align # Constraint # added constraint: constraint((T0334)R412.CB, (T0334)L489.CB) [> 3.6932 = 6.1553 < 8.0020] w=0.0296 to align # Constraint # added constraint: constraint((T0334)W418.CB, (T0334)A505.CB) [> 3.3435 = 5.5725 < 7.2442] w=0.0296 to align # Constraint # added constraint: constraint((T0334)Y408.CB, (T0334)V506.CB) [> 4.4545 = 7.4242 < 9.6515] w=0.0296 to align # Constraint # added constraint: constraint((T0334)A275.CB, (T0334)F402.CB) [> 4.6919 = 7.8199 < 10.1659] w=0.0296 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)W282.CB) [> 4.6449 = 7.7415 < 10.0640] w=0.0296 to align # Constraint # added constraint: constraint((T0334)Y131.CB, (T0334)Y141.CB) [> 3.3885 = 5.6475 < 7.3418] w=0.0296 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)T294.CB) [> 3.9672 = 6.6120 < 8.5956] w=0.0296 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)G295.CA) [> 3.8424 = 6.4039 < 8.3251] w=0.0296 to align # Constraint # added constraint: constraint((T0334)D140.CB, (T0334)F179.CB) [> 3.4504 = 5.7507 < 7.4759] w=0.0296 to align # Constraint # added constraint: constraint((T0334)F409.CB, (T0334)I434.CB) [> 4.0981 = 6.8301 < 8.8791] w=0.0296 to align # Constraint # added constraint: constraint((T0334)L150.CB, (T0334)L514.CB) [> 4.1009 = 6.8349 < 8.8854] w=0.0296 to align # Constraint # added constraint: constraint((T0334)V148.CB, (T0334)L514.CB) [> 2.8523 = 4.7538 < 6.1800] w=0.0296 to align # Constraint # added constraint: constraint((T0334)I85.CB, (T0334)L234.CB) [> 3.9180 = 6.5299 < 8.4889] w=0.0296 to align # Constraint # added constraint: constraint((T0334)A32.CB, (T0334)L223.CB) [> 4.6094 = 7.6823 < 9.9870] w=0.0296 to align # Constraint # added constraint: constraint((T0334)F409.CB, (T0334)M430.CB) [> 3.5035 = 5.8392 < 7.5909] w=0.0296 to align # Constraint # added constraint: constraint((T0334)G161.CA, (T0334)L524.CB) [> 2.9192 = 4.8653 < 6.3249] w=0.0296 to align # Constraint # added constraint: constraint((T0334)R334.CB, (T0334)I346.CB) [> 3.5026 = 5.8376 < 7.5889] w=0.0295 to align # Constraint # added constraint: constraint((T0334)T348.CB, (T0334)S358.CB) [> 4.4956 = 7.4927 < 9.7406] w=0.0271 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)I346.CB) [> 4.2751 = 7.1251 < 9.2626] w=0.0271 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)T348.CB) [> 4.6763 = 7.7939 < 10.1320] w=0.0247 to align # Constraint # added constraint: constraint((T0334)I346.CB, (T0334)I361.CB) [> 4.2052 = 7.0086 < 9.1112] w=0.0237 to align # Constraint # added constraint: constraint((T0334)G295.CA, (T0334)S350.CB) [> 3.9109 = 6.5181 < 8.4736] w=0.0237 to align # Constraint # added constraint: constraint((T0334)M436.CB, (T0334)R509.CB) [> 3.1041 = 5.1736 < 6.7256] w=0.0237 to align # Constraint # added constraint: constraint((T0334)M436.CB, (T0334)Q510.CB) [> 3.9762 = 6.6270 < 8.6151] w=0.0237 to align # Constraint # added constraint: constraint((T0334)A439.CB, (T0334)V502.CB) [> 4.6434 = 7.7389 < 10.0606] w=0.0237 to align # Constraint # added constraint: constraint((T0334)T135.CB, (T0334)Y362.CB) [> 3.1842 = 5.3070 < 6.8991] w=0.0237 to align # Constraint # added constraint: constraint((T0334)F402.CB, (T0334)M441.CB) [> 4.0475 = 6.7459 < 8.7696] w=0.0237 to align # Constraint # added constraint: constraint((T0334)M288.CB, (T0334)T348.CB) [> 2.9134 = 4.8556 < 6.3123] w=0.0237 to align # Constraint # added constraint: constraint((T0334)S448.CB, (T0334)N457.CB) [> 4.0824 = 6.8041 < 8.8453] w=0.0237 to align # Constraint # added constraint: constraint((T0334)Y437.CB, (T0334)Y471.CB) [> 3.6581 = 6.0969 < 7.9260] w=0.0237 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)V344.CB) [> 4.3316 = 7.2193 < 9.3851] w=0.0237 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)S349.CB) [> 3.7822 = 6.3037 < 8.1948] w=0.0237 to align # Constraint # added constraint: constraint((T0334)D222.CB, (T0334)S345.CB) [> 3.9471 = 6.5784 < 8.5520] w=0.0237 to align # Constraint # added constraint: constraint((T0334)F179.CB, (T0334)W282.CB) [> 3.7794 = 6.2989 < 8.1886] w=0.0237 to align # Constraint # added constraint: constraint((T0334)C343.CB, (T0334)E357.CB) [> 4.6510 = 7.7517 < 10.0772] w=0.0237 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)T359.CB) [> 4.7616 = 7.9360 < 10.3169] w=0.0237 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)E357.CB) [> 3.6150 = 6.0251 < 7.8326] w=0.0237 to align # Constraint # added constraint: constraint((T0334)I276.CB, (T0334)R412.CB) [> 4.6432 = 7.7387 < 10.0604] w=0.0237 to align # Constraint # added constraint: constraint((T0334)F402.CB, (T0334)M430.CB) [> 4.5304 = 7.5507 < 9.8159] w=0.0237 to align # Constraint # added constraint: constraint((T0334)P156.CB, (T0334)S274.CB) [> 3.4501 = 5.7501 < 7.4751] w=0.0237 to align # Constraint # added constraint: constraint((T0334)D33.CB, (T0334)N75.CB) [> 4.3776 = 7.2960 < 9.4848] w=0.0237 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)I208.CB) [> 3.7193 = 6.1988 < 8.0584] w=0.0237 to align # Constraint # added constraint: constraint((T0334)G440.CA, (T0334)P485.CB) [> 4.0613 = 6.7688 < 8.7995] w=0.0237 to align # Constraint # added constraint: constraint((T0334)G440.CA, (T0334)A484.CB) [> 3.3577 = 5.5961 < 7.2750] w=0.0237 to align # Constraint # added constraint: constraint((T0334)F60.CB, (T0334)T359.CB) [> 3.9082 = 6.5137 < 8.4677] w=0.0237 to align # Constraint # added constraint: constraint((T0334)F60.CB, (T0334)S358.CB) [> 2.6702 = 4.4503 < 5.7854] w=0.0237 to align # Constraint # added constraint: constraint((T0334)H406.CB, (T0334)S498.CB) [> 3.2381 = 5.3969 < 7.0159] w=0.0237 to align # Constraint # added constraint: constraint((T0334)R212.CB, (T0334)L384.CB) [> 3.0592 = 5.0987 < 6.6283] w=0.0237 to align # Constraint # added constraint: constraint((T0334)F409.CB, (T0334)V506.CB) [> 3.7030 = 6.1717 < 8.0233] w=0.0237 to align # Constraint # added constraint: constraint((T0334)R412.CB, (T0334)R488.CB) [> 2.8984 = 4.8308 < 6.2800] w=0.0237 to align # Constraint # added constraint: constraint((T0334)D140.CB, (T0334)E270.CB) [> 4.2353 = 7.0588 < 9.1765] w=0.0237 to align # Constraint # added constraint: constraint((T0334)N166.CB, (T0334)L524.CB) [> 4.7257 = 7.8762 < 10.2390] w=0.0237 to align # Constraint # added constraint: constraint((T0334)L159.CB, (T0334)L524.CB) [> 2.7602 = 4.6003 < 5.9804] w=0.0237 to align # Constraint # added constraint: constraint((T0334)R158.CB, (T0334)H521.CB) [> 2.9646 = 4.9409 < 6.4232] w=0.0237 to align # Constraint # added constraint: constraint((T0334)L150.CB, (T0334)L520.CB) [> 3.5019 = 5.8366 < 7.5875] w=0.0237 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)S358.CB) [> 3.6628 = 6.1047 < 7.9361] w=0.0237 to align # Constraint # added constraint: constraint((T0334)A76.CB, (T0334)D172.CB) [> 3.7283 = 6.2139 < 8.0781] w=0.0237 to align # Constraint # added constraint: constraint((T0334)N468.CB, (T0334)V499.CB) [> 3.4023 = 5.6705 < 7.3716] w=0.0237 to align # Constraint # added constraint: constraint((T0334)F409.CB, (T0334)K433.CB) [> 3.1402 = 5.2337 < 6.8038] w=0.0237 to align # Constraint # added constraint: constraint((T0334)D253.CB, (T0334)Y408.CB) [> 4.6354 = 7.7257 < 10.0434] w=0.0237 to align # Constraint # added constraint: constraint((T0334)A405.CB, (T0334)V506.CB) [> 3.4387 = 5.7311 < 7.4504] w=0.0237 to align # Constraint # added constraint: constraint((T0334)R412.CB, (T0334)V506.CB) [> 4.6728 = 7.7880 < 10.1244] w=0.0237 to align # Constraint # added constraint: constraint((T0334)T89.CB, (T0334)G341.CA) [> 4.5239 = 7.5398 < 9.8018] w=0.0236 to align # Constraint # added constraint: constraint((T0334)N86.CB, (T0334)L234.CB) [> 3.7546 = 6.2576 < 8.1349] w=0.0236 to align # Constraint # added constraint: constraint((T0334)H262.CB, (T0334)M288.CB) [> 3.5309 = 5.8848 < 7.6502] w=0.0236 to align # Constraint # added constraint: constraint((T0334)S123.CB, (T0334)P138.CB) [> 3.1145 = 5.1909 < 6.7481] w=0.0236 to align # Constraint # added constraint: constraint((T0334)L36.CB, (T0334)P138.CB) [> 2.9613 = 4.9354 < 6.4161] w=0.0236 to align # Constraint # added constraint: constraint((T0334)T348.CB, (T0334)E357.CB) [> 4.5428 = 7.5714 < 9.8428] w=0.0236 to align # Constraint # added constraint: constraint((T0334)R334.CB, (T0334)S345.CB) [> 3.6561 = 6.0935 < 7.9215] w=0.0236 to align # Constraint # added constraint: constraint((T0334)H117.CB, (T0334)E354.CB) [> 4.2655 = 7.1091 < 9.2419] w=0.0236 to align # Constraint # added constraint: constraint((T0334)D172.CB, (T0334)V344.CB) [> 4.0369 = 6.7281 < 8.7465] w=0.0220 to align # Constraint # added constraint: constraint((T0334)A173.CB, (T0334)V344.CB) [> 3.3747 = 5.6244 < 7.3118] w=0.0220 to align # Constraint # added constraint: constraint((T0334)F179.CB, (T0334)I346.CB) [> 3.6344 = 6.0574 < 7.8746] w=0.0220 to align # Constraint # added constraint: constraint((T0334)K285.CB, (T0334)C343.CB) [> 4.1081 = 6.8468 < 8.9009] w=0.0212 to align # Constraint # added constraint: constraint((T0334)K285.CB, (T0334)V344.CB) [> 2.7707 = 4.6178 < 6.0031] w=0.0212 to align # Constraint # added constraint: constraint((T0334)K285.CB, (T0334)S345.CB) [> 4.4130 = 7.3550 < 9.5615] w=0.0212 to align # Constraint # added constraint: constraint((T0334)D172.CB, (T0334)T294.CB) [> 4.3634 = 7.2723 < 9.4540] w=0.0196 to align # Constraint # added constraint: constraint((T0334)G295.CA, (T0334)S345.CB) [> 4.0643 = 6.7739 < 8.8061] w=0.0177 to align # Constraint # added constraint: constraint((T0334)L478.CB, (T0334)A495.CB) [> 4.6283 = 7.7138 < 10.0280] w=0.0177 to align # Constraint # added constraint: constraint((T0334)F402.CB, (T0334)A442.CB) [> 4.3774 = 7.2957 < 9.4844] w=0.0177 to align # Constraint # added constraint: constraint((T0334)G295.CA, (T0334)S349.CB) [> 3.6936 = 6.1560 < 8.0028] w=0.0177 to align # Constraint # added constraint: constraint((T0334)F417.CB, (T0334)M430.CB) [> 3.8460 = 6.4100 < 8.3330] w=0.0177 to align # Constraint # added constraint: constraint((T0334)I85.CB, (T0334)S358.CB) [> 3.8246 = 6.3743 < 8.2866] w=0.0177 to align # Constraint # added constraint: constraint((T0334)I85.CB, (T0334)E357.CB) [> 4.0715 = 6.7857 < 8.8215] w=0.0177 to align # Constraint # added constraint: constraint((T0334)T348.CB, (T0334)I361.CB) [> 4.4473 = 7.4122 < 9.6359] w=0.0177 to align # Constraint # added constraint: constraint((T0334)M288.CB, (T0334)T359.CB) [> 3.6969 = 6.1615 < 8.0099] w=0.0177 to align # Constraint # added constraint: constraint((T0334)L36.CB, (T0334)C227.CB) [> 4.5888 = 7.6480 < 9.9423] w=0.0177 to align # Constraint # added constraint: constraint((T0334)K433.CB, (T0334)Y471.CB) [> 3.9597 = 6.5995 < 8.5794] w=0.0177 to align # Constraint # added constraint: constraint((T0334)A405.CB, (T0334)L475.CB) [> 4.4917 = 7.4862 < 9.7321] w=0.0177 to align # Constraint # added constraint: constraint((T0334)F402.CB, (T0334)Y471.CB) [> 4.4608 = 7.4346 < 9.6650] w=0.0177 to align # Constraint # added constraint: constraint((T0334)M395.CB, (T0334)F462.CB) [> 4.0198 = 6.6997 < 8.7097] w=0.0177 to align # Constraint # added constraint: constraint((T0334)Y437.CB, (T0334)E459.CB) [> 3.6270 = 6.0450 < 7.8584] w=0.0177 to align # Constraint # added constraint: constraint((T0334)A173.CB, (T0334)K285.CB) [> 4.1307 = 6.8845 < 8.9499] w=0.0177 to align # Constraint # added constraint: constraint((T0334)Y437.CB, (T0334)F458.CB) [> 3.7977 = 6.3296 < 8.2284] w=0.0177 to align # Constraint # added constraint: constraint((T0334)V148.CB, (T0334)D172.CB) [> 3.8311 = 6.3852 < 8.3007] w=0.0177 to align # Constraint # added constraint: constraint((T0334)A97.CB, (T0334)V200.CB) [> 4.5936 = 7.6559 < 9.9527] w=0.0177 to align # Constraint # added constraint: constraint((T0334)L234.CB, (T0334)I434.CB) [> 4.2165 = 7.0275 < 9.1358] w=0.0177 to align # Constraint # added constraint: constraint((T0334)L234.CB, (T0334)K433.CB) [> 3.9700 = 6.6167 < 8.6017] w=0.0177 to align # Constraint # added constraint: constraint((T0334)F409.CB, (T0334)L480.CB) [> 3.1022 = 5.1704 < 6.7215] w=0.0177 to align # Constraint # added constraint: constraint((T0334)Y369.CB, (T0334)F458.CB) [> 4.1618 = 6.9363 < 9.0171] w=0.0177 to align # Constraint # added constraint: constraint((T0334)N54.CB, (T0334)N470.CB) [> 4.3675 = 7.2792 < 9.4630] w=0.0177 to align # Constraint # added constraint: constraint((T0334)V225.CB, (T0334)S349.CB) [> 3.4419 = 5.7365 < 7.4574] w=0.0177 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)F179.CB) [> 3.0665 = 5.1108 < 6.6440] w=0.0177 to align # Constraint # added constraint: constraint((T0334)M441.CB, (T0334)V506.CB) [> 3.1011 = 5.1685 < 6.7190] w=0.0177 to align # Constraint # added constraint: constraint((T0334)M441.CB, (T0334)F503.CB) [> 4.2637 = 7.1062 < 9.2380] w=0.0177 to align # Constraint # added constraint: constraint((T0334)M441.CB, (T0334)V502.CB) [> 4.5540 = 7.5900 < 9.8670] w=0.0177 to align # Constraint # added constraint: constraint((T0334)G440.CA, (T0334)V506.CB) [> 2.8810 = 4.8017 < 6.2422] w=0.0177 to align # Constraint # added constraint: constraint((T0334)G440.CA, (T0334)F503.CB) [> 4.1201 = 6.8668 < 8.9268] w=0.0177 to align # Constraint # added constraint: constraint((T0334)F402.CB, (T0334)F458.CB) [> 4.5038 = 7.5064 < 9.7583] w=0.0177 to align # Constraint # added constraint: constraint((T0334)D172.CB, (T0334)V256.CB) [> 4.4865 = 7.4775 < 9.7207] w=0.0177 to align # Constraint # added constraint: constraint((T0334)A27.CB, (T0334)F62.CB) [> 4.5746 = 7.6244 < 9.9117] w=0.0177 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)S349.CB) [> 4.7947 = 7.9911 < 10.3884] w=0.0177 to align # Constraint # added constraint: constraint((T0334)A173.CB, (T0334)L356.CB) [> 2.9163 = 4.8605 < 6.3186] w=0.0177 to align # Constraint # added constraint: constraint((T0334)L325.CB, (T0334)I346.CB) [> 2.9690 = 4.9483 < 6.4328] w=0.0177 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)S345.CB) [> 4.3065 = 7.1775 < 9.3307] w=0.0177 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)S358.CB) [> 3.9498 = 6.5830 < 8.5580] w=0.0177 to align # Constraint # added constraint: constraint((T0334)A173.CB, (T0334)M288.CB) [> 4.5620 = 7.6033 < 9.8843] w=0.0177 to align # Constraint # added constraint: constraint((T0334)F302.CB, (T0334)F417.CB) [> 2.4028 = 4.0047 < 5.2061] w=0.0177 to align # Constraint # added constraint: constraint((T0334)M288.CB, (T0334)I346.CB) [> 4.0263 = 6.7105 < 8.7237] w=0.0177 to align # Constraint # added constraint: constraint((T0334)K285.CB, (T0334)S350.CB) [> 3.6631 = 6.1051 < 7.9367] w=0.0177 to align # Constraint # added constraint: constraint((T0334)K285.CB, (T0334)S349.CB) [> 3.9202 = 6.5337 < 8.4938] w=0.0177 to align # Constraint # added constraint: constraint((T0334)R412.CB, (T0334)N421.CB) [> 4.7164 = 7.8607 < 10.2190] w=0.0177 to align # Constraint # added constraint: constraint((T0334)Y408.CB, (T0334)L426.CB) [> 3.9920 = 6.6533 < 8.6494] w=0.0177 to align # Constraint # added constraint: constraint((T0334)Y408.CB, (T0334)L424.CB) [> 3.1184 = 5.1972 < 6.7564] w=0.0177 to align # Constraint # added constraint: constraint((T0334)Y408.CB, (T0334)N421.CB) [> 3.5950 = 5.9916 < 7.7891] w=0.0177 to align # Constraint # added constraint: constraint((T0334)A405.CB, (T0334)I434.CB) [> 4.1601 = 6.9335 < 9.0136] w=0.0177 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)A427.CB) [> 4.6154 = 7.6923 < 10.0001] w=0.0177 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)L426.CB) [> 4.5522 = 7.5870 < 9.8631] w=0.0177 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)L424.CB) [> 3.6057 = 6.0095 < 7.8123] w=0.0177 to align # Constraint # added constraint: constraint((T0334)S280.CB, (T0334)F417.CB) [> 2.4770 = 4.1283 < 5.3668] w=0.0177 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)N421.CB) [> 3.9080 = 6.5133 < 8.4673] w=0.0177 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)A420.CB) [> 3.5834 = 5.9724 < 7.7641] w=0.0177 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)F417.CB) [> 4.0621 = 6.7701 < 8.8012] w=0.0177 to align # Constraint # added constraint: constraint((T0334)K285.CB, (T0334)I361.CB) [> 4.0981 = 6.8302 < 8.8793] w=0.0177 to align # Constraint # added constraint: constraint((T0334)E137.CB, (T0334)T165.CB) [> 4.3319 = 7.2199 < 9.3859] w=0.0177 to align # Constraint # added constraint: constraint((T0334)C343.CB, (T0334)F363.CB) [> 4.2644 = 7.1074 < 9.2396] w=0.0177 to align # Constraint # added constraint: constraint((T0334)I443.CB, (T0334)Y472.CB) [> 4.2522 = 7.0870 < 9.2132] w=0.0177 to align # Constraint # added constraint: constraint((T0334)I443.CB, (T0334)Y471.CB) [> 3.1374 = 5.2290 < 6.7977] w=0.0177 to align # Constraint # added constraint: constraint((T0334)Y141.CB, (T0334)N166.CB) [> 3.1446 = 5.2410 < 6.8134] w=0.0177 to align # Constraint # added constraint: constraint((T0334)C227.CB, (T0334)F363.CB) [> 4.7989 = 7.9982 < 10.3976] w=0.0177 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)E357.CB) [> 4.5700 = 7.6166 < 9.9016] w=0.0177 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)C343.CB) [> 4.1044 = 6.8406 < 8.8928] w=0.0177 to align # Constraint # added constraint: constraint((T0334)I443.CB, (T0334)G479.CA) [> 3.4059 = 5.6764 < 7.3794] w=0.0177 to align # Constraint # added constraint: constraint((T0334)P138.CB, (T0334)Y362.CB) [> 3.3117 = 5.5196 < 7.1754] w=0.0177 to align # Constraint # added constraint: constraint((T0334)G440.CA, (T0334)L480.CB) [> 4.2912 = 7.1520 < 9.2976] w=0.0177 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)I434.CB) [> 2.7524 = 4.5874 < 5.9636] w=0.0177 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)I434.CB) [> 3.9088 = 6.5147 < 8.4691] w=0.0177 to align # Constraint # added constraint: constraint((T0334)Y167.CB, (T0334)L514.CB) [> 3.8070 = 6.3451 < 8.2486] w=0.0177 to align # Constraint # added constraint: constraint((T0334)L159.CB, (T0334)D500.CB) [> 4.4109 = 7.3515 < 9.5570] w=0.0177 to align # Constraint # added constraint: constraint((T0334)S358.CB, (T0334)L513.CB) [> 4.1843 = 6.9738 < 9.0660] w=0.0177 to align # Constraint # added constraint: constraint((T0334)R334.CB, (T0334)A366.CB) [> 4.3264 = 7.2106 < 9.3738] w=0.0177 to align # Constraint # added constraint: constraint((T0334)A204.CB, (T0334)C343.CB) [> 4.3124 = 7.1873 < 9.3435] w=0.0177 to align # Constraint # added constraint: constraint((T0334)C143.CB, (T0334)Q510.CB) [> 3.0599 = 5.0998 < 6.6297] w=0.0177 to align # Constraint # added constraint: constraint((T0334)C143.CB, (T0334)K507.CB) [> 4.3157 = 7.1929 < 9.3508] w=0.0177 to align # Constraint # added constraint: constraint((T0334)R412.CB, (T0334)A484.CB) [> 3.6074 = 6.0123 < 7.8159] w=0.0177 to align # Constraint # added constraint: constraint((T0334)T413.CB, (T0334)P487.CB) [> 3.0626 = 5.1043 < 6.6355] w=0.0177 to align # Constraint # added constraint: constraint((T0334)F409.CB, (T0334)R488.CB) [> 4.6555 = 7.7592 < 10.0870] w=0.0177 to align # Constraint # added constraint: constraint((T0334)V148.CB, (T0334)L356.CB) [> 3.9871 = 6.6451 < 8.6387] w=0.0177 to align # Constraint # added constraint: constraint((T0334)V148.CB, (T0334)E357.CB) [> 3.0193 = 5.0322 < 6.5419] w=0.0177 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)T348.CB) [> 4.6359 = 7.7266 < 10.0445] w=0.0177 to align # Constraint # added constraint: constraint((T0334)W466.CB, (T0334)V499.CB) [> 2.6953 = 4.4921 < 5.8397] w=0.0177 to align # Constraint # added constraint: constraint((T0334)P53.CB, (T0334)N470.CB) [> 3.8784 = 6.4640 < 8.4032] w=0.0177 to align # Constraint # added constraint: constraint((T0334)Y369.CB, (T0334)Y454.CB) [> 4.6093 = 7.6821 < 9.9867] w=0.0177 to align # Constraint # added constraint: constraint((T0334)Y369.CB, (T0334)Y455.CB) [> 4.3364 = 7.2274 < 9.3956] w=0.0177 to align # Constraint # added constraint: constraint((T0334)L234.CB, (T0334)N252.CB) [> 3.8100 = 6.3501 < 8.2551] w=0.0177 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)T348.CB) [> 4.1280 = 6.8801 < 8.9441] w=0.0177 to align # Constraint # added constraint: constraint((T0334)L100.CB, (T0334)K285.CB) [> 4.3297 = 7.2162 < 9.3811] w=0.0177 to align # Constraint # added constraint: constraint((T0334)W418.CB, (T0334)G429.CA) [> 4.0157 = 6.6928 < 8.7006] w=0.0177 to align # Constraint # added constraint: constraint((T0334)W418.CB, (T0334)M430.CB) [> 3.5178 = 5.8630 < 7.6219] w=0.0177 to align # Constraint # added constraint: constraint((T0334)F409.CB, (T0334)L517.CB) [> 4.6632 = 7.7719 < 10.1035] w=0.0177 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)I346.CB) [> 4.7416 = 7.9027 < 10.2735] w=0.0177 to align # Constraint # added constraint: constraint((T0334)Q38.CB, (T0334)P138.CB) [> 4.5479 = 7.5798 < 9.8537] w=0.0177 to align # Constraint # added constraint: constraint((T0334)D33.CB, (T0334)E137.CB) [> 4.4884 = 7.4807 < 9.7249] w=0.0177 to align # Constraint # added constraint: constraint((T0334)V148.CB, (T0334)L223.CB) [> 3.9220 = 6.5367 < 8.4977] w=0.0177 to align # Constraint # added constraint: constraint((T0334)L150.CB, (T0334)V225.CB) [> 3.7908 = 6.3179 < 8.2133] w=0.0177 to align # Constraint # added constraint: constraint((T0334)N166.CB, (T0334)D226.CB) [> 4.5372 = 7.5620 < 9.8306] w=0.0177 to align # Constraint # added constraint: constraint((T0334)S349.CB, (T0334)Y365.CB) [> 4.2259 = 7.0431 < 9.1561] w=0.0177 to align # Constraint # added constraint: constraint((T0334)P261.CB, (T0334)T294.CB) [> 2.6113 = 4.3522 < 5.6578] w=0.0177 to align # Constraint # added constraint: constraint((T0334)D172.CB, (T0334)H262.CB) [> 3.9927 = 6.6545 < 8.6509] w=0.0177 to align # Constraint # added constraint: constraint((T0334)K285.CB, (T0334)R334.CB) [> 3.7068 = 6.1781 < 8.0315] w=0.0176 to align # Constraint # added constraint: constraint((T0334)N444.CB, (T0334)G456.CA) [> 3.5062 = 5.8436 < 7.5967] w=0.0161 to align # Constraint # added constraint: constraint((T0334)L356.CB, (T0334)Y365.CB) [> 3.6956 = 6.1593 < 8.0072] w=0.0161 to align # Constraint # added constraint: constraint((T0334)M441.CB, (T0334)V474.CB) [> 3.9831 = 6.6385 < 8.6300] w=0.0118 to align # Constraint # added constraint: constraint((T0334)A445.CB, (T0334)L480.CB) [> 3.9126 = 6.5210 < 8.4773] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L356.CB, (T0334)A366.CB) [> 4.2758 = 7.1264 < 9.2643] w=0.0118 to align # Constraint # added constraint: constraint((T0334)E354.CB, (T0334)Q370.CB) [> 4.2417 = 7.0694 < 9.1903] w=0.0118 to align # Constraint # added constraint: constraint((T0334)E354.CB, (T0334)A366.CB) [> 4.1733 = 6.9555 < 9.0422] w=0.0118 to align # Constraint # added constraint: constraint((T0334)P446.CB, (T0334)P482.CB) [> 3.9389 = 6.5648 < 8.5343] w=0.0118 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)R334.CB) [> 3.4064 = 5.6773 < 7.3804] w=0.0118 to align # Constraint # added constraint: constraint((T0334)R129.CB, (T0334)L489.CB) [> 3.9858 = 6.6430 < 8.6360] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L325.CB, (T0334)S349.CB) [> 3.7733 = 6.2889 < 8.1756] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L325.CB, (T0334)S350.CB) [> 3.9304 = 6.5507 < 8.5159] w=0.0118 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)P261.CB) [> 3.3345 = 5.5575 < 7.2248] w=0.0118 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)L250.CB) [> 4.0406 = 6.7343 < 8.7546] w=0.0118 to align # Constraint # added constraint: constraint((T0334)C473.CB, (T0334)V499.CB) [> 3.0596 = 5.0993 < 6.6290] w=0.0118 to align # Constraint # added constraint: constraint((T0334)C473.CB, (T0334)T496.CB) [> 4.2396 = 7.0661 < 9.1859] w=0.0118 to align # Constraint # added constraint: constraint((T0334)C473.CB, (T0334)A495.CB) [> 4.5625 = 7.6042 < 9.8855] w=0.0118 to align # Constraint # added constraint: constraint((T0334)Y472.CB, (T0334)V502.CB) [> 4.2963 = 7.1605 < 9.3086] w=0.0118 to align # Constraint # added constraint: constraint((T0334)Y472.CB, (T0334)V499.CB) [> 2.1672 = 3.6120 < 4.6956] w=0.0118 to align # Constraint # added constraint: constraint((T0334)Y472.CB, (T0334)T496.CB) [> 3.9148 = 6.5247 < 8.4822] w=0.0118 to align # Constraint # added constraint: constraint((T0334)Y437.CB, (T0334)Y472.CB) [> 2.9794 = 4.9657 < 6.4554] w=0.0118 to align # Constraint # added constraint: constraint((T0334)D226.CB, (T0334)L250.CB) [> 4.2838 = 7.1396 < 9.2815] w=0.0118 to align # Constraint # added constraint: constraint((T0334)D172.CB, (T0334)I346.CB) [> 4.2101 = 7.0168 < 9.1219] w=0.0118 to align # Constraint # added constraint: constraint((T0334)M441.CB, (T0334)Q452.CB) [> 4.6766 = 7.7944 < 10.1327] w=0.0118 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)S345.CB) [> 4.5901 = 7.6501 < 9.9451] w=0.0118 to align # Constraint # added constraint: constraint((T0334)P416.CB, (T0334)G477.CA) [> 3.7541 = 6.2568 < 8.1338] w=0.0118 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)H109.CB) [> 4.3003 = 7.1671 < 9.3172] w=0.0118 to align # Constraint # added constraint: constraint((T0334)A445.CB, (T0334)Y455.CB) [> 4.5198 = 7.5331 < 9.7930] w=0.0118 to align # Constraint # added constraint: constraint((T0334)N444.CB, (T0334)Y454.CB) [> 4.2364 = 7.0607 < 9.1789] w=0.0118 to align # Constraint # added constraint: constraint((T0334)I443.CB, (T0334)F458.CB) [> 4.3780 = 7.2967 < 9.4857] w=0.0118 to align # Constraint # added constraint: constraint((T0334)I443.CB, (T0334)N457.CB) [> 3.7462 = 6.2437 < 8.1168] w=0.0118 to align # Constraint # added constraint: constraint((T0334)I443.CB, (T0334)G456.CA) [> 2.5882 = 4.3137 < 5.6079] w=0.0118 to align # Constraint # added constraint: constraint((T0334)S350.CB, (T0334)Y365.CB) [> 2.9850 = 4.9750 < 6.4675] w=0.0118 to align # Constraint # added constraint: constraint((T0334)I346.CB, (T0334)Y365.CB) [> 3.8234 = 6.3724 < 8.2840] w=0.0118 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)F402.CB) [> 4.2788 = 7.1314 < 9.2708] w=0.0118 to align # Constraint # added constraint: constraint((T0334)N444.CB, (T0334)M492.CB) [> 4.4277 = 7.3795 < 9.5933] w=0.0118 to align # Constraint # added constraint: constraint((T0334)S350.CB, (T0334)A366.CB) [> 4.6243 = 7.7071 < 10.0193] w=0.0118 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)F179.CB) [> 4.5124 = 7.5206 < 9.7768] w=0.0118 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)S274.CB) [> 3.4877 = 5.8129 < 7.5567] w=0.0118 to align # Constraint # added constraint: constraint((T0334)R231.CB, (T0334)V474.CB) [> 3.8935 = 6.4893 < 8.4360] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L234.CB, (T0334)V474.CB) [> 3.8520 = 6.4201 < 8.3461] w=0.0118 to align # Constraint # added constraint: constraint((T0334)G440.CA, (T0334)A451.CB) [> 4.1424 = 6.9041 < 8.9753] w=0.0118 to align # Constraint # added constraint: constraint((T0334)G295.CA, (T0334)S358.CB) [> 4.4728 = 7.4547 < 9.6911] w=0.0118 to align # Constraint # added constraint: constraint((T0334)D33.CB, (T0334)D222.CB) [> 4.2977 = 7.1628 < 9.3116] w=0.0118 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)T348.CB) [> 4.6567 = 7.7612 < 10.0895] w=0.0118 to align # Constraint # added constraint: constraint((T0334)S345.CB, (T0334)F402.CB) [> 3.4002 = 5.6670 < 7.3672] w=0.0118 to align # Constraint # added constraint: constraint((T0334)C343.CB, (T0334)F402.CB) [> 2.4280 = 4.0466 < 5.2606] w=0.0118 to align # Constraint # added constraint: constraint((T0334)G295.CA, (T0334)E357.CB) [> 4.5587 = 7.5978 < 9.8772] w=0.0118 to align # Constraint # added constraint: constraint((T0334)K285.CB, (T0334)L356.CB) [> 3.6457 = 6.0762 < 7.8991] w=0.0118 to align # Constraint # added constraint: constraint((T0334)F409.CB, (T0334)N468.CB) [> 3.1251 = 5.2084 < 6.7710] w=0.0118 to align # Constraint # added constraint: constraint((T0334)F409.CB, (T0334)W466.CB) [> 3.0504 = 5.0840 < 6.6092] w=0.0118 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)S350.CB) [> 4.5941 = 7.6568 < 9.9539] w=0.0118 to align # Constraint # added constraint: constraint((T0334)N54.CB, (T0334)L480.CB) [> 3.9207 = 6.5345 < 8.4949] w=0.0118 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)S349.CB) [> 4.5152 = 7.5253 < 9.7829] w=0.0118 to align # Constraint # added constraint: constraint((T0334)R412.CB, (T0334)L480.CB) [> 3.8567 = 6.4278 < 8.3562] w=0.0118 to align # Constraint # added constraint: constraint((T0334)S345.CB, (T0334)Q370.CB) [> 3.9939 = 6.6565 < 8.6535] w=0.0118 to align # Constraint # added constraint: constraint((T0334)H262.CB, (T0334)N470.CB) [> 2.2174 = 3.6957 < 4.8045] w=0.0118 to align # Constraint # added constraint: constraint((T0334)H262.CB, (T0334)L475.CB) [> 3.6913 = 6.1521 < 7.9978] w=0.0118 to align # Constraint # added constraint: constraint((T0334)H262.CB, (T0334)A476.CB) [> 4.1512 = 6.9187 < 8.9943] w=0.0118 to align # Constraint # added constraint: constraint((T0334)H262.CB, (T0334)G477.CA) [> 4.6139 = 7.6898 < 9.9967] w=0.0118 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)T348.CB) [> 2.6042 = 4.3404 < 5.6425] w=0.0118 to align # Constraint # added constraint: constraint((T0334)H262.CB, (T0334)W466.CB) [> 2.3800 = 3.9666 < 5.1566] w=0.0118 to align # Constraint # added constraint: constraint((T0334)P261.CB, (T0334)A476.CB) [> 4.4455 = 7.4092 < 9.6320] w=0.0118 to align # Constraint # added constraint: constraint((T0334)P261.CB, (T0334)L475.CB) [> 3.2673 = 5.4455 < 7.0792] w=0.0118 to align # Constraint # added constraint: constraint((T0334)P261.CB, (T0334)C473.CB) [> 4.3530 = 7.2550 < 9.4315] w=0.0118 to align # Constraint # added constraint: constraint((T0334)P261.CB, (T0334)N470.CB) [> 3.3862 = 5.6436 < 7.3367] w=0.0118 to align # Constraint # added constraint: constraint((T0334)V260.CB, (T0334)S469.CB) [> 3.1257 = 5.2095 < 6.7724] w=0.0118 to align # Constraint # added constraint: constraint((T0334)V260.CB, (T0334)F465.CB) [> 3.7678 = 6.2797 < 8.1636] w=0.0118 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)R438.CB) [> 4.4704 = 7.4506 < 9.6858] w=0.0118 to align # Constraint # added constraint: constraint((T0334)F402.CB, (T0334)L426.CB) [> 3.1483 = 5.2472 < 6.8214] w=0.0118 to align # Constraint # added constraint: constraint((T0334)S469.CB, (T0334)V499.CB) [> 4.1747 = 6.9579 < 9.0452] w=0.0118 to align # Constraint # added constraint: constraint((T0334)F465.CB, (T0334)V506.CB) [> 3.7478 = 6.2464 < 8.1203] w=0.0118 to align # Constraint # added constraint: constraint((T0334)F465.CB, (T0334)F503.CB) [> 4.7451 = 7.9085 < 10.2811] w=0.0118 to align # Constraint # added constraint: constraint((T0334)E461.CB, (T0334)Q510.CB) [> 4.0669 = 6.7782 < 8.8116] w=0.0118 to align # Constraint # added constraint: constraint((T0334)E461.CB, (T0334)V506.CB) [> 4.0135 = 6.6892 < 8.6960] w=0.0118 to align # Constraint # added constraint: constraint((T0334)Y454.CB, (T0334)R509.CB) [> 3.5634 = 5.9391 < 7.7208] w=0.0118 to align # Constraint # added constraint: constraint((T0334)F402.CB, (T0334)L453.CB) [> 3.3932 = 5.6553 < 7.3519] w=0.0118 to align # Constraint # added constraint: constraint((T0334)T294.CB, (T0334)S350.CB) [> 3.0429 = 5.0716 < 6.5931] w=0.0118 to align # Constraint # added constraint: constraint((T0334)T294.CB, (T0334)S349.CB) [> 3.3224 = 5.5374 < 7.1986] w=0.0118 to align # Constraint # added constraint: constraint((T0334)T294.CB, (T0334)S345.CB) [> 2.9976 = 4.9960 < 6.4948] w=0.0118 to align # Constraint # added constraint: constraint((T0334)T213.CB, (T0334)T399.CB) [> 3.2748 = 5.4580 < 7.0953] w=0.0118 to align # Constraint # added constraint: constraint((T0334)D172.CB, (T0334)S358.CB) [> 4.1493 = 6.9155 < 8.9901] w=0.0118 to align # Constraint # added constraint: constraint((T0334)D172.CB, (T0334)E357.CB) [> 4.1407 = 6.9011 < 8.9715] w=0.0118 to align # Constraint # added constraint: constraint((T0334)I276.CB, (T0334)A427.CB) [> 4.0420 = 6.7367 < 8.7577] w=0.0118 to align # Constraint # added constraint: constraint((T0334)I276.CB, (T0334)Y454.CB) [> 4.5258 = 7.5430 < 9.8059] w=0.0118 to align # Constraint # added constraint: constraint((T0334)I276.CB, (T0334)A490.CB) [> 4.2066 = 7.0110 < 9.1143] w=0.0118 to align # Constraint # added constraint: constraint((T0334)I276.CB, (T0334)M492.CB) [> 4.0420 = 6.7367 < 8.7577] w=0.0118 to align # Constraint # added constraint: constraint((T0334)T359.CB, (T0334)F465.CB) [> 3.7459 = 6.2431 < 8.1161] w=0.0118 to align # Constraint # added constraint: constraint((T0334)T359.CB, (T0334)M441.CB) [> 3.7971 = 6.3284 < 8.2269] w=0.0118 to align # Constraint # added constraint: constraint((T0334)S358.CB, (T0334)F465.CB) [> 4.6245 = 7.7075 < 10.0197] w=0.0118 to align # Constraint # added constraint: constraint((T0334)S358.CB, (T0334)M441.CB) [> 4.6554 = 7.7591 < 10.0868] w=0.0118 to align # Constraint # added constraint: constraint((T0334)E357.CB, (T0334)M441.CB) [> 2.6480 = 4.4133 < 5.7373] w=0.0118 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)F458.CB) [> 4.2488 = 7.0813 < 9.2057] w=0.0118 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)Y454.CB) [> 4.3738 = 7.2896 < 9.4765] w=0.0118 to align # Constraint # added constraint: constraint((T0334)V481.CB, (T0334)H491.CB) [> 3.2363 = 5.3938 < 7.0119] w=0.0118 to align # Constraint # added constraint: constraint((T0334)V481.CB, (T0334)M492.CB) [> 4.1688 = 6.9481 < 9.0325] w=0.0118 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)S358.CB) [> 3.1861 = 5.3101 < 6.9031] w=0.0118 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)S358.CB) [> 3.1478 = 5.2463 < 6.8203] w=0.0118 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)T359.CB) [> 3.1549 = 5.2581 < 6.8356] w=0.0118 to align # Constraint # added constraint: constraint((T0334)N54.CB, (T0334)F458.CB) [> 4.0018 = 6.6696 < 8.6705] w=0.0118 to align # Constraint # added constraint: constraint((T0334)F402.CB, (T0334)G440.CA) [> 4.1227 = 6.8711 < 8.9324] w=0.0118 to align # Constraint # added constraint: constraint((T0334)H406.CB, (T0334)Y454.CB) [> 4.5242 = 7.5403 < 9.8024] w=0.0118 to align # Constraint # added constraint: constraint((T0334)A405.CB, (T0334)N457.CB) [> 3.3270 = 5.5450 < 7.2085] w=0.0118 to align # Constraint # added constraint: constraint((T0334)F402.CB, (T0334)N457.CB) [> 3.3831 = 5.6386 < 7.3301] w=0.0118 to align # Constraint # added constraint: constraint((T0334)R98.CB, (T0334)F458.CB) [> 3.8482 = 6.4137 < 8.3379] w=0.0118 to align # Constraint # added constraint: constraint((T0334)K83.CB, (T0334)F458.CB) [> 4.5332 = 7.5554 < 9.8220] w=0.0118 to align # Constraint # added constraint: constraint((T0334)M288.CB, (T0334)L524.CB) [> 4.7415 = 7.9025 < 10.2733] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L325.CB, (T0334)T348.CB) [> 3.4264 = 5.7107 < 7.4240] w=0.0118 to align # Constraint # added constraint: constraint((T0334)I276.CB, (T0334)E357.CB) [> 4.2586 = 7.0976 < 9.2269] w=0.0118 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)I361.CB) [> 3.6928 = 6.1546 < 8.0010] w=0.0118 to align # Constraint # added constraint: constraint((T0334)E270.CB, (T0334)L520.CB) [> 4.2912 = 7.1519 < 9.2975] w=0.0118 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)E357.CB) [> 1.9987 = 3.3312 < 4.3305] w=0.0118 to align # Constraint # added constraint: constraint((T0334)S410.CB, (T0334)L478.CB) [> 3.4364 = 5.7274 < 7.4456] w=0.0118 to align # Constraint # added constraint: constraint((T0334)P411.CB, (T0334)L478.CB) [> 3.9444 = 6.5739 < 8.5461] w=0.0118 to align # Constraint # added constraint: constraint((T0334)R438.CB, (T0334)P482.CB) [> 3.3996 = 5.6660 < 7.3658] w=0.0118 to align # Constraint # added constraint: constraint((T0334)G440.CA, (T0334)P482.CB) [> 2.3087 = 3.8478 < 5.0022] w=0.0118 to align # Constraint # added constraint: constraint((T0334)G440.CA, (T0334)S486.CB) [> 3.3005 = 5.5008 < 7.1510] w=0.0118 to align # Constraint # added constraint: constraint((T0334)M441.CB, (T0334)S486.CB) [> 4.1523 = 6.9206 < 8.9968] w=0.0118 to align # Constraint # added constraint: constraint((T0334)D398.CB, (T0334)L513.CB) [> 4.7168 = 7.8613 < 10.2197] w=0.0118 to align # Constraint # added constraint: constraint((T0334)Q370.CB, (T0334)F462.CB) [> 4.7134 = 7.8557 < 10.2124] w=0.0118 to align # Constraint # added constraint: constraint((T0334)Y369.CB, (T0334)F462.CB) [> 4.5021 = 7.5035 < 9.7545] w=0.0118 to align # Constraint # added constraint: constraint((T0334)A366.CB, (T0334)F462.CB) [> 3.7602 = 6.2670 < 8.1470] w=0.0118 to align # Constraint # added constraint: constraint((T0334)C343.CB, (T0334)E354.CB) [> 4.4529 = 7.4215 < 9.6480] w=0.0118 to align # Constraint # added constraint: constraint((T0334)F409.CB, (T0334)L478.CB) [> 3.0497 = 5.0828 < 6.6077] w=0.0118 to align # Constraint # added constraint: constraint((T0334)F409.CB, (T0334)L475.CB) [> 3.6028 = 6.0047 < 7.8061] w=0.0118 to align # Constraint # added constraint: constraint((T0334)F409.CB, (T0334)V474.CB) [> 4.5794 = 7.6323 < 9.9220] w=0.0118 to align # Constraint # added constraint: constraint((T0334)H406.CB, (T0334)V474.CB) [> 3.5554 = 5.9257 < 7.7034] w=0.0118 to align # Constraint # added constraint: constraint((T0334)A405.CB, (T0334)T496.CB) [> 3.3346 = 5.5577 < 7.2250] w=0.0118 to align # Constraint # added constraint: constraint((T0334)A405.CB, (T0334)V474.CB) [> 3.8505 = 6.4174 < 8.3427] w=0.0118 to align # Constraint # added constraint: constraint((T0334)A405.CB, (T0334)Y471.CB) [> 4.5201 = 7.5335 < 9.7935] w=0.0118 to align # Constraint # added constraint: constraint((T0334)F402.CB, (T0334)V474.CB) [> 4.6059 = 7.6765 < 9.9795] w=0.0118 to align # Constraint # added constraint: constraint((T0334)F402.CB, (T0334)N470.CB) [> 4.4202 = 7.3671 < 9.5772] w=0.0118 to align # Constraint # added constraint: constraint((T0334)Y108.CB, (T0334)V474.CB) [> 3.7455 = 6.2425 < 8.1152] w=0.0118 to align # Constraint # added constraint: constraint((T0334)F107.CB, (T0334)C473.CB) [> 4.0693 = 6.7821 < 8.8168] w=0.0118 to align # Constraint # added constraint: constraint((T0334)A173.CB, (T0334)S358.CB) [> 3.7259 = 6.2098 < 8.0727] w=0.0118 to align # Constraint # added constraint: constraint((T0334)D128.CB, (T0334)P485.CB) [> 2.8787 = 4.7978 < 6.2372] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)H262.CB) [> 3.7074 = 6.1791 < 8.0328] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)E459.CB) [> 3.9611 = 6.6018 < 8.5824] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)L325.CB) [> 4.5785 = 7.6309 < 9.9201] w=0.0118 to align # Constraint # added constraint: constraint((T0334)M1.CB, (T0334)F219.CB) [> 3.8883 = 6.4805 < 8.4247] w=0.0118 to align # Constraint # added constraint: constraint((T0334)M1.CB, (T0334)T35.CB) [> 4.7086 = 7.8477 < 10.2020] w=0.0118 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)C343.CB) [> 4.1364 = 6.8940 < 8.9621] w=0.0118 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)S274.CB) [> 4.4895 = 7.4825 < 9.7272] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L325.CB, (T0334)S345.CB) [> 3.9944 = 6.6574 < 8.6546] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L325.CB, (T0334)V344.CB) [> 4.0177 = 6.6961 < 8.7049] w=0.0118 to align # Constraint # added constraint: constraint((T0334)C74.CB, (T0334)K187.CB) [> 4.2404 = 7.0673 < 9.1875] w=0.0118 to align # Constraint # added constraint: constraint((T0334)S2.CB, (T0334)F219.CB) [> 3.9846 = 6.6410 < 8.6334] w=0.0118 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)F363.CB) [> 4.1490 = 6.9150 < 8.9895] w=0.0118 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)A366.CB) [> 3.4047 = 5.6746 < 7.3769] w=0.0118 to align # Constraint # added constraint: constraint((T0334)R334.CB, (T0334)E354.CB) [> 2.8573 = 4.7621 < 6.1908] w=0.0118 to align # Constraint # added constraint: constraint((T0334)S349.CB, (T0334)Y362.CB) [> 2.9343 = 4.8905 < 6.3576] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)C343.CB) [> 3.5779 = 5.9631 < 7.7521] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)Q431.CB) [> 4.0397 = 6.7329 < 8.7527] w=0.0118 to align # Constraint # added constraint: constraint((T0334)M441.CB, (T0334)R488.CB) [> 3.5052 = 5.8421 < 7.5947] w=0.0118 to align # Constraint # added constraint: constraint((T0334)M441.CB, (T0334)P485.CB) [> 4.1188 = 6.8646 < 8.9240] w=0.0118 to align # Constraint # added constraint: constraint((T0334)G440.CA, (T0334)R488.CB) [> 2.7257 = 4.5429 < 5.9058] w=0.0118 to align # Constraint # added constraint: constraint((T0334)G440.CA, (T0334)P487.CB) [> 4.5492 = 7.5820 < 9.8566] w=0.0118 to align # Constraint # added constraint: constraint((T0334)Y437.CB, (T0334)R488.CB) [> 4.3806 = 7.3011 < 9.4914] w=0.0118 to align # Constraint # added constraint: constraint((T0334)Q38.CB, (T0334)C227.CB) [> 4.7911 = 7.9852 < 10.3808] w=0.0118 to align # Constraint # added constraint: constraint((T0334)F402.CB, (T0334)V506.CB) [> 3.4686 = 5.7809 < 7.5152] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L223.CB, (T0334)V372.CB) [> 3.4133 = 5.6888 < 7.3955] w=0.0118 to align # Constraint # added constraint: constraint((T0334)K7.CB, (T0334)F503.CB) [> 3.4933 = 5.8221 < 7.5687] w=0.0118 to align # Constraint # added constraint: constraint((T0334)A476.CB, (T0334)P485.CB) [> 4.0837 = 6.8063 < 8.8481] w=0.0118 to align # Constraint # added constraint: constraint((T0334)I8.CB, (T0334)F503.CB) [> 4.2745 = 7.1241 < 9.2614] w=0.0118 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)L517.CB) [> 4.5250 = 7.5416 < 9.8041] w=0.0118 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)L517.CB) [> 3.3940 = 5.6567 < 7.3537] w=0.0118 to align # Constraint # added constraint: constraint((T0334)W18.CB, (T0334)L517.CB) [> 2.8124 = 4.6874 < 6.0936] w=0.0118 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)T516.CB) [> 4.3920 = 7.3199 < 9.5159] w=0.0118 to align # Constraint # added constraint: constraint((T0334)C227.CB, (T0334)I361.CB) [> 4.3814 = 7.3023 < 9.4930] w=0.0118 to align # Constraint # added constraint: constraint((T0334)A484.CB, (T0334)V506.CB) [> 4.1637 = 6.9395 < 9.0213] w=0.0118 to align # Constraint # added constraint: constraint((T0334)R412.CB, (T0334)V481.CB) [> 3.9955 = 6.6592 < 8.6570] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L356.CB, (T0334)F409.CB) [> 4.6497 = 7.7496 < 10.0744] w=0.0118 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)F409.CB) [> 2.8392 = 4.7320 < 6.1516] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)R412.CB) [> 3.2621 = 5.4368 < 7.0678] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)F409.CB) [> 4.4364 = 7.3941 < 9.6123] w=0.0118 to align # Constraint # added constraint: constraint((T0334)I52.CB, (T0334)H528.CB) [> 3.7880 = 6.3134 < 8.2074] w=0.0118 to align # Constraint # added constraint: constraint((T0334)P53.CB, (T0334)H528.CB) [> 3.9773 = 6.6289 < 8.6175] w=0.0118 to align # Constraint # added constraint: constraint((T0334)A168.CB, (T0334)H528.CB) [> 3.5513 = 5.9188 < 7.6944] w=0.0118 to align # Constraint # added constraint: constraint((T0334)Y167.CB, (T0334)H528.CB) [> 3.9344 = 6.5573 < 8.5245] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)S358.CB) [> 4.2471 = 7.0786 < 9.2021] w=0.0118 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)L325.CB) [> 3.1190 = 5.1983 < 6.7579] w=0.0118 to align # Constraint # added constraint: constraint((T0334)T51.CB, (T0334)G477.CA) [> 3.7298 = 6.2164 < 8.0813] w=0.0118 to align # Constraint # added constraint: constraint((T0334)T51.CB, (T0334)Y471.CB) [> 4.7464 = 7.9107 < 10.2839] w=0.0118 to align # Constraint # added constraint: constraint((T0334)E49.CB, (T0334)L478.CB) [> 4.3052 = 7.1753 < 9.3279] w=0.0118 to align # Constraint # added constraint: constraint((T0334)N54.CB, (T0334)A447.CB) [> 4.6884 = 7.8140 < 10.1582] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L55.CB, (T0334)A451.CB) [> 4.3168 = 7.1946 < 9.3530] w=0.0118 to align # Constraint # added constraint: constraint((T0334)A366.CB, (T0334)Y455.CB) [> 4.5454 = 7.5756 < 9.8483] w=0.0118 to align # Constraint # added constraint: constraint((T0334)A366.CB, (T0334)Y454.CB) [> 3.5161 = 5.8602 < 7.6182] w=0.0118 to align # Constraint # added constraint: constraint((T0334)Y365.CB, (T0334)Y455.CB) [> 4.2347 = 7.0578 < 9.1751] w=0.0118 to align # Constraint # added constraint: constraint((T0334)T348.CB, (T0334)Y362.CB) [> 4.7872 = 7.9787 < 10.3723] w=0.0118 to align # Constraint # added constraint: constraint((T0334)Y455.CB, (T0334)S469.CB) [> 4.0918 = 6.8196 < 8.8655] w=0.0118 to align # Constraint # added constraint: constraint((T0334)L234.CB, (T0334)L251.CB) [> 3.9091 = 6.5152 < 8.4698] w=0.0118 to align # Constraint # added constraint: constraint((T0334)Y167.CB, (T0334)L475.CB) [> 3.8939 = 6.4898 < 8.4368] w=0.0118 to align # Constraint # added constraint: constraint((T0334)R412.CB, (T0334)Q431.CB) [> 3.3666 = 5.6109 < 7.2942] w=0.0118 to align # Constraint # added constraint: constraint((T0334)K4.CB, (T0334)D222.CB) [> 3.7767 = 6.2945 < 8.1829] w=0.0118 to align # Constraint # added constraint: constraint((T0334)I34.CB, (T0334)K187.CB) [> 4.5823 = 7.6372 < 9.9283] w=0.0118 to align # Constraint # added constraint: constraint((T0334)P261.CB, (T0334)G295.CA) [> 3.7888 = 6.3147 < 8.2091] w=0.0117 to align # Constraint # added constraint: constraint((T0334)A173.CB, (T0334)H262.CB) [> 3.4390 = 5.7317 < 7.4512] w=0.0117 to align # Constraint # added constraint: constraint((T0334)L325.CB, (T0334)C343.CB) [> 3.9474 = 6.5789 < 8.5526] w=0.0117 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)G295.CA) [> 3.6752 = 6.1253 < 7.9630] w=0.0117 to align # Constraint # added constraint: constraint((T0334)M441.CB, (T0334)G456.CA) [> 3.1284 = 5.2139 < 6.7781] w=0.0102 to align # Constraint # added constraint: constraint((T0334)A442.CB, (T0334)G456.CA) [> 3.3222 = 5.5370 < 7.1981] w=0.0102 to align # Constraint # added constraint: constraint((T0334)Y141.CB, (T0334)G189.CA) [> 4.0558 = 6.7596 < 8.7875] w=0.0094 to align # Constraint # added constraint: constraint((T0334)S345.CB, (T0334)I361.CB) [> 4.6459 = 7.7432 < 10.0662] w=0.0094 to align # Constraint # added constraint: constraint((T0334)V197.CB, (T0334)L250.CB) [> 3.2861 = 5.4769 < 7.1199] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)L251.CB) [> 4.4867 = 7.4778 < 9.7211] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)N252.CB) [> 3.3304 = 5.5507 < 7.2159] w=0.0059 to align # Constraint # added constraint: constraint((T0334)F407.CB, (T0334)G529.CA) [> 4.7973 = 7.9955 < 10.3941] w=0.0059 to align # Constraint # added constraint: constraint((T0334)I10.CB, (T0334)S349.CB) [> 4.6308 = 7.7179 < 10.0333] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)L250.CB) [> 4.5055 = 7.5092 < 9.7619] w=0.0059 to align # Constraint # added constraint: constraint((T0334)D226.CB, (T0334)T294.CB) [> 4.2389 = 7.0647 < 9.1842] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S349.CB, (T0334)I361.CB) [> 4.7387 = 7.8979 < 10.2673] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S349.CB, (T0334)Q370.CB) [> 4.5997 = 7.6662 < 9.9660] w=0.0059 to align # Constraint # added constraint: constraint((T0334)E357.CB, (T0334)A366.CB) [> 3.6596 = 6.0993 < 7.9291] w=0.0059 to align # Constraint # added constraint: constraint((T0334)A476.CB, (T0334)M492.CB) [> 4.2908 = 7.1514 < 9.2968] w=0.0059 to align # Constraint # added constraint: constraint((T0334)G440.CA, (T0334)L489.CB) [> 3.8046 = 6.3410 < 8.2433] w=0.0059 to align # Constraint # added constraint: constraint((T0334)M441.CB, (T0334)A484.CB) [> 4.4199 = 7.3665 < 9.5764] w=0.0059 to align # Constraint # added constraint: constraint((T0334)M441.CB, (T0334)L489.CB) [> 3.2454 = 5.4090 < 7.0317] w=0.0059 to align # Constraint # added constraint: constraint((T0334)A445.CB, (T0334)N457.CB) [> 4.3987 = 7.3311 < 9.5304] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L475.CB, (T0334)M492.CB) [> 4.1550 = 6.9249 < 9.0024] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V225.CB, (T0334)V256.CB) [> 4.7472 = 7.9120 < 10.2857] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S358.CB, (T0334)L489.CB) [> 3.5938 = 5.9896 < 7.7865] w=0.0059 to align # Constraint # added constraint: constraint((T0334)E354.CB, (T0334)V506.CB) [> 4.1064 = 6.8440 < 8.8972] w=0.0059 to align # Constraint # added constraint: constraint((T0334)T415.CB, (T0334)A476.CB) [> 2.8598 = 4.7664 < 6.1963] w=0.0059 to align # Constraint # added constraint: constraint((T0334)T415.CB, (T0334)G477.CA) [> 3.3681 = 5.6135 < 7.2975] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L424.CB, (T0334)G477.CA) [> 4.2833 = 7.1389 < 9.2806] w=0.0059 to align # Constraint # added constraint: constraint((T0334)Y437.CB, (T0334)G456.CA) [> 3.7550 = 6.2583 < 8.1357] w=0.0059 to align # Constraint # added constraint: constraint((T0334)R412.CB, (T0334)C473.CB) [> 4.5510 = 7.5850 < 9.8605] w=0.0059 to align # Constraint # added constraint: constraint((T0334)R412.CB, (T0334)V474.CB) [> 2.9503 = 4.9172 < 6.3923] w=0.0059 to align # Constraint # added constraint: constraint((T0334)D414.CB, (T0334)G477.CA) [> 4.3291 = 7.2152 < 9.3798] w=0.0059 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)T348.CB) [> 3.3184 = 5.5306 < 7.1898] w=0.0059 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)S349.CB) [> 4.4837 = 7.4729 < 9.7148] w=0.0059 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)S350.CB) [> 3.9590 = 6.5984 < 8.5779] w=0.0059 to align # Constraint # added constraint: constraint((T0334)C343.CB, (T0334)L520.CB) [> 4.2124 = 7.0206 < 9.1268] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S2.CB, (T0334)D33.CB) [> 4.2247 = 7.0411 < 9.1535] w=0.0059 to align # Constraint # added constraint: constraint((T0334)M19.CB, (T0334)C227.CB) [> 4.7597 = 7.9329 < 10.3128] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)S350.CB) [> 4.7227 = 7.8712 < 10.2325] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)I276.CB) [> 4.1724 = 6.9540 < 9.0402] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L175.CB, (T0334)K187.CB) [> 4.1395 = 6.8991 < 8.9688] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V218.CB, (T0334)P416.CB) [> 2.8263 = 4.7104 < 6.1235] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V218.CB, (T0334)F417.CB) [> 4.7383 = 7.8972 < 10.2664] w=0.0059 to align # Constraint # added constraint: constraint((T0334)D222.CB, (T0334)R412.CB) [> 3.9077 = 6.5128 < 8.4667] w=0.0059 to align # Constraint # added constraint: constraint((T0334)F179.CB, (T0334)E357.CB) [> 4.5299 = 7.5498 < 9.8147] w=0.0059 to align # Constraint # added constraint: constraint((T0334)F179.CB, (T0334)I361.CB) [> 4.5048 = 7.5080 < 9.7604] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L325.CB, (T0334)T359.CB) [> 4.7867 = 7.9779 < 10.3712] w=0.0059 to align # Constraint # added constraint: constraint((T0334)R334.CB, (T0334)C343.CB) [> 3.2399 = 5.3998 < 7.0198] w=0.0059 to align # Constraint # added constraint: constraint((T0334)R334.CB, (T0334)A447.CB) [> 3.4951 = 5.8252 < 7.5728] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)Y362.CB) [> 4.7502 = 7.9170 < 10.2921] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S345.CB, (T0334)Y362.CB) [> 4.3757 = 7.2928 < 9.4807] w=0.0059 to align # Constraint # added constraint: constraint((T0334)I346.CB, (T0334)Y362.CB) [> 2.7184 = 4.5306 < 5.8898] w=0.0059 to align # Constraint # added constraint: constraint((T0334)D172.CB, (T0334)Y362.CB) [> 2.5675 = 4.2791 < 5.5628] w=0.0059 to align # Constraint # added constraint: constraint((T0334)F179.CB, (T0334)V344.CB) [> 3.0055 = 5.0092 < 6.5119] w=0.0059 to align # Constraint # added constraint: constraint((T0334)K285.CB, (T0334)Y362.CB) [> 2.8133 = 4.6889 < 6.0955] w=0.0059 to align # Constraint # added constraint: constraint((T0334)K285.CB, (T0334)F363.CB) [> 4.4001 = 7.3336 < 9.5337] w=0.0059 to align # Constraint # added constraint: constraint((T0334)K285.CB, (T0334)S358.CB) [> 4.4071 = 7.3451 < 9.5486] w=0.0059 to align # Constraint # added constraint: constraint((T0334)I276.CB, (T0334)L325.CB) [> 3.7731 = 6.2886 < 8.1751] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L325.CB, (T0334)E354.CB) [> 4.0647 = 6.7745 < 8.8068] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L234.CB, (T0334)S350.CB) [> 4.1913 = 6.9856 < 9.0813] w=0.0059 to align # Constraint # added constraint: constraint((T0334)R412.CB, (T0334)P487.CB) [> 4.6120 = 7.6867 < 9.9928] w=0.0059 to align # Constraint # added constraint: constraint((T0334)T294.CB, (T0334)R334.CB) [> 4.1146 = 6.8577 < 8.9150] w=0.0059 to align # Constraint # added constraint: constraint((T0334)G295.CA, (T0334)R334.CB) [> 4.2431 = 7.0718 < 9.1934] w=0.0059 to align # Constraint # added constraint: constraint((T0334)A173.CB, (T0334)G295.CA) [> 4.5921 = 7.6535 < 9.9495] w=0.0059 to align # Constraint # added constraint: constraint((T0334)T294.CB, (T0334)T348.CB) [> 3.9132 = 6.5219 < 8.4785] w=0.0059 to align # Constraint # added constraint: constraint((T0334)H262.CB, (T0334)R334.CB) [> 4.6028 = 7.6713 < 9.9727] w=0.0059 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)T294.CB) [> 4.6586 = 7.7644 < 10.0937] w=0.0059 to align # Constraint # added constraint: constraint((T0334)G440.CA, (T0334)L475.CB) [> 4.7092 = 7.8487 < 10.2033] w=0.0059 to align # Constraint # added constraint: constraint((T0334)M441.CB, (T0334)L475.CB) [> 3.1903 = 5.3172 < 6.9124] w=0.0059 to align # Constraint # added constraint: constraint((T0334)I434.CB, (T0334)A476.CB) [> 4.0548 = 6.7580 < 8.7853] w=0.0059 to align # Constraint # added constraint: constraint((T0334)P485.CB, (T0334)F503.CB) [> 2.4714 = 4.1191 < 5.3548] w=0.0059 to align # Constraint # added constraint: constraint((T0334)P487.CB, (T0334)V499.CB) [> 4.6803 = 7.8005 < 10.1407] w=0.0059 to align # Constraint # added constraint: constraint((T0334)A451.CB, (T0334)F462.CB) [> 3.6671 = 6.1119 < 7.9454] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L453.CB, (T0334)F462.CB) [> 4.4387 = 7.3978 < 9.6171] w=0.0059 to align # Constraint # added constraint: constraint((T0334)Y455.CB, (T0334)Y472.CB) [> 4.1569 = 6.9282 < 9.0067] w=0.0059 to align # Constraint # added constraint: constraint((T0334)Y455.CB, (T0334)L475.CB) [> 3.0170 = 5.0284 < 6.5369] w=0.0059 to align # Constraint # added constraint: constraint((T0334)Y455.CB, (T0334)A476.CB) [> 3.2425 = 5.4042 < 7.0255] w=0.0059 to align # Constraint # added constraint: constraint((T0334)F462.CB, (T0334)Y472.CB) [> 4.0777 = 6.7962 < 8.8350] w=0.0059 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)I346.CB) [> 4.3474 = 7.2456 < 9.4193] w=0.0059 to align # Constraint # added constraint: constraint((T0334)H262.CB, (T0334)T359.CB) [> 4.5302 = 7.5503 < 9.8154] w=0.0059 to align # Constraint # added constraint: constraint((T0334)I276.CB, (T0334)F363.CB) [> 2.4485 = 4.0808 < 5.3051] w=0.0059 to align # Constraint # added constraint: constraint((T0334)D128.CB, (T0334)P487.CB) [> 4.0999 = 6.8331 < 8.8831] w=0.0059 to align # Constraint # added constraint: constraint((T0334)D128.CB, (T0334)R488.CB) [> 4.7877 = 7.9795 < 10.3734] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L234.CB, (T0334)F402.CB) [> 4.0607 = 6.7679 < 8.7982] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L234.CB, (T0334)L475.CB) [> 2.8507 = 4.7511 < 6.1765] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V197.CB, (T0334)I276.CB) [> 3.5379 = 5.8965 < 7.6654] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)I276.CB) [> 3.1394 = 5.2323 < 6.8021] w=0.0059 to align # Constraint # added constraint: constraint((T0334)D226.CB, (T0334)I276.CB) [> 4.6614 = 7.7690 < 10.0997] w=0.0059 to align # Constraint # added constraint: constraint((T0334)K79.CB, (T0334)G529.CA) [> 4.2298 = 7.0498 < 9.1647] w=0.0059 to align # Constraint # added constraint: constraint((T0334)I82.CB, (T0334)G529.CA) [> 4.5889 = 7.6482 < 9.9426] w=0.0059 to align # Constraint # added constraint: constraint((T0334)F409.CB, (T0334)A420.CB) [> 2.2948 = 3.8246 < 4.9720] w=0.0059 to align # Constraint # added constraint: constraint((T0334)F417.CB, (T0334)A427.CB) [> 3.8449 = 6.4082 < 8.3307] w=0.0059 to align # Constraint # added constraint: constraint((T0334)F402.CB, (T0334)Y472.CB) [> 3.5799 = 5.9665 < 7.7565] w=0.0059 to align # Constraint # added constraint: constraint((T0334)F402.CB, (T0334)L475.CB) [> 3.5401 = 5.9001 < 7.6701] w=0.0059 to align # Constraint # added constraint: constraint((T0334)D253.CB, (T0334)G477.CA) [> 3.7942 = 6.3236 < 8.2207] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)C473.CB) [> 4.7548 = 7.9247 < 10.3022] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)V474.CB) [> 3.3082 = 5.5137 < 7.1678] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)L475.CB) [> 4.6586 = 7.7643 < 10.0936] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)G477.CA) [> 2.5842 = 4.3071 < 5.5992] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)M441.CB) [> 4.5815 = 7.6358 < 9.9266] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)A442.CB) [> 4.4713 = 7.4522 < 9.6878] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V256.CB, (T0334)V474.CB) [> 4.0258 = 6.7097 < 8.7226] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)M441.CB) [> 4.6266 = 7.7111 < 10.0244] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)A442.CB) [> 4.4334 = 7.3890 < 9.6057] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)C473.CB) [> 3.3582 = 5.5970 < 7.2761] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)E357.CB) [> 3.9384 = 6.5640 < 8.5332] w=0.0059 to align # Constraint # added constraint: constraint((T0334)F111.CB, (T0334)G456.CA) [> 4.1051 = 6.8418 < 8.8944] w=0.0059 to align # Constraint # added constraint: constraint((T0334)H109.CB, (T0334)V474.CB) [> 3.6586 = 6.0977 < 7.9269] w=0.0059 to align # Constraint # added constraint: constraint((T0334)Y108.CB, (T0334)A476.CB) [> 4.2471 = 7.0786 < 9.2022] w=0.0059 to align # Constraint # added constraint: constraint((T0334)H109.CB, (T0334)G456.CA) [> 3.9008 = 6.5014 < 8.4518] w=0.0059 to align # Constraint # added constraint: constraint((T0334)H109.CB, (T0334)N457.CB) [> 4.1636 = 6.9393 < 9.0211] w=0.0059 to align # Constraint # added constraint: constraint((T0334)D128.CB, (T0334)S486.CB) [> 4.7142 = 7.8570 < 10.2141] w=0.0059 to align # Constraint # added constraint: constraint((T0334)C143.CB, (T0334)A476.CB) [> 4.5020 = 7.5034 < 9.7544] w=0.0059 to align # Constraint # added constraint: constraint((T0334)H124.CB, (T0334)S486.CB) [> 3.1140 = 5.1900 < 6.7470] w=0.0059 to align # Constraint # added constraint: constraint((T0334)D101.CB, (T0334)P446.CB) [> 3.7107 = 6.1845 < 8.0398] w=0.0059 to align # Constraint # added constraint: constraint((T0334)C343.CB, (T0334)L489.CB) [> 3.7656 = 6.2760 < 8.1588] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)S358.CB) [> 4.2869 = 7.1449 < 9.2884] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)I361.CB) [> 3.6200 = 6.0333 < 7.8432] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)L489.CB) [> 2.5263 = 4.2105 < 5.4736] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S345.CB, (T0334)L489.CB) [> 3.4485 = 5.7476 < 7.4718] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S345.CB, (T0334)H491.CB) [> 3.2315 = 5.3859 < 7.0017] w=0.0059 to align # Constraint # added constraint: constraint((T0334)I346.CB, (T0334)L489.CB) [> 2.4011 = 4.0018 < 5.2023] w=0.0059 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)G440.CA) [> 4.6704 = 7.7840 < 10.1192] w=0.0059 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)M441.CB) [> 2.9629 = 4.9383 < 6.4197] w=0.0059 to align # Constraint # added constraint: constraint((T0334)G440.CA, (T0334)C473.CB) [> 4.0861 = 6.8102 < 8.8533] w=0.0059 to align # Constraint # added constraint: constraint((T0334)A445.CB, (T0334)G456.CA) [> 3.6044 = 6.0073 < 7.8095] w=0.0059 to align # Constraint # added constraint: constraint((T0334)E460.CB, (T0334)L475.CB) [> 3.9490 = 6.5817 < 8.5562] w=0.0059 to align # Constraint # added constraint: constraint((T0334)F363.CB, (T0334)A427.CB) [> 3.8733 = 6.4554 < 8.3920] w=0.0059 to align # Constraint # added constraint: constraint((T0334)A366.CB, (T0334)A484.CB) [> 4.4274 = 7.3789 < 9.5926] w=0.0059 to align # Constraint # added constraint: constraint((T0334)Y369.CB, (T0334)R412.CB) [> 4.5663 = 7.6105 < 9.8937] w=0.0059 to align # Constraint # added constraint: constraint((T0334)Y369.CB, (T0334)A484.CB) [> 4.5757 = 7.6262 < 9.9141] w=0.0059 to align # Constraint # added constraint: constraint((T0334)Q370.CB, (T0334)R412.CB) [> 3.3097 = 5.5161 < 7.1709] w=0.0059 to align # Constraint # added constraint: constraint((T0334)T348.CB, (T0334)Q370.CB) [> 4.7267 = 7.8779 < 10.2413] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L356.CB, (T0334)A427.CB) [> 4.5464 = 7.5773 < 9.8505] w=0.0059 to align # Constraint # added constraint: constraint((T0334)T359.CB, (T0334)Y369.CB) [> 4.2519 = 7.0866 < 9.2126] w=0.0059 to align # Constraint # added constraint: constraint((T0334)G161.CA, (T0334)D220.CB) [> 4.7681 = 7.9468 < 10.3308] w=0.0059 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)H262.CB) [> 3.7377 = 6.2295 < 8.0983] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)Y455.CB) [> 3.4048 = 5.6747 < 7.3772] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)G456.CA) [> 4.7401 = 7.9001 < 10.2701] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)H262.CB) [> 4.4981 = 7.4968 < 9.7458] w=0.0059 to align # Constraint # added constraint: constraint((T0334)I276.CB, (T0334)S358.CB) [> 2.4671 = 4.1118 < 5.3453] w=0.0059 to align # Constraint # added constraint: constraint((T0334)I276.CB, (T0334)I361.CB) [> 3.4258 = 5.7097 < 7.4226] w=0.0059 to align # Constraint # added constraint: constraint((T0334)I276.CB, (T0334)A442.CB) [> 4.5268 = 7.5447 < 9.8081] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)Y362.CB) [> 4.1033 = 6.8388 < 8.8905] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)Y365.CB) [> 3.1313 = 5.2188 < 6.7844] w=0.0059 to align # Constraint # added constraint: constraint((T0334)D172.CB, (T0334)S274.CB) [> 4.4481 = 7.4135 < 9.6376] w=0.0059 to align # Constraint # added constraint: constraint((T0334)D172.CB, (T0334)S349.CB) [> 4.5125 = 7.5209 < 9.7771] w=0.0059 to align # Constraint # added constraint: constraint((T0334)A173.CB, (T0334)S349.CB) [> 4.5125 = 7.5209 < 9.7771] w=0.0059 to align # Constraint # added constraint: constraint((T0334)A173.CB, (T0334)E354.CB) [> 3.2467 = 5.4111 < 7.0345] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)H249.CB) [> 3.3816 = 5.6360 < 7.3267] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V225.CB, (T0334)Y365.CB) [> 4.0974 = 6.8291 < 8.8778] w=0.0059 to align # Constraint # added constraint: constraint((T0334)D226.CB, (T0334)H249.CB) [> 4.2436 = 7.0727 < 9.1946] w=0.0059 to align # Constraint # added constraint: constraint((T0334)D172.CB, (T0334)R334.CB) [> 3.6040 = 6.0067 < 7.8087] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V11.CB, (T0334)D195.CB) [> 4.4566 = 7.4276 < 9.6559] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)L325.CB) [> 1.9101 = 3.1835 < 4.1386] w=0.0059 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)N252.CB) [> 2.7192 = 4.5320 < 5.8916] w=0.0059 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)S254.CB) [> 4.1856 = 6.9759 < 9.0687] w=0.0059 to align # Constraint # added constraint: constraint((T0334)N252.CB, (T0334)S274.CB) [> 3.7461 = 6.2434 < 8.1165] w=0.0059 to align # Constraint # added constraint: constraint((T0334)P261.CB, (T0334)E460.CB) [> 3.2108 = 5.3513 < 6.9567] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)P261.CB) [> 3.0967 = 5.1612 < 6.7096] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)A442.CB) [> 4.3040 = 7.1733 < 9.3253] w=0.0059 to align # Constraint # added constraint: constraint((T0334)R334.CB, (T0334)S349.CB) [> 4.3491 = 7.2485 < 9.4231] w=0.0059 to align # Constraint # added constraint: constraint((T0334)G13.CA, (T0334)T185.CB) [> 4.5594 = 7.5990 < 9.8787] w=0.0059 to align # Constraint # added constraint: constraint((T0334)F179.CB, (T0334)S254.CB) [> 4.3411 = 7.2351 < 9.4057] w=0.0059 to align # Constraint # added constraint: constraint((T0334)I276.CB, (T0334)L475.CB) [> 4.5934 = 7.6557 < 9.9525] w=0.0059 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)C473.CB) [> 4.7378 = 7.8963 < 10.2651] w=0.0059 to align # Constraint # added constraint: constraint((T0334)P261.CB, (T0334)K285.CB) [> 3.5248 = 5.8748 < 7.6372] w=0.0059 to align # Constraint # added constraint: constraint((T0334)M1.CB, (T0334)L223.CB) [> 4.0595 = 6.7658 < 8.7955] w=0.0059 to align # Constraint # added constraint: constraint((T0334)T15.CB, (T0334)E354.CB) [> 3.2129 = 5.3548 < 6.9613] w=0.0059 to align # Constraint # added constraint: constraint((T0334)I276.CB, (T0334)F409.CB) [> 4.4624 = 7.4373 < 9.6685] w=0.0059 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)V372.CB) [> 4.2220 = 7.0366 < 9.1476] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S349.CB, (T0334)V372.CB) [> 4.6102 = 7.6836 < 9.9887] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)S358.CB) [> 4.5461 = 7.5769 < 9.8499] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V200.CB, (T0334)I346.CB) [> 4.1843 = 6.9738 < 9.0659] w=0.0059 to align # Constraint # added constraint: constraint((T0334)A173.CB, (T0334)Y365.CB) [> 3.8430 = 6.4049 < 8.3264] w=0.0059 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)S349.CB) [> 4.3811 = 7.3019 < 9.4925] w=0.0059 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)S350.CB) [> 4.3811 = 7.3019 < 9.4925] w=0.0059 to align # Constraint # added constraint: constraint((T0334)A16.CB, (T0334)E357.CB) [> 4.7298 = 7.8830 < 10.2479] w=0.0059 to align # Constraint # added constraint: constraint((T0334)N54.CB, (T0334)C473.CB) [> 4.2849 = 7.1415 < 9.2840] w=0.0059 to align # Constraint # added constraint: constraint((T0334)K7.CB, (T0334)S123.CB) [> 3.1194 = 5.1989 < 6.7586] w=0.0059 to align # Constraint # added constraint: constraint((T0334)Q370.CB, (T0334)F402.CB) [> 2.7752 = 4.6253 < 6.0128] w=0.0059 to align # Constraint # added constraint: constraint((T0334)Q370.CB, (T0334)M441.CB) [> 4.7119 = 7.8532 < 10.2091] w=0.0059 to align # Constraint # added constraint: constraint((T0334)T359.CB, (T0334)F409.CB) [> 3.3900 = 5.6501 < 7.3451] w=0.0059 to align # Constraint # added constraint: constraint((T0334)Y362.CB, (T0334)F409.CB) [> 3.8347 = 6.3912 < 8.3085] w=0.0059 to align # Constraint # added constraint: constraint((T0334)F363.CB, (T0334)F409.CB) [> 3.9325 = 6.5541 < 8.5203] w=0.0059 to align # Constraint # added constraint: constraint((T0334)F363.CB, (T0334)M441.CB) [> 3.4675 = 5.7792 < 7.5129] w=0.0059 to align # Constraint # added constraint: constraint((T0334)A366.CB, (T0334)F402.CB) [> 3.8945 = 6.4908 < 8.4381] w=0.0059 to align # Constraint # added constraint: constraint((T0334)A366.CB, (T0334)F409.CB) [> 4.6823 = 7.8038 < 10.1449] w=0.0059 to align # Constraint # added constraint: constraint((T0334)A366.CB, (T0334)M441.CB) [> 3.8061 = 6.3436 < 8.2467] w=0.0059 to align # Constraint # added constraint: constraint((T0334)G295.CA, (T0334)L356.CB) [> 4.1508 = 6.9180 < 8.9934] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S350.CB, (T0334)M441.CB) [> 4.6239 = 7.7065 < 10.0185] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S254.CB, (T0334)A366.CB) [> 4.7594 = 7.9324 < 10.3121] w=0.0059 to align # Constraint # added constraint: constraint((T0334)T348.CB, (T0334)Y365.CB) [> 3.6985 = 6.1642 < 8.0134] w=0.0059 to align # Constraint # added constraint: constraint((T0334)S274.CB, (T0334)E354.CB) [> 4.7847 = 7.9745 < 10.3669] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)F409.CB) [> 3.2126 = 5.3543 < 6.9605] w=0.0059 to align # Constraint # added constraint: constraint((T0334)G14.CA, (T0334)E357.CB) [> 4.6860 = 7.8099 < 10.1529] w=0.0059 to align # Constraint # added constraint: constraint((T0334)I276.CB, (T0334)L356.CB) [> 4.4693 = 7.4489 < 9.6835] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L223.CB, (T0334)A420.CB) [> 4.6294 = 7.7157 < 10.0304] w=0.0059 to align # Constraint # added constraint: constraint((T0334)V344.CB, (T0334)V372.CB) [> 3.4660 = 5.7767 < 7.5097] w=0.0059 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)P261.CB) [> 2.6329 = 4.3881 < 5.7045] w=0.0059 to align # Constraint # added constraint: constraint((T0334)C227.CB, (T0334)Y365.CB) [> 4.4755 = 7.4592 < 9.6970] w=0.0059 to align # Constraint # added constraint: constraint((T0334)Q38.CB, (T0334)V197.CB) [> 3.8283 = 6.3805 < 8.2947] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L37.CB, (T0334)V200.CB) [> 3.4609 = 5.7682 < 7.4987] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)E357.CB) [> 3.4535 = 5.7558 < 7.4826] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L251.CB, (T0334)T294.CB) [> 4.4221 = 7.3701 < 9.5812] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)G295.CA) [> 3.7654 = 6.2757 < 8.1584] w=0.0059 to align # Constraint # added constraint: constraint((T0334)L250.CB, (T0334)T294.CB) [> 2.4478 = 4.0797 < 5.3036] w=0.0059 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)T294.CB) [> 3.9434 = 6.5724 < 8.5441] w=0.0059 to align # Constraint # added constraint: constraint((T0334)H249.CB, (T0334)E357.CB) [> 3.6081 = 6.0135 < 7.8176] w=0.0059 to align # Constraint # added constraint: constraint((T0334)H262.CB, (T0334)S349.CB) [> 4.0553 = 6.7588 < 8.7864] w=0.0059 to align # Constraint # added constraint: constraint((T0334)H262.CB, (T0334)T348.CB) [> 4.7240 = 7.8733 < 10.2353] w=0.0059 to align # Constraint # added constraint: constraint((T0334)P261.CB, (T0334)S349.CB) [> 2.6803 = 4.4672 < 5.8074] w=0.0059 to align # Constraint # added constraint: constraint((T0334)P261.CB, (T0334)T348.CB) [> 3.9279 = 6.5464 < 8.5104] w=0.0059 to align # Constraint # added constraint: constraint((T0334)H262.CB, (T0334)G295.CA) [> 4.6905 = 7.8176 < 10.1629] w=0.0058 to align # Constraint # added constraint: constraint((T0334)W282.CB, (T0334)L325.CB) [> 4.7537 = 7.9229 < 10.2998] w=0.0043 to align # SetCost created cost = # ( 1.0000 * align ) # command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0334/ # command:# reading script from file servers-clean.under # Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0334/decoys/ # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS1 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS2 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS3 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS4 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS5 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS1 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS2 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS3 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS4 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS5 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS1 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS2 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS3 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS4 # ReadConformPDB reading from PDB file servers/3Dpro_TS1.pdb.gz looking for model 1 # Found a chain break before 453 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS1 # ReadConformPDB reading from PDB file servers/3Dpro_TS2.pdb.gz looking for model 1 # Found a chain break before 453 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS2 # ReadConformPDB reading from PDB file servers/3Dpro_TS3.pdb.gz looking for model 1 # Found a chain break before 453 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS3 # ReadConformPDB reading from PDB file servers/3Dpro_TS4.pdb.gz looking for model 1 # Found a chain break before 453 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS4 # ReadConformPDB reading from PDB file servers/3Dpro_TS5.pdb.gz looking for model 1 # Found a chain break before 464 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS5 # ReadConformPDB reading from PDB file servers/ABIpro_TS1.pdb.gz looking for model 1 # Found a chain break before 491 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS1 # ReadConformPDB reading from PDB file servers/ABIpro_TS2.pdb.gz looking for model 1 # Found a chain break before 459 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS2 # ReadConformPDB reading from PDB file servers/ABIpro_TS3.pdb.gz looking for model 1 # Found a chain break before 496 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS3 # ReadConformPDB reading from PDB file servers/ABIpro_TS4.pdb.gz looking for model 1 # Found a chain break before 525 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS4 # ReadConformPDB reading from PDB file servers/ABIpro_TS5.pdb.gz looking for model 1 # Found a chain break before 472 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS5 # ReadConformPDB reading from PDB file servers/BayesHH_TS1.pdb.gz looking for model 1 # Found a chain break before 451 # copying to AlignedFragments data structure # naming current conformation BayesHH_TS1 # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS1.pdb.gz looking for model 1 # Found a chain break before 462 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS1 # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS2.pdb.gz looking for model 1 # Found a chain break before 446 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS2 # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS3.pdb.gz looking for model 1 # Found a chain break before 478 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS3 # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS4.pdb.gz looking for model 1 # Found a chain break before 422 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS4 # ReadConformPDB reading from PDB file servers/CIRCLE_TS1.pdb.gz looking for model 1 # Found a chain break before 517 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS1 # ReadConformPDB reading from PDB file servers/CIRCLE_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS2 # ReadConformPDB reading from PDB file servers/CIRCLE_TS3.pdb.gz looking for model 1 # Found a chain break before 529 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS3 # ReadConformPDB reading from PDB file servers/CIRCLE_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS4 # ReadConformPDB reading from PDB file servers/CIRCLE_TS5.pdb.gz looking for model 1 # Found a chain break before 494 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS5 # ReadConformPDB reading from PDB file servers/CPHmodels_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation CPHmodels_TS1 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation CaspIta-FOX_TS1 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS2 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS3 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS4 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS5 # ReadConformPDB reading from PDB file servers/Distill_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation Distill_TS1 # ReadConformPDB reading from PDB file servers/Distill_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation Distill_TS2 # ReadConformPDB reading from PDB file servers/Distill_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation Distill_TS3 # ReadConformPDB reading from PDB file servers/Distill_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation Distill_TS4 # ReadConformPDB reading from PDB file servers/Distill_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation Distill_TS5 # ReadConformPDB reading from PDB file servers/FAMSD_TS1.pdb.gz looking for model 1 # Found a chain break before 352 # copying to AlignedFragments data structure # naming current conformation FAMSD_TS1 # ReadConformPDB reading from PDB file servers/FAMSD_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FAMSD_TS2 # ReadConformPDB reading from PDB file servers/FAMSD_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FAMSD_TS3 # ReadConformPDB reading from PDB file servers/FAMSD_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FAMSD_TS4 # ReadConformPDB reading from PDB file servers/FAMSD_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FAMSD_TS5 # ReadConformPDB reading from PDB file servers/FAMS_TS1.pdb.gz looking for model 1 # Found a chain break before 525 # copying to AlignedFragments data structure # naming current conformation FAMS_TS1 # ReadConformPDB reading from PDB file servers/FAMS_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FAMS_TS2 # ReadConformPDB reading from PDB file servers/FAMS_TS3.pdb.gz looking for model 1 # Found a chain break before 517 # copying to AlignedFragments data structure # naming current conformation FAMS_TS3 # ReadConformPDB reading from PDB file servers/FAMS_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FAMS_TS4 # ReadConformPDB reading from PDB file servers/FAMS_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FAMS_TS5 # ReadConformPDB reading from PDB file servers/FOLDpro_TS1.pdb.gz looking for model 1 # Found a chain break before 453 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS1 # ReadConformPDB reading from PDB file servers/FOLDpro_TS2.pdb.gz looking for model 1 # Found a chain break before 453 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS2 # ReadConformPDB reading from PDB file servers/FOLDpro_TS3.pdb.gz looking for model 1 # Found a chain break before 453 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS3 # ReadConformPDB reading from PDB file servers/FOLDpro_TS4.pdb.gz looking for model 1 # Found a chain break before 453 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS4 # ReadConformPDB reading from PDB file servers/FOLDpro_TS5.pdb.gz looking for model 1 # Found a chain break before 460 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS5 # ReadConformPDB reading from PDB file servers/FORTE1_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FORTE1_AL1 # ReadConformPDB reading from PDB file servers/FORTE1_AL2.pdb.gz looking for model 1 Skipped atom 762, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 764, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 766, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 768, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 1386, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 1388, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 1390, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 1392, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FORTE1_AL2 # ReadConformPDB reading from PDB file servers/FORTE1_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FORTE1_AL3 # ReadConformPDB reading from PDB file servers/FORTE1_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FORTE1_AL4 # ReadConformPDB reading from PDB file servers/FORTE1_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FORTE1_AL5 # ReadConformPDB reading from PDB file servers/FORTE2_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FORTE2_AL1 # ReadConformPDB reading from PDB file servers/FORTE2_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FORTE2_AL2 # ReadConformPDB reading from PDB file servers/FORTE2_AL3.pdb.gz looking for model 1 Skipped atom 762, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL3.pdb.gz Skipped atom 764, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL3.pdb.gz Skipped atom 766, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL3.pdb.gz Skipped atom 768, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL3.pdb.gz Skipped atom 1386, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL3.pdb.gz Skipped atom 1388, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL3.pdb.gz Skipped atom 1390, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL3.pdb.gz Skipped atom 1392, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL3.pdb.gz # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FORTE2_AL3 # ReadConformPDB reading from PDB file servers/FORTE2_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FORTE2_AL4 # ReadConformPDB reading from PDB file servers/FORTE2_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FORTE2_AL5 # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS1.pdb.gz looking for model 1 # Found a chain break before 529 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS1 # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS2.pdb.gz looking for model 1 # Found a chain break before 522 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS2 # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS3.pdb.gz looking for model 1 # Found a chain break before 520 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS3 # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS4.pdb.gz looking for model 1 # Found a chain break before 529 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS4 # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS5.pdb.gz looking for model 1 # Found a chain break before 513 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS5 # ReadConformPDB reading from PDB file servers/FUGMOD_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS1 # ReadConformPDB reading from PDB file servers/FUGMOD_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS2 # ReadConformPDB reading from PDB file servers/FUGMOD_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS3 # ReadConformPDB reading from PDB file servers/FUGMOD_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS4 # ReadConformPDB reading from PDB file servers/FUGMOD_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS5 # ReadConformPDB reading from PDB file servers/FUGUE_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FUGUE_AL1 # ReadConformPDB reading from PDB file servers/FUGUE_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FUGUE_AL2 # ReadConformPDB reading from PDB file servers/FUGUE_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FUGUE_AL3 # ReadConformPDB reading from PDB file servers/FUGUE_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FUGUE_AL4 # ReadConformPDB reading from PDB file servers/FUGUE_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation FUGUE_AL5 # ReadConformPDB reading from PDB file servers/FUNCTION_TS1.pdb.gz looking for model 1 # Found a chain break before 521 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS1 # ReadConformPDB reading from PDB file servers/FUNCTION_TS2.pdb.gz looking for model 1 # Found a chain break before 527 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS2 # ReadConformPDB reading from PDB file servers/FUNCTION_TS3.pdb.gz looking for model 1 # Found a chain break before 524 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS3 # ReadConformPDB reading from PDB file servers/FUNCTION_TS4.pdb.gz looking for model 1 # Found a chain break before 519 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS4 # ReadConformPDB reading from PDB file servers/FUNCTION_TS5.pdb.gz looking for model 1 # Found a chain break before 529 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS5 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS1 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS2.pdb.gz looking for model 1 # Found a chain break before 446 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS2 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS3.pdb.gz looking for model 1 # Found a chain break before 423 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS3 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS4 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS5.pdb.gz looking for model 1 # Found a chain break before 451 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS5 # ReadConformPDB reading from PDB file servers/HHpred1_TS1.pdb.gz looking for model 1 # Found a chain break before 451 # copying to AlignedFragments data structure # naming current conformation HHpred1_TS1 # ReadConformPDB reading from PDB file servers/HHpred2_TS1.pdb.gz looking for model 1 # Found a chain break before 451 # copying to AlignedFragments data structure # naming current conformation HHpred2_TS1 # ReadConformPDB reading from PDB file servers/HHpred3_TS1.pdb.gz looking for model 1 # Found a chain break before 451 # copying to AlignedFragments data structure # naming current conformation HHpred3_TS1 # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS1 # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS2 # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS3 # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS4 # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS5 # ReadConformPDB reading from PDB file servers/LOOPP_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation LOOPP_TS1 # ReadConformPDB reading from PDB file servers/LOOPP_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation LOOPP_TS2 # ReadConformPDB reading from PDB file servers/LOOPP_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation LOOPP_TS3 # ReadConformPDB reading from PDB file servers/LOOPP_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation LOOPP_TS4 # ReadConformPDB reading from PDB file servers/LOOPP_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation LOOPP_TS5 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS1.pdb.gz looking for model 1 # Found a chain break before 447 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS1 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS2.pdb.gz looking for model 1 # Found a chain break before 476 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS2 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS3.pdb.gz looking for model 1 # Found a chain break before 492 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS3 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS4.pdb.gz looking for model 1 # Found a chain break before 467 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS4 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS5.pdb.gz looking for model 1 # Found a chain break before 491 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS5 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS1.pdb.gz looking for model 1 # Found a chain break before 447 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS1 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS2.pdb.gz looking for model 1 # Found a chain break before 371 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS2 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS3.pdb.gz looking for model 1 # Found a chain break before 406 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS3 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS4.pdb.gz looking for model 1 # Found a chain break before 485 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS4 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS5.pdb.gz looking for model 1 # Found a chain break before 519 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS5 # ReadConformPDB reading from PDB file servers/MetaTasser_TS1.pdb.gz looking for model 1 # Found a chain break before 528 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS1 # ReadConformPDB reading from PDB file servers/MetaTasser_TS2.pdb.gz looking for model 1 # Found a chain break before 529 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS2 # ReadConformPDB reading from PDB file servers/MetaTasser_TS3.pdb.gz looking for model 1 # Found a chain break before 529 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS3 # ReadConformPDB reading from PDB file servers/MetaTasser_TS4.pdb.gz looking for model 1 # Found a chain break before 529 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS4 # ReadConformPDB reading from PDB file servers/MetaTasser_TS5.pdb.gz looking for model 1 # Found a chain break before 529 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS5 # ReadConformPDB reading from PDB file servers/NN_PUT_lab_TS1.pdb.gz looking for model 1 # Found a chain break before 447 # copying to AlignedFragments data structure # naming current conformation NN_PUT_lab_TS1 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS1.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS1 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS2.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS2 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS3.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS3 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS4.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS4 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS5.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS5 # ReadConformPDB reading from PDB file servers/PROTINFO_TS1.pdb.gz looking for model 1 # Found a chain break before 484 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS1 # ReadConformPDB reading from PDB file servers/PROTINFO_TS2.pdb.gz looking for model 1 # Found a chain break before 376 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS2 # ReadConformPDB reading from PDB file servers/PROTINFO_TS3.pdb.gz looking for model 1 # Found a chain break before 448 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS3 # ReadConformPDB reading from PDB file servers/PROTINFO_TS4.pdb.gz looking for model 1 # Found a chain break before 146 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS4 # ReadConformPDB reading from PDB file servers/PROTINFO_TS5.pdb.gz looking for model 1 # Found a chain break before 484 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS5 # ReadConformPDB reading from PDB file servers/Pcons6_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation Pcons6_TS1 # ReadConformPDB reading from PDB file servers/Pcons6_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Pcons6_TS2 # ReadConformPDB reading from PDB file servers/Pcons6_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Pcons6_TS3 # ReadConformPDB reading from PDB file servers/Pcons6_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation Pcons6_TS4 # ReadConformPDB reading from PDB file servers/Pcons6_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Pcons6_TS5 # ReadConformPDB reading from PDB file servers/Phyre-1_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation Phyre-1_TS1 # ReadConformPDB reading from PDB file servers/Phyre-2_TS1.pdb.gz looking for model 1 # Found a chain break before 527 # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS1 # ReadConformPDB reading from PDB file servers/Phyre-2_TS2.pdb.gz looking for model 1 # Found a chain break before 527 # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS2 # ReadConformPDB reading from PDB file servers/Phyre-2_TS3.pdb.gz looking for model 1 # Found a chain break before 529 # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS3 # ReadConformPDB reading from PDB file servers/Phyre-2_TS4.pdb.gz looking for model 1 # Found a chain break before 529 # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS4 # ReadConformPDB reading from PDB file servers/Phyre-2_TS5.pdb.gz looking for model 1 # Found a chain break before 529 # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS5 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS1.pdb.gz looking for model 1 # Found a chain break before 376 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS1 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS2 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS3.pdb.gz looking for model 1 # Found a chain break before 376 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS3 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS4.pdb.gz looking for model 1 # Found a chain break before 447 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS4 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS5.pdb.gz looking for model 1 # Found a chain break before 376 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS5 # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS1.pdb.gz looking for model 1 # Found a chain break before 423 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS1 # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS2.pdb.gz looking for model 1 # Found a chain break before 446 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS2 # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS3.pdb.gz looking for model 1 # Found a chain break before 422 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS3 # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS4.pdb.gz looking for model 1 # Found a chain break before 423 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS4 # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS5.pdb.gz looking for model 1 # Found a chain break before 451 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS5 # ReadConformPDB reading from PDB file servers/RAPTORESS_TS1.pdb.gz looking for model 1 # Found a chain break before 484 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS1 # ReadConformPDB reading from PDB file servers/RAPTORESS_TS2.pdb.gz looking for model 1 # Found a chain break before 484 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS2 # ReadConformPDB reading from PDB file servers/RAPTORESS_TS3.pdb.gz looking for model 1 # Found a chain break before 521 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS3 # ReadConformPDB reading from PDB file servers/RAPTORESS_TS4.pdb.gz looking for model 1 # Found a chain break before 525 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS4 # ReadConformPDB reading from PDB file servers/RAPTORESS_TS5.pdb.gz looking for model 1 # Found a chain break before 462 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS5 # ReadConformPDB reading from PDB file servers/RAPTOR_TS1.pdb.gz looking for model 1 # Found a chain break before 422 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS1 # ReadConformPDB reading from PDB file servers/RAPTOR_TS2.pdb.gz looking for model 1 # Found a chain break before 515 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS2 # ReadConformPDB reading from PDB file servers/RAPTOR_TS3.pdb.gz looking for model 1 # Found a chain break before 344 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS3 # ReadConformPDB reading from PDB file servers/RAPTOR_TS4.pdb.gz looking for model 1 # Found a chain break before 448 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS4 # ReadConformPDB reading from PDB file servers/RAPTOR_TS5.pdb.gz looking for model 1 Faking rotamer for incomplete or colinear backbone at (T0334)Y125 Faking rotamer for incomplete or colinear backbone at (T0334)Y125 # Found a chain break before 519 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS5 # ReadConformPDB reading from PDB file servers/ROBETTA_TS1.pdb.gz looking for model 1 # Found a chain break before 376 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS1 # ReadConformPDB reading from PDB file servers/ROBETTA_TS2.pdb.gz looking for model 1 # Found a chain break before 440 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS2 # ReadConformPDB reading from PDB file servers/ROBETTA_TS3.pdb.gz looking for model 1 # Found a chain break before 376 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS3 # ReadConformPDB reading from PDB file servers/ROBETTA_TS4.pdb.gz looking for model 1 # Found a chain break before 376 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS4 # ReadConformPDB reading from PDB file servers/ROBETTA_TS5.pdb.gz looking for model 1 # Found a chain break before 447 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS5 # ReadConformPDB reading from PDB file servers/ROKKY_TS1.pdb.gz looking for model 1 # Found a chain break before 422 # copying to AlignedFragments data structure # naming current conformation ROKKY_TS1 # ReadConformPDB reading from PDB file servers/SAM-T02_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL1 # ReadConformPDB reading from PDB file servers/SAM-T02_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL2 # ReadConformPDB reading from PDB file servers/SAM-T02_AL3.pdb.gz looking for model 1 Skipped atom 626, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL3.pdb.gz Skipped atom 628, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL3.pdb.gz Skipped atom 630, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL3.pdb.gz Skipped atom 632, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL3.pdb.gz Skipped atom 846, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL3.pdb.gz Skipped atom 848, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL3.pdb.gz Skipped atom 850, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL3.pdb.gz Skipped atom 852, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL3.pdb.gz Skipped atom 1274, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL3.pdb.gz Skipped atom 1276, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL3.pdb.gz Skipped atom 1278, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL3.pdb.gz Skipped atom 1280, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL3.pdb.gz Skipped atom 1286, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL3.pdb.gz Skipped atom 1288, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL3.pdb.gz Skipped atom 1290, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL3.pdb.gz Skipped atom 1292, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL3.pdb.gz # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL3 # ReadConformPDB reading from PDB file servers/SAM-T02_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL4 # ReadConformPDB reading from PDB file servers/SAM-T02_AL5.pdb.gz looking for model 1 Skipped atom 694, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL5.pdb.gz Skipped atom 696, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL5.pdb.gz Skipped atom 698, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL5.pdb.gz Skipped atom 700, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL5.pdb.gz Skipped atom 1098, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL5.pdb.gz Skipped atom 1100, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL5.pdb.gz Skipped atom 1102, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL5.pdb.gz Skipped atom 1104, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL5.pdb.gz # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL5 # ReadConformPDB reading from PDB file servers/SAM-T99_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL1 # ReadConformPDB reading from PDB file servers/SAM-T99_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL2 # ReadConformPDB reading from PDB file servers/SAM-T99_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL3 # ReadConformPDB reading from PDB file servers/SAM-T99_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL4 # ReadConformPDB reading from PDB file servers/SAM-T99_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL5 # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS1.pdb.gz looking for model 1 # Found a chain break before 513 # copying to AlignedFragments data structure # naming current conformation SAM_T06_server_TS1 # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS2 # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS3 # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS4 # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS5 # ReadConformPDB reading from PDB file servers/SP3_TS1.pdb.gz looking for model 1 # Found a chain break before 423 # copying to AlignedFragments data structure # naming current conformation SP3_TS1 # ReadConformPDB reading from PDB file servers/SP3_TS2.pdb.gz looking for model 1 Faking rotamer for incomplete or colinear backbone at (T0334)A173 Faking rotamer for incomplete or colinear backbone at (T0334)A173 # Found a chain break before 507 # copying to AlignedFragments data structure # naming current conformation SP3_TS2 # ReadConformPDB reading from PDB file servers/SP3_TS3.pdb.gz looking for model 1 # Found a chain break before 505 # copying to AlignedFragments data structure # naming current conformation SP3_TS3 # ReadConformPDB reading from PDB file servers/SP3_TS4.pdb.gz looking for model 1 # Found a chain break before 360 # copying to AlignedFragments data structure # naming current conformation SP3_TS4 # ReadConformPDB reading from PDB file servers/SP3_TS5.pdb.gz looking for model 1 # Found a chain break before 455 # copying to AlignedFragments data structure # naming current conformation SP3_TS5 # ReadConformPDB reading from PDB file servers/SP4_TS1.pdb.gz looking for model 1 # Found a chain break before 472 # copying to AlignedFragments data structure # naming current conformation SP4_TS1 # ReadConformPDB reading from PDB file servers/SP4_TS2.pdb.gz looking for model 1 # Found a chain break before 339 # copying to AlignedFragments data structure # naming current conformation SP4_TS2 # ReadConformPDB reading from PDB file servers/SP4_TS3.pdb.gz looking for model 1 Faking rotamer for incomplete or colinear backbone at (T0334)A173 Faking rotamer for incomplete or colinear backbone at (T0334)A173 # Found a chain break before 517 # copying to AlignedFragments data structure # naming current conformation SP4_TS3 # ReadConformPDB reading from PDB file servers/SP4_TS4.pdb.gz looking for model 1 # Found a chain break before 498 # copying to AlignedFragments data structure # naming current conformation SP4_TS4 # ReadConformPDB reading from PDB file servers/SP4_TS5.pdb.gz looking for model 1 # Found a chain break before 368 # copying to AlignedFragments data structure # naming current conformation SP4_TS5 # ReadConformPDB reading from PDB file servers/SPARKS2_TS1.pdb.gz looking for model 1 # Found a chain break before 447 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS1 # ReadConformPDB reading from PDB file servers/SPARKS2_TS2.pdb.gz looking for model 1 # Found a chain break before 444 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS2 # ReadConformPDB reading from PDB file servers/SPARKS2_TS3.pdb.gz looking for model 1 # Found a chain break before 358 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS3 # ReadConformPDB reading from PDB file servers/SPARKS2_TS4.pdb.gz looking for model 1 Faking rotamer for incomplete or colinear backbone at (T0334)A173 Faking rotamer for incomplete or colinear backbone at (T0334)A173 # Found a chain break before 470 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS4 # ReadConformPDB reading from PDB file servers/SPARKS2_TS5.pdb.gz looking for model 1 # Found a chain break before 391 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS5 # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS1 # ReadConformPDB reading from PDB file servers/UNI-EID_expm_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation UNI-EID_expm_TS1 # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL1 # ReadConformPDB reading from PDB file servers/Zhang-Server_TS1.pdb.gz looking for model 1 # Found a chain break before 322 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS1 # ReadConformPDB reading from PDB file servers/Zhang-Server_TS2.pdb.gz looking for model 1 # Found a chain break before 463 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS2 # ReadConformPDB reading from PDB file servers/Zhang-Server_TS3.pdb.gz looking for model 1 # Found a chain break before 491 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS3 # ReadConformPDB reading from PDB file servers/Zhang-Server_TS4.pdb.gz looking for model 1 # Found a chain break before 527 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS4 # ReadConformPDB reading from PDB file servers/Zhang-Server_TS5.pdb.gz looking for model 1 # Found a chain break before 491 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS5 # ReadConformPDB reading from PDB file servers/beautshot_TS1.pdb.gz looking for model 1 # Found a chain break before 529 # copying to AlignedFragments data structure # naming current conformation beautshot_TS1 # ReadConformPDB reading from PDB file servers/beautshotbase_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation beautshotbase_TS1 # ReadConformPDB reading from PDB file servers/forecast-s_AL1.pdb.gz looking for model 1 Skipped atom 111, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 113, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 115, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 117, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 119, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 121, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 123, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 125, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 127, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 129, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 131, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 133, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 135, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 137, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 139, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 141, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 143, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 145, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 147, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation forecast-s_AL1 # ReadConformPDB reading from PDB file servers/forecast-s_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation forecast-s_AL2 # ReadConformPDB reading from PDB file servers/forecast-s_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation forecast-s_AL3 # ReadConformPDB reading from PDB file servers/forecast-s_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation forecast-s_AL4 # ReadConformPDB reading from PDB file servers/forecast-s_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation forecast-s_AL5 # ReadConformPDB reading from PDB file servers/gtg_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation gtg_AL1 # ReadConformPDB reading from PDB file servers/gtg_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation gtg_AL2 # ReadConformPDB reading from PDB file servers/gtg_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation gtg_AL3 # ReadConformPDB reading from PDB file servers/gtg_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation gtg_AL4 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS1.pdb.gz looking for model 1 # Found a chain break before 464 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS1 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS2.pdb.gz looking for model 1 # Found a chain break before 456 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS2 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS3.pdb.gz looking for model 1 # Found a chain break before 456 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS3 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS4.pdb.gz looking for model 1 # Found a chain break before 412 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS4 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS5.pdb.gz looking for model 1 # Found a chain break before 519 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS5 # ReadConformPDB reading from PDB file servers/karypis.srv_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation karypis.srv_TS1 # ReadConformPDB reading from PDB file servers/karypis.srv_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation karypis.srv_TS2 # ReadConformPDB reading from PDB file servers/karypis.srv_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS3 # ReadConformPDB reading from PDB file servers/keasar-server_TS1.pdb.gz looking for model 1 # Found a chain break before 517 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS1 # ReadConformPDB reading from PDB file servers/keasar-server_TS2.pdb.gz looking for model 1 # Found a chain break before 519 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS2 # ReadConformPDB reading from PDB file servers/keasar-server_TS3.pdb.gz looking for model 1 # Found a chain break before 328 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS3 # ReadConformPDB reading from PDB file servers/keasar-server_TS4.pdb.gz looking for model 1 # Found a chain break before 524 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS4 # ReadConformPDB reading from PDB file servers/keasar-server_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation keasar-server_TS5 # ReadConformPDB reading from PDB file servers/mGen-3D_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation mGen-3D_TS1 # ReadConformPDB reading from PDB file servers/nFOLD_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation nFOLD_TS1 # ReadConformPDB reading from PDB file servers/nFOLD_TS2.pdb.gz looking for model 1 WARNING: atom 1 has residue number 1 < previous residue 529 in servers/nFOLD_TS2.pdb.gz # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation nFOLD_TS2 # ReadConformPDB reading from PDB file servers/nFOLD_TS3.pdb.gz looking for model 1 WARNING: atom 1 has residue number 4 < previous residue 529 in servers/nFOLD_TS3.pdb.gz # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation nFOLD_TS3 # ReadConformPDB reading from PDB file servers/nFOLD_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation nFOLD_TS4 # ReadConformPDB reading from PDB file servers/nFOLD_TS5.pdb.gz looking for model 1 WARNING: atom 1 has residue number 2 < previous residue 381 in servers/nFOLD_TS5.pdb.gz # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation nFOLD_TS5 # ReadConformPDB reading from PDB file servers/panther2_TS1.pdb.gz looking for model 1 WARNING: atoms too close: (T0334)I5.N and (T0334)L55.N only 0.000 apart, marking (T0334)L55.N as missing WARNING: atoms too close: (T0334)I5.CA and (T0334)L55.CA only 0.000 apart, marking (T0334)L55.CA as missing WARNING: atoms too close: (T0334)I5.CB and (T0334)L55.CB only 0.000 apart, marking (T0334)L55.CB as missing WARNING: atoms too close: (T0334)I5.CG1 and (T0334)L55.CG only 0.000 apart, marking (T0334)L55.CG as missing WARNING: atoms too close: (T0334)I5.O and (T0334)L55.O only 0.000 apart, marking (T0334)L55.O as missing WARNING: atoms too close: (T0334)I5.C and (T0334)L55.C only 0.000 apart, marking (T0334)L55.C as missing WARNING: atoms too close: (T0334)L55.N and (T0334)Q56.N only 0.000 apart, marking (T0334)L55.N as missing WARNING: atoms too close: (T0334)I5.N and (T0334)Q56.N only 0.000 apart, marking (T0334)Q56.N as missing WARNING: atoms too close: (T0334)L55.CA and (T0334)Q56.CA only 0.000 apart, marking (T0334)Q56.CA as missing WARNING: atoms too close: (T0334)I5.CA and (T0334)Q56.CA only 0.000 apart, marking (T0334)Q56.CA as missing WARNING: atoms too close: (T0334)L55.CB and (T0334)Q56.CB only 0.000 apart, marking (T0334)Q56.CB as missing WARNING: atoms too close: (T0334)I5.CB and (T0334)Q56.CB only 0.000 apart, marking (T0334)Q56.CB as missing WARNING: atoms too close: (T0334)L55.CG and (T0334)Q56.CG only 0.000 apart, marking (T0334)Q56.CG as missing WARNING: atoms too close: (T0334)I5.CG1 and (T0334)Q56.CG only 0.000 apart, marking (T0334)Q56.CG as missing WARNING: atoms too close: (T0334)L55.O and (T0334)Q56.O only 0.000 apart, marking (T0334)Q56.O as missing WARNING: atoms too close: (T0334)I5.O and (T0334)Q56.O only 0.000 apart, marking (T0334)Q56.O as missing WARNING: atoms too close: (T0334)L55.C and (T0334)Q56.C only 0.000 apart, marking (T0334)Q56.C as missing WARNING: atoms too close: (T0334)I5.C and (T0334)Q56.C only 0.000 apart, marking (T0334)Q56.C as missing WARNING: atoms too close: (T0334)Q56.N and (T0334)P66.N only 0.000 apart, marking (T0334)Q56.N as missing WARNING: atoms too close: (T0334)L55.N and (T0334)P66.N only 0.000 apart, marking (T0334)L55.N as missing WARNING: atoms too close: (T0334)I5.N and (T0334)P66.N only 0.000 apart, marking (T0334)P66.N as missing WARNING: atoms too close: (T0334)Q56.CA and (T0334)P66.CA only 0.000 apart, marking (T0334)P66.CA as missing WARNING: atoms too close: (T0334)L55.CA and (T0334)P66.CA only 0.000 apart, marking (T0334)P66.CA as missing WARNING: atoms too close: (T0334)I5.CA and (T0334)P66.CA only 0.000 apart, marking (T0334)P66.CA as missing WARNING: atoms too close: (T0334)Q56.CB and (T0334)P66.CB only 0.000 apart, marking (T0334)P66.CB as missing WARNING: atoms too close: (T0334)L55.CB and (T0334)P66.CB only 0.000 apart, marking (T0334)P66.CB as missing WARNING: atoms too close: (T0334)I5.CB and (T0334)P66.CB only 0.000 apart, marking (T0334)P66.CB as missing WARNING: atoms too close: (T0334)Q56.O and (T0334)P66.O only 0.000 apart, marking (T0334)P66.O as missing WARNING: atoms too close: (T0334)L55.O and (T0334)P66.O only 0.000 apart, marking (T0334)P66.O as missing WARNING: atoms too close: (T0334)I5.O and (T0334)P66.O only 0.000 apart, marking (T0334)P66.O as missing WARNING: atoms too close: (T0334)Q56.C and (T0334)P66.C only 0.000 apart, marking (T0334)P66.C as missing WARNING: atoms too close: (T0334)L55.C and (T0334)P66.C only 0.000 apart, marking (T0334)P66.C as missing WARNING: atoms too close: (T0334)I5.C and (T0334)P66.C only 0.000 apart, marking (T0334)P66.C as missing WARNING: atoms too close: (T0334)P66.N and (T0334)V80.N only 0.000 apart, marking (T0334)P66.N as missing WARNING: atoms too close: (T0334)Q56.N and (T0334)V80.N only 0.000 apart, marking (T0334)Q56.N as missing WARNING: atoms too close: (T0334)L55.N and (T0334)V80.N only 0.000 apart, marking (T0334)L55.N as missing WARNING: atoms too close: (T0334)I5.N and (T0334)V80.N only 0.000 apart, marking (T0334)V80.N as missing WARNING: atoms too close: (T0334)P66.CA and (T0334)V80.CA only 0.000 apart, marking (T0334)V80.CA as missing WARNING: atoms too close: (T0334)Q56.CA and (T0334)V80.CA only 0.000 apart, marking (T0334)V80.CA as missing WARNING: atoms too close: (T0334)L55.CA and (T0334)V80.CA only 0.000 apart, marking (T0334)V80.CA as missing WARNING: atoms too close: (T0334)I5.CA and (T0334)V80.CA only 0.000 apart, marking (T0334)V80.CA as missing WARNING: atoms too close: (T0334)P66.CB and (T0334)V80.CB only 0.000 apart, marking (T0334)V80.CB as missing WARNING: atoms too close: (T0334)Q56.CB and (T0334)V80.CB only 0.000 apart, marking (T0334)V80.CB as missing WARNING: atoms too close: (T0334)L55.CB and (T0334)V80.CB only 0.000 apart, marking (T0334)V80.CB as missing WARNING: atoms too close: (T0334)I5.CB and (T0334)V80.CB only 0.000 apart, marking (T0334)V80.CB as missing WARNING: atoms too close: (T0334)Q56.CG and (T0334)V80.CG1 only 0.000 apart, marking (T0334)V80.CG1 as missing WARNING: atoms too close: (T0334)L55.CG and (T0334)V80.CG1 only 0.000 apart, marking (T0334)V80.CG1 as missing WARNING: atoms too close: (T0334)I5.CG1 and (T0334)V80.CG1 only 0.000 apart, marking (T0334)V80.CG1 as missing WARNING: atoms too close: (T0334)P66.O and (T0334)V80.O only 0.000 apart, marking (T0334)V80.O as missing WARNING: atoms too close: (T0334)Q56.O and (T0334)V80.O only 0.000 apart, marking (T0334)V80.O as missing WARNING: atoms too close: (T0334)L55.O and (T0334)V80.O only 0.000 apart, marking (T0334)V80.O as missing WARNING: atoms too close: (T0334)I5.O and (T0334)V80.O only 0.000 apart, marking (T0334)V80.O as missing WARNING: atoms too close: (T0334)P66.C and (T0334)V80.C only 0.000 apart, marking (T0334)V80.C as missing WARNING: atoms too close: (T0334)Q56.C and (T0334)V80.C only 0.000 apart, marking (T0334)V80.C as missing WARNING: atoms too close: (T0334)L55.C and (T0334)V80.C only 0.000 apart, marking (T0334)V80.C as missing WARNING: atoms too close: (T0334)I5.C and (T0334)V80.C only 0.000 apart, marking (T0334)V80.C as missing WARNING: atoms too close: (T0334)V80.N and (T0334)A81.N only 0.000 apart, marking (T0334)V80.N as missing WARNING: atoms too close: (T0334)P66.N and (T0334)A81.N only 0.000 apart, marking (T0334)P66.N as missing WARNING: atoms too close: (T0334)Q56.N and (T0334)A81.N only 0.000 apart, marking (T0334)Q56.N as missing WARNING: atoms too close: (T0334)L55.N and (T0334)A81.N only 0.000 apart, marking (T0334)L55.N as missing WARNING: atoms too close: (T0334)I5.N and (T0334)A81.N only 0.000 apart, marking (T0334)A81.N as missing WARNING: atoms too close: (T0334)V80.CA and (T0334)A81.CA only 0.000 apart, marking (T0334)A81.CA as missing WARNING: atoms too close: (T0334)P66.CA and (T0334)A81.CA only 0.000 apart, marking (T0334)A81.CA as missing WARNING: atoms too close: (T0334)Q56.CA and (T0334)A81.CA only 0.000 apart, marking (T0334)A81.CA as missing WARNING: atoms too close: (T0334)L55.CA and (T0334)A81.CA only 0.000 apart, marking (T0334)A81.CA as missing WARNING: atoms too close: (T0334)I5.CA and (T0334)A81.CA only 0.000 apart, marking (T0334)A81.CA as missing WARNING: atoms too close: (T0334)V80.CB and (T0334)A81.CB only 0.000 apart, marking (T0334)A81.CB as missing WARNING: atoms too close: (T0334)P66.CB and (T0334)A81.CB only 0.000 apart, marking (T0334)A81.CB as missing WARNING: atoms too close: (T0334)Q56.CB and (T0334)A81.CB only 0.000 apart, marking (T0334)A81.CB as missing WARNING: atoms too close: (T0334)L55.CB and (T0334)A81.CB only 0.000 apart, marking (T0334)A81.CB as missing WARNING: atoms too close: (T0334)I5.CB and (T0334)A81.CB only 0.000 apart, marking (T0334)A81.CB as missing WARNING: atoms too close: (T0334)V80.O and (T0334)A81.O only 0.000 apart, marking (T0334)A81.O as missing WARNING: atoms too close: (T0334)P66.O and (T0334)A81.O only 0.000 apart, marking (T0334)A81.O as missing WARNING: atoms too close: (T0334)Q56.O and (T0334)A81.O only 0.000 apart, marking (T0334)A81.O as missing WARNING: atoms too close: (T0334)L55.O and (T0334)A81.O only 0.000 apart, marking (T0334)A81.O as missing WARNING: atoms too close: (T0334)I5.O and (T0334)A81.O only 0.000 apart, marking (T0334)A81.O as missing WARNING: atoms too close: (T0334)V80.C and (T0334)A81.C only 0.000 apart, marking (T0334)A81.C as missing WARNING: atoms too close: (T0334)P66.C and (T0334)A81.C only 0.000 apart, marking (T0334)A81.C as missing WARNING: atoms too close: (T0334)Q56.C and (T0334)A81.C only 0.000 apart, marking (T0334)A81.C as missing WARNING: atoms too close: (T0334)L55.C and (T0334)A81.C only 0.000 apart, marking (T0334)A81.C as missing WARNING: atoms too close: (T0334)I5.C and (T0334)A81.C only 0.000 apart, marking (T0334)A81.C as missing # WARNING: incomplete conformation T0334 can't currently be optimized by undertaker # naming current conformation panther2_TS1 # ReadConformPDB reading from PDB file servers/shub_TS1.pdb.gz looking for model 1 # Found a chain break before 528 # copying to AlignedFragments data structure # naming current conformation shub_TS1 # command:Using radius: 8.0000 Using models AND alignments for constraints model score -0.0474 model score -0.0580 model score -0.0379 model score -0.0304 model score -0.0482 model score -0.0588 model score -0.0457 model score -0.0467 model score -0.0491 model score -0.0567 model score -0.0486 model score -0.0535 model score -0.0508 model score -0.0534 model score -0.0579 model score -0.0522 model score -0.0514 model score -0.0544 model score -0.0491 model score 2.0998 model score 2.0722 model score 2.1198 model score 2.1722 model score 2.0874 model score -0.0444 model score -0.0475 model score -0.0560 model score -0.0462 model score -0.0497 model score -0.0469 model score -0.0473 model score -0.0530 model score -0.0515 model score -0.0426 model score -0.0248 model score -0.0651 model score 0.0254 model score 0.4744 model score 0.6285 model score 0.2115 model score 1.2832 model score 1.2833 model score 1.2688 model score 1.2710 model score 1.2801 model score -0.0478 model score -0.0447 model score -0.0536 model score 0.0489 model score -0.0181 model score -0.0479 model score -0.0473 model score -0.0469 model score -0.0515 model score -0.0515 model score -0.0579 model score -0.0530 model score -0.0507 model score -0.0507 model score -0.0506 model score 1.2551 model score 1.2725 model score 1.2697 model score 1.2749 model score 1.2648 model score 1.2551 model score 1.2697 model score 1.2725 model score 1.2697 model score 1.2648 model score 2.4434 model score 2.6372 model score 2.3576 model score 2.7021 model score 2.2792 model score -0.0580 model score 1.0550 model score 1.9118 model score 1.8831 model score 1.2957 model score 1.2574 model score 1.2768 model score 1.2688 model score 1.2717 model score 1.2685 model score -0.0520 model score -0.0469 model score -0.0516 model score -0.0514 model score 0.0448 model score -0.0524 model score -0.0542 model score -0.0587 model score -0.0555 model score -0.0292 model score -0.0444 model score -0.0444 model score -0.0444 model score -0.0664 model score 1.6729 model score 1.8530 model score 1.5465 model score 1.7581 model score -0.0435 model score 0.3744 model score 0.3881 model score 0.4558 model score 0.3609 model score -0.0573 model score 2.5174 model score 0.7400 model score 1.1855 model score 0.6179 model score -0.0573 model score 0.7693 model score 0.2057 model score 1.1028 model score 1.1343 model score -0.0567 model score -0.0349 model score -0.0228 model score -0.0175 model score -0.0877 model score -0.0565 model score -0.0246 model score -0.0279 model score -0.0217 model score -0.0276 model score -0.0047 model score -0.0652 model score -0.0475 model score -0.0667 model score -0.0275 model score -0.0474 model score -0.0679 model score -0.0636 model score -0.0663 model score -0.0657 model score -0.0556 model score 0.5942 model score -0.0460 model score -0.0461 model score -0.0449 model score -0.0449 model score -0.0449 model score -0.0602 model score -0.0657 model score -0.0597 model score -0.0608 model score -0.0615 model score -0.0543 model score -0.0563 model score -0.0563 model score -0.0594 model score -0.0306 model score -0.0298 model score -0.0298 model score 0.1328 model score 0.3478 model score 0.6545 model score -0.0581 model score 0.0745 model score 0.3070 model score 0.6103 model score 0.7204 model score -0.0597 model score -0.0604 model score -0.0602 model score -0.0615 model score -0.0608 model score -0.0493 model score 1.2574 model score 1.2587 model score 1.2594 model score 1.2595 model score 1.2739 model score 1.2576 model score 1.2574 model score 1.2574 model score 1.2574 model score 1.2590 model score -0.0174 model score 0.0347 model score -0.1494 model score 0.3328 model score 0.2458 model score -0.0594 model score 0.1894 model score 0.6934 model score 0.3501 model score 0.2546 model score -0.0581 model score 0.6944 model score 0.2279 model score 0.4532 model score 0.1517 model score -0.0565 model score 0.0121 model score 0.6484 model score 1.1937 model score 0.3556 model score 1.2576 model score -0.0519 model score 1.2576 model score -0.0539 model score -0.0437 model score -0.0547 model score -0.0609 model score -0.0566 model score -0.0365 model score -0.0533 model score 1.2683 model score 1.2688 model score 1.2686 model score 1.2771 model score 1.2682 model score 1.2577 model score 1.2661 model score 1.2679 model score 1.2702 model score 0.0302 model score -0.0373 model score -0.0601 model score 0.0531 model score 0.0534 model score -0.0654 model score -0.0598 model score 0.6336 model score -0.0578 model score -0.0495 model score -0.0317 model score -0.0566 model score 0.3695 model score 0.0268 model score -0.0664 model score 0.5615 model score 0.5939 model score 1.0051 model score 1.0568 model score 1.0019 model score -0.0441 USE_META, weight: 0.9678 cost: -0.0474 min: -0.1494 max: 2.7021 USE_META, weight: 0.9712 cost: -0.0580 min: -0.1494 max: 2.7021 USE_META, weight: 0.9648 cost: -0.0379 min: -0.1494 max: 2.7021 USE_META, weight: 0.9624 cost: -0.0304 min: -0.1494 max: 2.7021 USE_META, weight: 0.9681 cost: -0.0482 min: -0.1494 max: 2.7021 USE_META, weight: 0.9714 cost: -0.0588 min: -0.1494 max: 2.7021 USE_META, weight: 0.9673 cost: -0.0457 min: -0.1494 max: 2.7021 USE_META, weight: 0.9676 cost: -0.0467 min: -0.1494 max: 2.7021 USE_META, weight: 0.9684 cost: -0.0491 min: -0.1494 max: 2.7021 USE_META, weight: 0.9707 cost: -0.0567 min: -0.1494 max: 2.7021 USE_META, weight: 0.9682 cost: -0.0486 min: -0.1494 max: 2.7021 USE_META, weight: 0.9697 cost: -0.0535 min: -0.1494 max: 2.7021 USE_META, weight: 0.9689 cost: -0.0508 min: -0.1494 max: 2.7021 USE_META, weight: 0.9697 cost: -0.0534 min: -0.1494 max: 2.7021 USE_META, weight: 0.9711 cost: -0.0579 min: -0.1494 max: 2.7021 USE_META, weight: 0.9693 cost: -0.0522 min: -0.1494 max: 2.7021 USE_META, weight: 0.9691 cost: -0.0514 min: -0.1494 max: 2.7021 USE_META, weight: 0.9700 cost: -0.0544 min: -0.1494 max: 2.7021 USE_META, weight: 0.9683 cost: -0.0491 min: -0.1494 max: 2.7021 USE_META, weight: 0.2901 cost: 2.0998 min: -0.1494 max: 2.7021 USE_META, weight: 0.2988 cost: 2.0722 min: -0.1494 max: 2.7021 USE_META, weight: 0.2838 cost: 2.1198 min: -0.1494 max: 2.7021 USE_META, weight: 0.2672 cost: 2.1722 min: -0.1494 max: 2.7021 USE_META, weight: 0.2940 cost: 2.0874 min: -0.1494 max: 2.7021 USE_META, weight: 0.9669 cost: -0.0444 min: -0.1494 max: 2.7021 USE_META, weight: 0.9678 cost: -0.0475 min: -0.1494 max: 2.7021 USE_META, weight: 0.9705 cost: -0.0560 min: -0.1494 max: 2.7021 USE_META, weight: 0.9674 cost: -0.0462 min: -0.1494 max: 2.7021 USE_META, weight: 0.9685 cost: -0.0497 min: -0.1494 max: 2.7021 USE_META, weight: 0.9677 cost: -0.0469 min: -0.1494 max: 2.7021 USE_META, weight: 0.9678 cost: -0.0473 min: -0.1494 max: 2.7021 USE_META, weight: 0.9696 cost: -0.0530 min: -0.1494 max: 2.7021 USE_META, weight: 0.9691 cost: -0.0515 min: -0.1494 max: 2.7021 USE_META, weight: 0.9663 cost: -0.0426 min: -0.1494 max: 2.7021 USE_META, weight: 0.9607 cost: -0.0248 min: -0.1494 max: 2.7021 USE_META, weight: 0.9734 cost: -0.0651 min: -0.1494 max: 2.7021 USE_META, weight: 0.9448 cost: 0.0254 min: -0.1494 max: 2.7021 USE_META, weight: 0.8031 cost: 0.4744 min: -0.1494 max: 2.7021 USE_META, weight: 0.7545 cost: 0.6285 min: -0.1494 max: 2.7021 USE_META, weight: 0.8861 cost: 0.2115 min: -0.1494 max: 2.7021 USE_META, weight: 0.5478 cost: 1.2832 min: -0.1494 max: 2.7021 USE_META, weight: 0.5478 cost: 1.2833 min: -0.1494 max: 2.7021 USE_META, weight: 0.5524 cost: 1.2688 min: -0.1494 max: 2.7021 USE_META, weight: 0.5517 cost: 1.2710 min: -0.1494 max: 2.7021 USE_META, weight: 0.5488 cost: 1.2801 min: -0.1494 max: 2.7021 USE_META, weight: 0.9679 cost: -0.0478 min: -0.1494 max: 2.7021 USE_META, weight: 0.9670 cost: -0.0447 min: -0.1494 max: 2.7021 USE_META, weight: 0.9698 cost: -0.0536 min: -0.1494 max: 2.7021 USE_META, weight: 0.9374 cost: 0.0489 min: -0.1494 max: 2.7021 USE_META, weight: 0.9586 cost: -0.0181 min: -0.1494 max: 2.7021 USE_META, weight: 0.9680 cost: -0.0479 min: -0.1494 max: 2.7021 USE_META, weight: 0.9678 cost: -0.0473 min: -0.1494 max: 2.7021 USE_META, weight: 0.9677 cost: -0.0469 min: -0.1494 max: 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min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 0.9978 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 0.9978 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 0.9978 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 0.5899 eval: 0.0011 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 0.5899 eval: 0.0011 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 0.5899 eval: 0.0011 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 0.9867 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 0.9867 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 0.9867 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0024 Number of contacts in models: 241 Number of contacts in alignments: 174 NUMB_ALIGNS: 174 Adding 39136 constraints to all3.constraints Done adding distance constraints # command:Reading probabilities from probabilities.dat Reading constraints from ConstraintSet all3.constraints maxweight: 1.0000 Optimizing... Probability sum: -977.0057, CN propb: -977.0057 weights: 0.2777 constraints: 1566 # command:Found ConstraintSet # PrintContacts align.constraints_meta03 Number of constraints in align3.constraints 1566 # command:Found ConstraintSet # PrintContacts align_bonus.constraints_meta03 Number of constraints in align3.constraints.bonus 1566 # command:Found ConstraintSet # PrintContacts rejected.constraints_meta03 Number of constraints in rejected3.constraints 37570 # command:Found ConstraintSet # PrintContacts rejected_bonus.constraints_meta03 Number of constraints in rejected3.constraints.bonus 37570 # command:Found ConstraintSet # PrintContacts non_contacts.constraints_meta03 Number of constraints in noncontact3.constraints 0 # command:Found ConstraintSet # PrintContacts non_contacts_bonus.constraints_meta03 Number of constraints in noncontact3.constraints.bonus 0 # command:Found ConstraintSet # PrintContacts all.constraints_meta03 Number of constraints in all3.constraints 39136 # command: