# 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/T0286/ # command:# Making conformation for sequence T0286 numbered 1 through 205 Created new target T0286 from T0286.a2m # command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0286/ # command:Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0286//projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0286/manyalignments-good-all.under or /projects/compbio/experiments/protein-predict/casp7/T0286//projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0286/manyalignments-good-all.under.gz for input Trying /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0286/manyalignments-good-all.under # reading script from file /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0286/manyalignments-good-all.under # Reading fragments from alignment file # Attempting to read fragment alignments from file 1yzfA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1yzfA expands to /projects/compbio/data/pdb/1yzf.pdb.gz 1yzfA:# T0286 read from 1yzfA/merged-good-all-a2m # 1yzfA read from 1yzfA/merged-good-all-a2m # adding 1yzfA to template set # found chain 1yzfA in template set T0286 6 :IKIMPVGDSCTEGMGG 1yzfA 2 :RKIVLFGDSITAGYLD # choosing archetypes in rotamer library T0286 22 :GEMGSYRTELYRLLTQAGL 1yzfA 19 :AVSPVLVDLVKRDIAAMGL T0286 41 :SIDFVGS 1yzfA 39 :EVAVINA T0286 62 :GHSGWTIPQIASNINNWLNTHNPDVVFLWIGGNDLLLNGNLN 1yzfA 46 :GMPGDTTEDGLKRLNKEVLIEKPDEVVIFFGANDASLDRNIT T0286 104 :ATGLSNLIDQI 1yzfA 92 :RENLETMIHEI T0286 120 :NVT 1yzfA 103 :GSE T0286 123 :LFVADYYPW 1yzfA 107 :VILITPPYA T0286 132 :PEAIKQYNAVIPGIVQQKANAG 1yzfA 121 :PERPQTRIKELVKVAQEVGAAH T0286 155 :KVYFVKLSEIQFD 1yzfA 143 :NLPVIDLYKAMTV T0286 168 :RNTDISWDGLHLSEIGYKKIANIWYKYTIDILRALA 1yzfA 159 :TDEFLQADGLHFSQVGYELLGALIVREIKGRLKPKQ Number of specific fragments extracted= 10 number of extra gaps= 0 total=10 Number of alignments=1 # 1yzfA read from 1yzfA/merged-good-all-a2m # found chain 1yzfA in template set Warning: unaligning (T0286)T5 because first residue in template chain is (1yzfA)M1 T0286 6 :IKIMPVGDSCTEGMGGGEMG 1yzfA 2 :RKIVLFGDSITAGYLDEAVS T0286 26 :SYRTELYRLLTQAGL 1yzfA 23 :VLVDLVKRDIAAMGL T0286 41 :SIDFVGS 1yzfA 39 :EVAVINA T0286 62 :GHSGWTIPQIASNINNWLNTHNPDVVFLWIGGND 1yzfA 46 :GMPGDTTEDGLKRLNKEVLIEKPDEVVIFFGAND T0286 96 :LLLNGNLNATGLSNLIDQI 1yzfA 84 :RNITVATFRENLETMIHEI T0286 120 :NVT 1yzfA 103 :GSE T0286 123 :LFVADYYPW 1yzfA 107 :VILITPPYA T0286 132 :PEAIKQYNAVIPGIVQQKANAG 1yzfA 121 :PERPQTRIKELVKVAQEVGAAH T0286 155 :KVYFVKLSEIQFDRNT 1yzfA 143 :NLPVIDLYKAMTVYPG T0286 171 :DISWDGLHLSEIGYKKIANIWYKYTIDILRALA 1yzfA 162 :FLQADGLHFSQVGYELLGALIVREIKGRLKPKQ Number of specific fragments extracted= 10 number of extra gaps= 0 total=20 Number of alignments=2 # 1yzfA read from 1yzfA/merged-good-all-a2m # found chain 1yzfA in template set T0286 6 :IKIMPVGDSCTEGMGGGE 1yzfA 2 :RKIVLFGDSITAGYLDEA T0286 24 :MGSYRTELYRLLTQAGL 1yzfA 21 :SPVLVDLVKRDIAAMGL T0286 41 :SIDFVGSQR 1yzfA 39 :EVAVINAGM T0286 64 :SGWTIPQIASNINNWLNTHNPDVVFLWIGGNDLLLNGNLNATGLSNLIDQIFTV 1yzfA 48 :PGDTTEDGLKRLNKEVLIEKPDEVVIFFGANDASLDRNITVATFRENLETMIHE T0286 118 :KPNVTLF 1yzfA 103 :GSEKVIL T0286 126 :ADYYP 1yzfA 110 :ITPPY T0286 131 :WPEAIKQYNAVIPGIVQQKANAGKKVYFV 1yzfA 120 :RPERPQTRIKELVKVAQEVGAAHNLPVID T0286 163 :EIQF 1yzfA 151 :KAMT T0286 167 :DRNTDISWDGLHLSEIGYKKIANIWYKYT 1yzfA 158 :GTDEFLQADGLHFSQVGYELLGALIVREI Number of specific fragments extracted= 9 number of extra gaps= 0 total=29 Number of alignments=3 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1j00A/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/T0286/1j00A/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0286/1j00A/merged-good-all-a2m.gz for input Trying 1j00A/merged-good-all-a2m Error: Couldn't open file 1j00A/merged-good-all-a2m or 1j00A/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1esc/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1esc expands to /projects/compbio/data/pdb/1esc.pdb.gz 1esc:Warning: there is no chain 1esc will retry with 1escA # T0286 read from 1esc/merged-good-all-a2m # 1esc read from 1esc/merged-good-all-a2m # adding 1esc to template set # found chain 1esc in template set Warning: unaligning (T0286)K4 because first residue in template chain is (1esc)D4 Warning: unaligning (T0286)G12 because of BadResidue code BAD_PEPTIDE in next template residue (1esc)D13 Warning: unaligning (T0286)D13 because of BadResidue code BAD_PEPTIDE at template residue (1esc)D13 Warning: unaligning (T0286)A140 because of BadResidue code BAD_PEPTIDE in next template residue (1esc)R226 Warning: unaligning (T0286)V141 because of BadResidue code BAD_PEPTIDE at template residue (1esc)R226 T0286 5 :TIKIMPV 1esc 5 :PVPTVFF T0286 14 :SCTEGMGGGEMG 1esc 14 :SYTANFGIAPVT T0286 26 :SYRTELYRLLTQAGLSIDFVGS 1esc 40 :NYPAVATRSLADKGITLDVQAD T0286 61 :EGHSGWTIPQIA 1esc 62 :VSCGGALIHHFW T0286 73 :SNI 1esc 90 :DAL T0286 81 :THNPDVVFLWIGGNDLLLNGNLN 1esc 93 :KQDTQLTVGSLGGNTLGFNRILK T0286 104 :ATGLSNLIDQIFTVKPNVTLFVADYYPW 1esc 162 :GAELEELLDRIGYFAPDAKRVLVGYPRL T0286 132 :PEAIKQYN 1esc 217 :LPVLDQIQ T0286 142 :IPGIVQQKANAG 1esc 227 :LNDAMKKAAADG T0286 155 :KVYFVKLSEIQFD 1esc 239 :GADFVDLYAGTGA T0286 169 :NTDISWDGLHLSEIGYKKIANIWYKYTIDIL 1esc 274 :LGTKIPWYAHPNDKGRDIQAKQVADKIEEIL Number of specific fragments extracted= 11 number of extra gaps= 2 total=40 Number of alignments=4 # 1esc read from 1esc/merged-good-all-a2m # found chain 1esc in template set Warning: unaligning (T0286)K4 because first residue in template chain is (1esc)D4 Warning: unaligning (T0286)G12 because of BadResidue code BAD_PEPTIDE in next template residue (1esc)D13 Warning: unaligning (T0286)D13 because of BadResidue code BAD_PEPTIDE at template residue (1esc)D13 Warning: unaligning (T0286)A140 because of BadResidue code BAD_PEPTIDE in next template residue (1esc)R226 Warning: unaligning (T0286)V141 because of BadResidue code BAD_PEPTIDE at template residue (1esc)R226 T0286 5 :TIKIMPV 1esc 5 :PVPTVFF T0286 14 :SCTEGMGGGEMG 1esc 14 :SYTANFGIAPVT T0286 26 :SYRTELYRLLTQAGLSIDFVGSQ 1esc 40 :NYPAVATRSLADKGITLDVQADV T0286 62 :GHSGWTIPQIAS 1esc 63 :SCGGALIHHFWE T0286 74 :NINNWLNT 1esc 87 :PQQDALKQ T0286 83 :NPDVVFLWIGGND 1esc 95 :DTQLTVGSLGGNT T0286 96 :LLLN 1esc 134 :GDEP T0286 100 :GNLNATGLSNLIDQIFTVKPNVTLFVADYYPW 1esc 158 :FERVGAELEELLDRIGYFAPDAKRVLVGYPRL T0286 132 :PEAIKQYN 1esc 217 :LPVLDQIQ T0286 142 :IPGIVQQKANAG 1esc 227 :LNDAMKKAAADG T0286 155 :KVYFVKLSEIQFDRNT 1esc 239 :GADFVDLYAGTGANTA T0286 172 :ISW 1esc 278 :IPW T0286 176 :GLHLSEIGYKKIANIWYKYTIDIL 1esc 281 :YAHPNDKGRDIQAKQVADKIEEIL Number of specific fragments extracted= 13 number of extra gaps= 2 total=53 Number of alignments=5 # 1esc read from 1esc/merged-good-all-a2m # found chain 1esc in template set Warning: unaligning (T0286)K4 because first residue in template chain is (1esc)D4 Warning: unaligning (T0286)G12 because of BadResidue code BAD_PEPTIDE in next template residue (1esc)D13 Warning: unaligning (T0286)D13 because of BadResidue code BAD_PEPTIDE at template residue (1esc)D13 Warning: unaligning (T0286)A140 because of BadResidue code BAD_PEPTIDE in next template residue (1esc)R226 Warning: unaligning (T0286)V141 because of BadResidue code BAD_PEPTIDE at template residue (1esc)R226 T0286 5 :TIKIMPV 1esc 5 :PVPTVFF T0286 14 :SCTEGMGGGE 1esc 14 :SYTANFGIAP T0286 24 :MGSYRTELYRLLTQAGLSIDFVGSQRSGPSSLPDK 1esc 38 :KENYPAVATRSLADKGITLDVQADVSCGGALIHHF T0286 76 :NN 1esc 73 :WE T0286 78 :WLNTHNPDVVFLWIGGNDLLLNG 1esc 90 :DALKQDTQLTVGSLGGNTLGFNR T0286 101 :NLNATGLSNLIDQIFTVKPNVTLFVADYYP 1esc 159 :ERVGAELEELLDRIGYFAPDAKRVLVGYPR T0286 131 :WPEAIKQYN 1esc 216 :ALPVLDQIQ T0286 142 :IPGIVQQKANAGKKVYF 1esc 227 :LNDAMKKAAADGGADFV T0286 160 :KLSEIQFDR 1esc 244 :DLYAGTGAN T0286 169 :NTDISWDGLHLSEIGYKKIANIWYKYTIDI 1esc 274 :LGTKIPWYAHPNDKGRDIQAKQVADKIEEI Number of specific fragments extracted= 10 number of extra gaps= 2 total=63 Number of alignments=6 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2aebA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2aebA expands to /projects/compbio/data/pdb/2aeb.pdb.gz 2aebA:Skipped atom 2231, because occupancy 0.29 <= existing 0.710 in 2aebA Skipped atom 2233, because occupancy 0.290 <= existing 0.710 in 2aebA Skipped atom 2235, because occupancy 0.290 <= existing 0.710 in 2aebA Skipped atom 2237, because occupancy 0.290 <= existing 0.710 in 2aebA Skipped atom 2239, because occupancy 0.290 <= existing 0.710 in 2aebA # T0286 read from 2aebA/merged-good-all-a2m # 2aebA read from 2aebA/merged-good-all-a2m # adding 2aebA to template set # found chain 2aebA in template set Warning: unaligning (T0286)T5 because first residue in template chain is (2aebA)S5 Warning: unaligning (T0286)I6 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)R6 Warning: unaligning (T0286)K7 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)T7 Warning: unaligning (T0286)Q37 because of BadResidue code BAD_PEPTIDE in next template residue (2aebA)Q43 Warning: unaligning (T0286)A38 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)Q43 Warning: unaligning (T0286)G39 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)E44 Warning: unaligning (T0286)L40 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2aebA)C45 Warning: unaligning (T0286)S50 because of BadResidue code BAD_PEPTIDE in next template residue (2aebA)A56 Warning: unaligning (T0286)G51 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)A56 Warning: unaligning (T0286)I91 because of BadResidue code BAD_PEPTIDE in next template residue (2aebA)G99 Warning: unaligning (T0286)G92 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)G99 Warning: unaligning (T0286)Y128 because of BadResidue code BAD_PEPTIDE in next template residue (2aebA)H126 Warning: unaligning (T0286)Y129 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)H126 Warning: unaligning (T0286)I182 because of BadResidue code BAD_PEPTIDE in next template residue (2aebA)E256 Warning: unaligning (T0286)G183 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)E256 T0286 8 :IMPVGDSCTEGMGGGEMGSYRTELYR 2aebA 8 :IGIIGAPFSKGQPRGGVEEGPTVLRK T0286 34 :LLT 2aebA 39 :KLK T0286 41 :SIDFVGSQR 2aebA 46 :DVKDYGDLP T0286 52 :PSSLPDKDHEGHSGWTIPQIA 2aebA 57 :DIPNDSPFQIVKNPRSVGKAS T0286 73 :SNINNWLNTH 2aebA 82 :GKVAEVKKNG T0286 85 :DVVFLW 2aebA 92 :RISLVL T0286 93 :GNDLLLN 2aebA 100 :DHSLAIG T0286 110 :LIDQIFTVKPNVTLFVAD 2aebA 107 :SISGHARVHPDLGVIWVD T0286 130 :PW 2aebA 127 :TD T0286 132 :PEAIKQY 2aebA 200 :MTEVDRL T0286 139 :NAVIPGIVQQKANAGK 2aebA 208 :IGKVMEETLSYLLGRK T0286 155 :KVYFVKLS 2aebA 225 :RPIHLSFD T0286 163 :EIQ 2aebA 234 :DGL T0286 168 :RNTDISWDGL 2aebA 237 :DPSFTPATGT T0286 178 :HLSE 2aebA 251 :GLTY T0286 184 :YKKIANIWYK 2aebA 257 :GLYITEEIYK Number of specific fragments extracted= 16 number of extra gaps= 5 total=79 Number of alignments=7 # 2aebA read from 2aebA/merged-good-all-a2m # found chain 2aebA in template set Warning: unaligning (T0286)T5 because first residue in template chain is (2aebA)S5 Warning: unaligning (T0286)I6 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)R6 Warning: unaligning (T0286)K7 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)T7 Warning: unaligning (T0286)Q37 because of BadResidue code BAD_PEPTIDE in next template residue (2aebA)Q43 Warning: unaligning (T0286)A38 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)Q43 Warning: unaligning (T0286)G39 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)E44 Warning: unaligning (T0286)L40 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2aebA)C45 Warning: unaligning (T0286)S50 because of BadResidue code BAD_PEPTIDE in next template residue (2aebA)A56 Warning: unaligning (T0286)G51 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)A56 Warning: unaligning (T0286)I91 because of BadResidue code BAD_PEPTIDE in next template residue (2aebA)G99 Warning: unaligning (T0286)G92 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)G99 Warning: unaligning (T0286)Y128 because of BadResidue code BAD_PEPTIDE in next template residue (2aebA)H126 Warning: unaligning (T0286)Y129 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)H126 Warning: unaligning (T0286)I182 because of BadResidue code BAD_PEPTIDE in next template residue (2aebA)E256 Warning: unaligning (T0286)G183 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)E256 T0286 8 :IMPVGDSCTEGMGGGEMGSYRTELYR 2aebA 8 :IGIIGAPFSKGQPRGGVEEGPTVLRK T0286 34 :LLT 2aebA 39 :KLK T0286 41 :SIDFVGSQR 2aebA 46 :DVKDYGDLP T0286 52 :PSSLPDKDHEGHSGWTI 2aebA 57 :DIPNDSPFQIVKNPRSV T0286 69 :PQIASNINNWLNTH 2aebA 78 :EQLAGKVAEVKKNG T0286 85 :DVVFLW 2aebA 92 :RISLVL T0286 93 :GND 2aebA 100 :DHS T0286 110 :LIDQIFTVKPNVTLFVAD 2aebA 107 :SISGHARVHPDLGVIWVD T0286 130 :PW 2aebA 127 :TD T0286 132 :PEAIKQY 2aebA 200 :MTEVDRL T0286 139 :NAVIPGIVQQKANAGK 2aebA 208 :IGKVMEETLSYLLGRK T0286 155 :KVYFVKLS 2aebA 225 :RPIHLSFD T0286 163 :EIQFDRNT 2aebA 234 :DGLDPSFT T0286 175 :DGL 2aebA 246 :TPV T0286 178 :HLSE 2aebA 251 :GLTY T0286 184 :YKKIANIWYK 2aebA 257 :GLYITEEIYK Number of specific fragments extracted= 16 number of extra gaps= 5 total=95 Number of alignments=8 # 2aebA read from 2aebA/merged-good-all-a2m # found chain 2aebA in template set Warning: unaligning (T0286)T5 because first residue in template chain is (2aebA)S5 Warning: unaligning (T0286)I6 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)R6 Warning: unaligning (T0286)K7 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)T7 Warning: unaligning (T0286)Q37 because of BadResidue code BAD_PEPTIDE in next template residue (2aebA)Q43 Warning: unaligning (T0286)A38 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)Q43 Warning: unaligning (T0286)G39 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)E44 Warning: unaligning (T0286)L40 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2aebA)C45 Warning: unaligning (T0286)S50 because of BadResidue code BAD_PEPTIDE in next template residue (2aebA)A56 Warning: unaligning (T0286)I91 because of BadResidue code BAD_PEPTIDE in next template residue (2aebA)G99 Warning: unaligning (T0286)G92 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)G99 Warning: unaligning (T0286)Y128 because of BadResidue code BAD_PEPTIDE in next template residue (2aebA)H126 Warning: unaligning (T0286)Y129 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)H126 Warning: unaligning (T0286)I182 because of BadResidue code BAD_PEPTIDE in next template residue (2aebA)E256 Warning: unaligning (T0286)G183 because of BadResidue code BAD_PEPTIDE at template residue (2aebA)E256 T0286 8 :IMPVGDSCTEGMGGGEMGSYRTELYR 2aebA 8 :IGIIGAPFSKGQPRGGVEEGPTVLRK T0286 34 :LLT 2aebA 39 :KLK T0286 41 :SIDFVGSQR 2aebA 46 :DVKDYGDLP T0286 51 :GPSSLPDKDHEGHSGWTIPQIASNINNWLNTHN 2aebA 60 :NDSPFQIVKNPRSVGKASEQLAGKVAEVKKNGR T0286 86 :VVFLW 2aebA 93 :ISLVL T0286 93 :GNDLLLN 2aebA 100 :DHSLAIG T0286 110 :LIDQIFTVKPNVTLFVAD 2aebA 107 :SISGHARVHPDLGVIWVD T0286 130 :P 2aebA 127 :T T0286 131 :WPEAIKQY 2aebA 199 :SMTEVDRL T0286 139 :NAVIPGIVQQKANAGKKVYFVKLSEIQFDR 2aebA 209 :GKVMEETLSYLLGRKKRPIHLSFDVDGLDP T0286 169 :NTDISWDGL 2aebA 240 :FTPATGTPV T0286 179 :LSE 2aebA 252 :LTY T0286 184 :YKKIANIWYKY 2aebA 257 :GLYITEEIYKT Number of specific fragments extracted= 13 number of extra gaps= 5 total=108 Number of alignments=9 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1xel/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1xel expands to /projects/compbio/data/pdb/1xel.pdb.gz 1xel:Warning: there is no chain 1xel will retry with 1xelA # T0286 read from 1xel/merged-good-all-a2m # 1xel read from 1xel/merged-good-all-a2m # adding 1xel to template set # found chain 1xel in template set Warning: unaligning (T0286)I6 because first residue in template chain is (1xel)M1 T0286 7 :KIMPVGD 1xel 2 :RVLVTGG T0286 24 :MGSYRTELYRLLTQAGLSIDFVGSQ 1xel 9 :SGYIGSHTCVQLLQNGHDVIILDNL T0286 62 :GHSGWTIPQIA 1xel 34 :CNSKRSVLPVI T0286 73 :SNINNWLNTHNPDVVFLWIGGNDLL 1xel 63 :ALMTEILHDHAIDTVIHFAGLKAVG T0286 104 :ATGLSNLIDQIFTV 1xel 101 :VNGTLRLISAMRAA T0286 120 :NVTLFVADYYPW 1xel 115 :NVKNFIFSSSAT T0286 132 :PEAIKQYNAVIPGIVQQKANAGKKVYFV 1xel 146 :QSPYGKSKLMVEQILTDLQKAQPDWSIA T0286 160 :KLSEIQFD 1xel 176 :RYFNPVGA T0286 168 :RNTDISW 1xel 223 :PTEDGTG T0286 175 :DGLHLSE 1xel 232 :DYIHVMD T0286 182 :IGYKKIANIW 1xel 241 :DGHVVAMEKL T0286 192 :YKYTIDILRALAGE 1xel 269 :VLDVVNAFSKACGK Number of specific fragments extracted= 12 number of extra gaps= 0 total=120 Number of alignments=10 # 1xel read from 1xel/merged-good-all-a2m # found chain 1xel in template set Warning: unaligning (T0286)I6 because first residue in template chain is (1xel)M1 T0286 7 :KIMPVGDSCT 1xel 2 :RVLVTGGSGY T0286 27 :YRTELYRLLTQAGLSIDFVGSQ 1xel 12 :IGSHTCVQLLQNGHDVIILDNL T0286 62 :GHSGWTIPQIAS 1xel 34 :CNSKRSVLPVIE T0286 74 :NINNWLNTHNPDVVFLWIGGND 1xel 64 :LMTEILHDHAIDTVIHFAGLKA T0286 99 :NGNLNATG 1xel 92 :KPLEYYDN T0286 107 :LSNLIDQIFTV 1xel 104 :TLRLISAMRAA T0286 120 :NVTLFVADYYPW 1xel 115 :NVKNFIFSSSAT T0286 132 :PEAIKQYNAVIPGIVQQKANAGKKVYFV 1xel 146 :QSPYGKSKLMVEQILTDLQKAQPDWSIA T0286 160 :KLSEIQFDRNT 1xel 176 :RYFNPVGAHPS T0286 171 :DISWDGLHLS 1xel 228 :TGVRDYIHVM T0286 181 :EIGYKKIANIW 1xel 240 :ADGHVVAMEKL T0286 192 :YKYTIDILRALAGE 1xel 269 :VLDVVNAFSKACGK Number of specific fragments extracted= 12 number of extra gaps= 0 total=132 Number of alignments=11 # 1xel read from 1xel/merged-good-all-a2m # found chain 1xel in template set T0286 2 :ASKTIKIMP 1xel 23 :NGHDVIILD T0286 18 :GMGGGE 1xel 33 :LCNSKR T0286 24 :MGSYRTELYRLLTQAGLSIDFVGSQRS 1xel 58 :DIRNEALMTEILHDHAIDTVIHFAGLK T0286 67 :TIPQIASNINN 1xel 92 :KPLEYYDNNVN T0286 78 :WLNTHNPDVVFLWIGGNDLLLNG 1xel 110 :AMRAANVKNFIFSSSATVYGDNP T0286 101 :NLNATGLSNLIDQIFTV 1xel 147 :SPYGKSKLMVEQILTDL T0286 118 :KPNVTLFVADYYP 1xel 167 :QPDWSIALLRYFN T0286 131 :WPEAIK 1xel 197 :PNNLMP T0286 145 :IVQQKANAGKKVYFVKLSEIQFDRNT 1xel 203 :YIAQVAVGRRDSLAIFGNDYPTEDGT T0286 172 :ISWDGLH 1xel 229 :GVRDYIH T0286 184 :YKKIANIW 1xel 236 :VMDLADGH T0286 196 :IDILRALAG 1xel 244 :VVAMEKLAN Number of specific fragments extracted= 12 number of extra gaps= 0 total=144 Number of alignments=12 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1vbuA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1vbuA expands to /projects/compbio/data/pdb/1vbu.pdb.gz 1vbuA:# T0286 read from 1vbuA/merged-good-all-a2m # 1vbuA read from 1vbuA/merged-good-all-a2m # adding 1vbuA to template set # found chain 1vbuA in template set Warning: unaligning (T0286)D13 because of BadResidue code BAD_PEPTIDE in next template residue (1vbuA)T599 Warning: unaligning (T0286)S14 because of BadResidue code BAD_PEPTIDE at template residue (1vbuA)T599 Warning: unaligning (T0286)L202 because last residue in template chain is (1vbuA)R840 T0286 10 :PVG 1vbuA 595 :VHG T0286 15 :CTEGMGGGE 1vbuA 600 :LVWHNQLPG T0286 26 :SYRTELYRLLTQAGLSIDF 1vbuA 667 :EYIEKAFRWAKEADPDAIL T0286 45 :VGSQRS 1vbuA 687 :YNDYSI T0286 62 :GHSGWTIPQIASNINNWLNTH 1vbuA 693 :EEINAKSNFVYNMIKELKEKG T0286 83 :NPDVVFLWIGGN 1vbuA 715 :PVDGIGFQMHID T0286 99 :NGNLNATGLSNLIDQIFTV 1vbuA 727 :YRGLNYDSFRRNLERFAKL T0286 120 :NVTLFVADYYPW 1vbuA 746 :GLQIYITEMDVR T0286 132 :PEAIKQYNAVIPGIVQQKAN 1vbuA 761 :SGSEEYYLKKQAEVCAKIFD T0286 152 :AGKKVYFVKLSEIQFD 1vbuA 784 :DNPAVKAIQFWGFTDK T0286 169 :NTDISWDGLHLSE 1vbuA 812 :KALLFDENYNPKP T0286 187 :IANIWYKYTIDILRA 1vbuA 825 :CYYAIKEVLEKKIEE Number of specific fragments extracted= 12 number of extra gaps= 1 total=156 Number of alignments=13 # 1vbuA read from 1vbuA/merged-good-all-a2m # found chain 1vbuA in template set Warning: unaligning (T0286)V45 because of BadResidue code BAD_PEPTIDE in next template residue (1vbuA)T599 Warning: unaligning (T0286)G46 because of BadResidue code BAD_PEPTIDE at template residue (1vbuA)T599 Warning: unaligning (T0286)L202 because last residue in template chain is (1vbuA)R840 T0286 6 :IKIMPVG 1vbuA 528 :IYIGFAA T0286 17 :EGMGGGEMG 1vbuA 535 :INNFWSLSD T0286 26 :SYRTELYRLLTQAGLSIDF 1vbuA 579 :TPAEKHVEFAEENDMIVHG T0286 47 :SQRSGPSSLP 1vbuA 600 :LVWHNQLPGW T0286 74 :NINNWLNTHNP 1vbuA 705 :MIKELKEKGVP T0286 85 :DVVFLWIGGNDLLLNGNLN 1vbuA 717 :DGIGFQMHIDYRGLNYDSF T0286 108 :SNLIDQIFTV 1vbuA 736 :RRNLERFAKL T0286 120 :NVTLFVADYYPW 1vbuA 746 :GLQIYITEMDVR T0286 132 :PEAIKQYNAVIPGIVQQ 1vbuA 761 :SGSEEYYLKKQAEVCAK T0286 149 :KANAGKKVYFVKLSEIQFDRNT 1vbuA 781 :ICLDNPAVKAIQFWGFTDKYSW T0286 171 :DISWDGLHLSE 1vbuA 814 :LLFDENYNPKP T0286 187 :IANIWYKYTIDILRA 1vbuA 825 :CYYAIKEVLEKKIEE Number of specific fragments extracted= 12 number of extra gaps= 1 total=168 Number of alignments=14 # 1vbuA read from 1vbuA/merged-good-all-a2m # found chain 1vbuA in template set Warning: unaligning (T0286)V45 because of BadResidue code BAD_PEPTIDE in next template residue (1vbuA)T599 Warning: unaligning (T0286)G46 because of BadResidue code BAD_PEPTIDE at template residue (1vbuA)T599 T0286 29 :TELYRLLTQAGLSIDF 1vbuA 582 :EKHVEFAEENDMIVHG T0286 47 :SQRSGPSSLPDKDH 1vbuA 600 :LVWHNQLPGWITGR T0286 65 :GWTIPQIASNINN 1vbuA 614 :EWTKEELLNVLED T0286 78 :WLNTHNPDVVFLWIGGN 1vbuA 710 :KEKGVPVDGIGFQMHID T0286 101 :NLNATGLSNLIDQIFTV 1vbuA 729 :GLNYDSFRRNLERFAKL T0286 120 :NVTLFVADYYP 1vbuA 746 :GLQIYITEMDV T0286 131 :WPEAIKQYNAVIPGIVQQKANAGKKVYFVKLS 1vbuA 764 :EEYYLKKQAEVCAKIFDICLDNPAVKAIQFWG T0286 164 :IQ 1vbuA 796 :FT T0286 169 :NTDISWDGLHLSE 1vbuA 812 :KALLFDENYNPKP T0286 187 :IANIWYKYTIDILR 1vbuA 825 :CYYAIKEVLEKKIE Number of specific fragments extracted= 10 number of extra gaps= 1 total=178 Number of alignments=15 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1udc/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1udc expands to /projects/compbio/data/pdb/1udc.pdb.gz 1udc:Warning: there is no chain 1udc will retry with 1udcA # T0286 read from 1udc/merged-good-all-a2m # 1udc read from 1udc/merged-good-all-a2m # adding 1udc to template set # found chain 1udc in template set Warning: unaligning (T0286)I6 because first residue in template chain is (1udc)M1 T0286 7 :KIMPVGDS 1udc 2 :RVLVTGGS T0286 25 :GSYRTELYRLLTQAGLSIDFVGSQ 1udc 10 :GYIGSHTCVQLLQNGHDVIILDNL T0286 62 :GHSGWTIPQIA 1udc 34 :CNSKRSVLPVI T0286 73 :SNINNWLNTHNPDVVFLWIGGNDLL 1udc 63 :ALMTEILHDHAIDTVIHFAGLKAVG T0286 104 :ATGLSNLIDQIFTV 1udc 101 :VNGTLRLISAMRAA T0286 120 :NVTLFVADYYPW 1udc 115 :NVKNFIFSSSAT T0286 132 :PEAIKQYNAVIPGIVQQKANAGKKVYFV 1udc 146 :QSPYGKSKLMVEQILTDLQKAQPDWSIA T0286 160 :KLSEIQFD 1udc 176 :RYFNPVGA T0286 170 :TDISW 1udc 225 :EDGTG T0286 175 :DGLHLSE 1udc 232 :DYIHVMD T0286 182 :IGYKKIANIW 1udc 241 :DGHVVAMEKL T0286 192 :YKYTIDILRALAGE 1udc 269 :VLDVVNAFSKACGK Number of specific fragments extracted= 12 number of extra gaps= 0 total=190 Number of alignments=16 # 1udc read from 1udc/merged-good-all-a2m # found chain 1udc in template set Warning: unaligning (T0286)I6 because first residue in template chain is (1udc)M1 T0286 7 :KIMPVGDSCT 1udc 2 :RVLVTGGSGY T0286 27 :YRTELYRLLTQAGLSIDFVGSQ 1udc 12 :IGSHTCVQLLQNGHDVIILDNL T0286 62 :GHSGWTIPQIAS 1udc 34 :CNSKRSVLPVIE T0286 74 :NINNWLNTHNPDVVFLWIGGND 1udc 64 :LMTEILHDHAIDTVIHFAGLKA T0286 99 :NGNLNATG 1udc 92 :KPLEYYDN T0286 107 :LSNLIDQIFTV 1udc 104 :TLRLISAMRAA T0286 120 :NVTLFVADYYPW 1udc 115 :NVKNFIFSSSAT T0286 132 :PEAIKQYNAVIPGIVQQKANAGK 1udc 146 :QSPYGKSKLMVEQILTDLQKAQP T0286 155 :KVYFVKLSEIQFDRNT 1udc 171 :SIALLRYFNPVGAHPS T0286 171 :DISWDGLHLS 1udc 228 :TGVRDYIHVM T0286 181 :EIGYKKIANIW 1udc 240 :ADGHVVAMEKL T0286 192 :YKYTIDILRAL 1udc 269 :VLDVVNAFSKA Number of specific fragments extracted= 12 number of extra gaps= 0 total=202 Number of alignments=17 # 1udc read from 1udc/merged-good-all-a2m # found chain 1udc in template set T0286 2 :ASKTIKIMP 1udc 23 :NGHDVIILD T0286 18 :GMGGGE 1udc 33 :LCNSKR T0286 24 :MGSYRTELYRLLTQAGLSIDFVGSQRS 1udc 58 :DIRNEALMTEILHDHAIDTVIHFAGLK T0286 67 :TIPQIASNINN 1udc 92 :KPLEYYDNNVN T0286 78 :WLNTHNPDVVFLWIGGNDLLLNG 1udc 110 :AMRAANVKNFIFSSSATVYGDQP T0286 101 :NLNATGLSNLIDQIFTV 1udc 147 :SPYGKSKLMVEQILTDL T0286 118 :KPNVTLFVADYYP 1udc 167 :QPDWSIALLRYFN T0286 132 :PEAIK 1udc 198 :NNLMP T0286 145 :IVQQKANAGKKVYFVKLSEIQFDR 1udc 203 :YIAQVAVGRRDSLAIFGNDYPTED T0286 170 :TDISWDGLH 1udc 227 :GTGVRDYIH T0286 188 :ANIWYKYTIDILRALAGE 1udc 236 :VMDLADGHVVAMEKLANK Number of specific fragments extracted= 11 number of extra gaps= 0 total=213 Number of alignments=18 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1oy1A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1oy1A expands to /projects/compbio/data/pdb/1oy1.pdb.gz 1oy1A: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 # T0286 read from 1oy1A/merged-good-all-a2m # 1oy1A read from 1oy1A/merged-good-all-a2m # adding 1oy1A to template set # found chain 1oy1A in template set T0286 6 :IKIMPVG 1oy1A 5 :KKIGVIL T0286 15 :CTEGMGGGEMGSYRTELYRLLTQAGLSIDFVGSQRSGPSSLPDKD 1oy1A 12 :SGCGVYDGSEIHEAVLTLLAISRSGAQAVCFAPDKQQVDVINHLT T0286 62 :GHSGWTIPQIASNINNWL 1oy1A 57 :GEAMTETRNVLIEAARIT T0286 80 :NTHN 1oy1A 82 :AQAD T0286 84 :PDVVFLWIGGNDLLLNGNLN 1oy1A 89 :LDALIVPGGFGAAKNLSNFA T0286 104 :ATGLSNLIDQIFTV 1oy1A 117 :DRELKALAQAMHQA T0286 120 :NVTLFVADYYPW 1oy1A 131 :GKPLGFMCIAPA T0286 132 :PEA 1oy1A 159 :DID T0286 146 :VQQKANAG 1oy1A 162 :TAEVLEEM T0286 155 :KVYFVKLS 1oy1A 170 :GAEHVPCP T0286 163 :EIQFD 1oy1A 180 :DIVVD T0286 177 :LHLSEIGYKKIANIWYKYTIDILR 1oy1A 197 :LAQNIAEAASGIDKLVSRVLVLAE Number of specific fragments extracted= 12 number of extra gaps= 0 total=225 Number of alignments=19 # 1oy1A read from 1oy1A/merged-good-all-a2m # found chain 1oy1A in template set Warning: unaligning (T0286)T5 because first residue in template chain is (1oy1A)M4 T0286 6 :IKIMPVGD 1oy1A 5 :KKIGVILS T0286 17 :EGMGGGEMGSYRTELYRLLTQAGLSIDFVGSQRSGPSSLPDKD 1oy1A 14 :CGVYDGSEIHEAVLTLLAISRSGAQAVCFAPDKQQVDVINHLT T0286 62 :GHSGWTIPQIASNINNWLNT 1oy1A 57 :GEAMTETRNVLIEAARITRG T0286 83 :N 1oy1A 77 :E T0286 84 :PDVVFLWIGGND 1oy1A 89 :LDALIVPGGFGA T0286 96 :LLLN 1oy1A 114 :CTVD T0286 105 :TGLSNLIDQIFTV 1oy1A 118 :RELKALAQAMHQA T0286 120 :NVTLFVADYYPW 1oy1A 131 :GKPLGFMCIAPA T0286 132 :PEA 1oy1A 159 :DID T0286 146 :VQQKANAG 1oy1A 162 :TAEVLEEM T0286 155 :KVYFVKLS 1oy1A 170 :GAEHVPCP T0286 163 :EIQFDRNT 1oy1A 180 :DIVVDEDN T0286 171 :DISWD 1oy1A 195 :YMLAQ T0286 180 :SEIGYKKIANIWYKYTIDIL 1oy1A 200 :NIAEAASGIDKLVSRVLVLA Number of specific fragments extracted= 14 number of extra gaps= 0 total=239 Number of alignments=20 # 1oy1A read from 1oy1A/merged-good-all-a2m # found chain 1oy1A in template set T0286 4 :KTIKIMPVG 1oy1A 5 :KKIGVILSG T0286 17 :EGMGGGEMGSYRTELYRLLTQAGLSIDFVGSQRSGPSSLPDKDHEGHSG 1oy1A 14 :CGVYDGSEIHEAVLTLLAISRSGAQAVCFAPDKQQVDVINHLTGEAMTE T0286 66 :WTIPQIASNINN 1oy1A 64 :RNVLIEAARITR T0286 78 :WLNTHNPDVVFLWIGGN 1oy1A 83 :QADAAELDALIVPGGFG T0286 96 :LLLNG 1oy1A 100 :AAKNL T0286 101 :NLNATGLSNLIDQIFT 1oy1A 114 :CTVDRELKALAQAMHQ T0286 119 :PNVTLFVADYYP 1oy1A 130 :AGKPLGFMCIAP T0286 131 :WPE 1oy1A 159 :DID T0286 146 :VQQKANAGKKVYFVKLSEIQF 1oy1A 162 :TAEVLEEMGAEHVPCPVDDIV T0286 169 :NTDISWDG 1oy1A 193 :PAYMLAQN T0286 181 :EIGYKKIANIWYKYT 1oy1A 205 :ASGIDKLVSRVLVLA Number of specific fragments extracted= 11 number of extra gaps= 0 total=250 Number of alignments=21 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ivnA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ivnA expands to /projects/compbio/data/pdb/1ivn.pdb.gz 1ivnA:# T0286 read from 1ivnA/merged-good-all-a2m # 1ivnA read from 1ivnA/merged-good-all-a2m # adding 1ivnA to template set # found chain 1ivnA in template set Warning: unaligning (T0286)T5 because first residue in template chain is (1ivnA)A1 Warning: unaligning (T0286)L35 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1ivnA)S33 Warning: unaligning (T0286)Q37 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1ivnA)S33 T0286 6 :IKIMPVGDSCTEGMGGGEMGSYRTELYRL 1ivnA 2 :DTLLILGDSLSAGYRMSASAAWPALLNDK T0286 41 :SIDFVGS 1ivnA 34 :KTSVVNA T0286 62 :GHSGWTIPQIASNINNWLNTHNPDVVFLWIGGNDLLLNGNLN 1ivnA 41 :SISGDTSQQGLARLPALLKQHQPRWVLVELGGNDGLRGFQPQ T0286 104 :ATGLSNLIDQIFTV 1ivnA 85 :EQTLRQILQDVKAA T0286 120 :NVTLFVADYYPWPEAIKQYNAVIPGIVQQKANAGK 1ivnA 99 :NAEPLLMQIRLPANYGRRYNEAFSAIYPKLAKEFD T0286 156 :VYFVKLS 1ivnA 134 :VPLLPFF T0286 163 :EIQFDRNTDISWDGLHLSEIGYKKIANIWYKYTI 1ivnA 142 :EEVYLKPQWMQDDGIHPNRDAQPFIADWMAKQLQ Number of specific fragments extracted= 7 number of extra gaps= 0 total=257 Number of alignments=22 # 1ivnA read from 1ivnA/merged-good-all-a2m # found chain 1ivnA in template set Warning: unaligning (T0286)T5 because first residue in template chain is (1ivnA)A1 Warning: unaligning (T0286)L35 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1ivnA)S33 Warning: unaligning (T0286)L40 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1ivnA)S33 T0286 6 :IKIMPVGDSCTEGMGGGEMGSYRTELYRL 1ivnA 2 :DTLLILGDSLSAGYRMSASAAWPALLNDK T0286 41 :SIDFVGS 1ivnA 34 :KTSVVNA T0286 62 :GHSGWTIPQIASNINNWLNTHNPDVVFLWIGGND 1ivnA 41 :SISGDTSQQGLARLPALLKQHQPRWVLVELGGND T0286 96 :LLLNGNLNATGLSNLIDQIFTV 1ivnA 77 :RGFQPQQTEQTLRQILQDVKAA T0286 120 :NVTLFVADYYPWPEAIKQYNAVIPGIVQQKANAGK 1ivnA 99 :NAEPLLMQIRLPANYGRRYNEAFSAIYPKLAKEFD T0286 156 :VYFVKLS 1ivnA 134 :VPLLPFF T0286 163 :EIQFDRNTDISWDGLHLSEIGYKKIANIWYKYTI 1ivnA 142 :EEVYLKPQWMQDDGIHPNRDAQPFIADWMAKQLQ Number of specific fragments extracted= 7 number of extra gaps= 0 total=264 Number of alignments=23 # 1ivnA read from 1ivnA/merged-good-all-a2m # found chain 1ivnA in template set Warning: unaligning (T0286)L35 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1ivnA)S33 Warning: unaligning (T0286)Q37 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1ivnA)S33 T0286 7 :KIMPVGDSCTEGMGGGEMGSYRTELYRL 1ivnA 3 :TLLILGDSLSAGYRMSASAAWPALLNDK T0286 41 :SIDFVGSQR 1ivnA 34 :KTSVVNASI T0286 64 :SGWTIPQIASNINNWLNTHNPDVVFLWIGGNDLLLNG 1ivnA 43 :SGDTSQQGLARLPALLKQHQPRWVLVELGGNDGLRGF T0286 101 :NLNATGLSNLIDQIFT 1ivnA 82 :QQTEQTLRQILQDVKA T0286 119 :PNVTLFVADYYPWPEAIKQYNAVIPGIVQQKANAGKKVYFVKLSEIQFDRNTDISWDGLHLSEIGYKKIANIWYKYT 1ivnA 98 :ANAEPLLMQIRLPANYGRRYNEAFSAIYPKLAKEFDVPLLPFFMEEVYLKPQWMQDDGIHPNRDAQPFIADWMAKQL Number of specific fragments extracted= 5 number of extra gaps= 0 total=269 Number of alignments=24 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1he2A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1he2A expands to /projects/compbio/data/pdb/1he2.pdb.gz 1he2A:Skipped atom 40, because occupancy 0.410 <= existing 0.590 in 1he2A Skipped atom 42, because occupancy 0.410 <= existing 0.590 in 1he2A Skipped atom 44, because occupancy 0.410 <= existing 0.590 in 1he2A Skipped atom 46, because occupancy 0.410 <= existing 0.590 in 1he2A Skipped atom 48, because occupancy 0.410 <= existing 0.590 in 1he2A Skipped atom 78, because occupancy 0.480 <= existing 0.520 in 1he2A Skipped atom 80, because occupancy 0.480 <= existing 0.520 in 1he2A Skipped atom 82, because occupancy 0.480 <= existing 0.520 in 1he2A Skipped atom 84, because occupancy 0.480 <= existing 0.520 in 1he2A Skipped atom 86, because occupancy 0.480 <= existing 0.520 in 1he2A Skipped atom 637, because occupancy 0.320 <= existing 0.680 in 1he2A Skipped atom 639, because occupancy 0.320 <= existing 0.680 in 1he2A Skipped atom 1055, because occupancy 0.350 <= existing 0.640 in 1he2A Skipped atom 1057, because occupancy 0.350 <= existing 0.640 in 1he2A Skipped atom 1059, because occupancy 0.350 <= existing 0.640 in 1he2A Skipped atom 1534, because occupancy 0.330 <= existing 0.670 in 1he2A Skipped atom 1536, because occupancy 0.330 <= existing 0.670 in 1he2A Skipped atom 1538, because occupancy 0.330 <= existing 0.670 in 1he2A Skipped atom 1540, because occupancy 0.330 <= existing 0.670 in 1he2A Skipped atom 2145, because occupancy 0.320 <= existing 0.680 in 1he2A Skipped atom 2147, because occupancy 0.320 <= existing 0.680 in 1he2A Skipped atom 2149, because occupancy 0.320 <= existing 0.680 in 1he2A Skipped atom 2151, because occupancy 0.320 <= existing 0.680 in 1he2A Skipped atom 2345, because occupancy 0.430 <= existing 0.570 in 1he2A Skipped atom 2347, because occupancy 0.430 <= existing 0.570 in 1he2A Skipped atom 2349, because occupancy 0.430 <= existing 0.570 in 1he2A Skipped atom 2351, because occupancy 0.430 <= existing 0.570 in 1he2A Skipped atom 2381, because occupancy 0.230 <= existing 0.770 in 1he2A Skipped atom 2546, because occupancy 0.420 <= existing 0.580 in 1he2A Skipped atom 2548, because occupancy 0.420 <= existing 0.580 in 1he2A Skipped atom 2550, because occupancy 0.420 <= existing 0.580 in 1he2A Skipped atom 2552, because occupancy 0.420 <= existing 0.580 in 1he2A Skipped atom 2554, because occupancy 0.420 <= existing 0.580 in 1he2A Skipped atom 2556, because occupancy 0.420 <= existing 0.580 in 1he2A Skipped atom 2558, because occupancy 0.420 <= existing 0.580 in 1he2A Skipped atom 2641, because occupancy 0.200 <= existing 0.800 in 1he2A Skipped atom 2643, because occupancy 0.200 <= existing 0.800 in 1he2A Skipped atom 2645, because occupancy 0.200 <= existing 0.800 in 1he2A Skipped atom 2686, because occupancy 0.460 <= existing 0.540 in 1he2A Skipped atom 2688, because occupancy 0.460 <= existing 0.540 in 1he2A Skipped atom 2815, because occupancy 0.390 <= existing 0.610 in 1he2A Skipped atom 2817, because occupancy 0.390 <= existing 0.610 in 1he2A Skipped atom 2819, because occupancy 0.390 <= existing 0.610 in 1he2A # T0286 read from 1he2A/merged-good-all-a2m # 1he2A read from 1he2A/merged-good-all-a2m # adding 1he2A to template set # found chain 1he2A in template set T0286 6 :IKIMPVG 1he2A 4 :KKIAIFG T0286 23 :EMGSYRTELYRLLTQAGLSIDFVGSQRSGPSSLPDKDHEGHSGWTI 1he2A 11 :ATGQTGLTTLAQAVQAGYEVTVLVRDSSRLPSEGPRPAHVVVGDVL T0286 73 :SNINNWLNTH 1he2A 59 :ADVDKTVAGQ T0286 85 :DVVFLWIGGN 1he2A 69 :DAVIVLLGTR T0286 97 :LLNGNLN 1he2A 79 :NDLSPTT T0286 104 :ATGLSNLIDQIFTV 1he2A 88 :SEGARNIVAAMKAH T0286 120 :NVT 1he2A 102 :GVD T0286 123 :LFVADYYPW 1he2A 106 :VVACTSAFL T0286 132 :PEAIKQYNAVIPG 1he2A 122 :PPRLQAVTDDHIR T0286 146 :VQQKANAG 1he2A 135 :MHKVLRES T0286 155 :KVYFVKLS 1he2A 143 :GLKYVAVM T0286 163 :EIQFD 1he2A 152 :PHIGD T0286 168 :RNTDISWDGLHLS 1he2A 161 :GAYTVTLDGRGPS T0286 184 :YKKIANIWYK 1he2A 178 :KHDLGHFMLR Number of specific fragments extracted= 14 number of extra gaps= 0 total=283 Number of alignments=25 # 1he2A read from 1he2A/merged-good-all-a2m # found chain 1he2A in template set T0286 5 :TIKIMPVG 1he2A 3 :VKKIAIFG T0286 23 :EMGSYRTELYRLLTQAGLSIDFVGSQRSGPSSLPDKDHEGHSGWTIP 1he2A 11 :ATGQTGLTTLAQAVQAGYEVTVLVRDSSRLPSEGPRPAHVVVGDVLQ T0286 72 :ASNINNWLNTH 1he2A 58 :AADVDKTVAGQ T0286 85 :DVVFLWIGGNDLLLNGNLNATGLSNLIDQIFTV 1he2A 69 :DAVIVLLGTRNDLSPTTVMSEGARNIVAAMKAH T0286 120 :NVT 1he2A 102 :GVD T0286 123 :LFVADYYPW 1he2A 106 :VVACTSAFL T0286 132 :PEAIKQYNAVIPGIV 1he2A 122 :PPRLQAVTDDHIRMH T0286 148 :QKANAG 1he2A 137 :KVLRES T0286 155 :KVYFVKLS 1he2A 143 :GLKYVAVM T0286 163 :EIQFDRNT 1he2A 152 :PHIGDQPL T0286 171 :DISWDGLHLS 1he2A 164 :TVTLDGRGPS T0286 184 :YKKIANIWY 1he2A 178 :KHDLGHFML Number of specific fragments extracted= 12 number of extra gaps= 0 total=295 Number of alignments=26 # 1he2A read from 1he2A/merged-good-all-a2m # found chain 1he2A in template set T0286 7 :KIMPVG 1he2A 5 :KIAIFG T0286 23 :EMGSYRTELYRLLTQAGLSIDFVGSQRS 1he2A 11 :ATGQTGLTTLAQAVQAGYEVTVLVRDSS T0286 51 :GP 1he2A 53 :GD T0286 65 :GWTIPQIASNI 1he2A 55 :VLQAADVDKTV T0286 82 :HNPDVVFLWIGGN 1he2A 66 :AGQDAVIVLLGTR T0286 98 :LN 1he2A 79 :ND T0286 101 :NLNATGLSNLIDQIFTV 1he2A 85 :TVMSEGARNIVAAMKAH T0286 121 :V 1he2A 103 :V T0286 122 :TLFVADYYP 1he2A 105 :KVVACTSAF T0286 131 :WPEAIKQYNAVIPGIVQQKANAGKKVYFV 1he2A 121 :VPPRLQAVTDDHIRMHKVLRESGLKYVAV T0286 160 :KLSEIQFDRNTDISWDGL 1he2A 153 :HIGDQPLTGAYTVTLDGR Number of specific fragments extracted= 11 number of extra gaps= 0 total=306 Number of alignments=27 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1fxwF/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/T0286/1fxwF/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0286/1fxwF/merged-good-all-a2m.gz for input Trying 1fxwF/merged-good-all-a2m Error: Couldn't open file 1fxwF/merged-good-all-a2m or 1fxwF/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1bwp/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/T0286/1bwp/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0286/1bwp/merged-good-all-a2m.gz for input Trying 1bwp/merged-good-all-a2m Error: Couldn't open file 1bwp/merged-good-all-a2m or 1bwp/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1bwq/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/T0286/1bwq/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0286/1bwq/merged-good-all-a2m.gz for input Trying 1bwq/merged-good-all-a2m Error: Couldn't open file 1bwq/merged-good-all-a2m or 1bwq/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1vhqA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0286 read from 1vhqA/merged-good-all-a2m # 1vhqA read from 1vhqA/merged-good-all-a2m # found chain 1vhqA in training set Warning: unaligning (T0286)A126 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1vhqA)I139 Warning: unaligning (T0286)Y128 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1vhqA)I139 Warning: unaligning (T0286)R200 because last residue in template chain is (1vhqA)E220 T0286 6 :IKIMPVG 1vhqA 5 :KKIGVIL T0286 15 :CTEGMGGGEMGSYRTELYRLLTQAGLSIDFVGSQRSGPSSLPDKD 1vhqA 12 :SGCGVYDGSEIHEAVLTLLAISRSGAQAVCFAPDKQQVDVINHLT T0286 62 :GHSGWTIPQIA 1vhqA 57 :GEAMTETRNVL T0286 80 :NTHN 1vhqA 82 :AQAD T0286 84 :PDVVFLWIGGNDLLLNGNLN 1vhqA 89 :LDALIVPGGFGAAKNLSNFA T0286 104 :ATGLSNLIDQIFTV 1vhqA 117 :DRELKALAQAMHQA T0286 120 :NVTLFV 1vhqA 131 :GKPLGF T0286 129 :YPW 1vhqA 140 :APA T0286 132 :PEA 1vhqA 159 :DID T0286 146 :VQQKANAG 1vhqA 162 :TAEVLEEM T0286 155 :KVYFVKLS 1vhqA 170 :GAEHVPCP T0286 163 :EIQFD 1vhqA 180 :DIVVD T0286 169 :NTDIS 1vhqA 193 :PAYML T0286 178 :HLSEIGYKKIANIWYKYTIDIL 1vhqA 198 :AQNIAEAASGIDKLVSRVLVLA Number of specific fragments extracted= 14 number of extra gaps= 0 total=320 Number of alignments=28 # 1vhqA read from 1vhqA/merged-good-all-a2m # found chain 1vhqA in training set Warning: unaligning (T0286)T5 because first residue in template chain is (1vhqA)M4 Warning: unaligning (T0286)A126 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1vhqA)I139 Warning: unaligning (T0286)Y128 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1vhqA)I139 Warning: unaligning (T0286)R200 because last residue in template chain is (1vhqA)E220 T0286 6 :IKIMPVGD 1vhqA 5 :KKIGVILS T0286 17 :EGMGGGEMGSYRTELYRLLTQAGLSIDFVGSQRSGPSSLPDKD 1vhqA 14 :CGVYDGSEIHEAVLTLLAISRSGAQAVCFAPDKQQVDVINHLT T0286 62 :GHSGWTIPQIASNINNWL 1vhqA 57 :GEAMTETRNVLIEAARIT T0286 81 :THN 1vhqA 75 :RGE T0286 84 :PDVVFLWIG 1vhqA 89 :LDALIVPGG T0286 96 :LLLN 1vhqA 112 :SECT T0286 105 :TGLSNLIDQIFTV 1vhqA 118 :RELKALAQAMHQA T0286 120 :NVTLFV 1vhqA 131 :GKPLGF T0286 129 :YPW 1vhqA 140 :APA T0286 132 :PEA 1vhqA 159 :DID T0286 146 :VQQKANAG 1vhqA 162 :TAEVLEEM T0286 155 :KVYFVKLS 1vhqA 170 :GAEHVPCP T0286 163 :EIQFDRNT 1vhqA 180 :DIVVDEDN T0286 171 :DISWD 1vhqA 195 :YMLAQ T0286 180 :SEIGYKKIANIWYKYTIDIL 1vhqA 200 :NIAEAASGIDKLVSRVLVLA Number of specific fragments extracted= 15 number of extra gaps= 0 total=335 Number of alignments=29 # 1vhqA read from 1vhqA/merged-good-all-a2m # found chain 1vhqA in training set Warning: unaligning (T0286)A126 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1vhqA)I139 Warning: unaligning (T0286)Y128 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1vhqA)I139 T0286 4 :KTIKIMPVG 1vhqA 5 :KKIGVILSG T0286 17 :EGMGGGEMGSYRTELYRLLTQAGLSIDFVGSQRSGPSSLPDKDHEGHSGWT 1vhqA 14 :CGVYDGSEIHEAVLTLLAISRSGAQAVCFAPDKQQVDVINHLTGEAMTETR T0286 68 :IPQIASNINN 1vhqA 66 :VLIEAARITR T0286 78 :WLNTHNPDVVFLWIGGNDLLLNG 1vhqA 83 :QADAAELDALIVPGGFGAAKNLS T0286 101 :NLNATGLSNLIDQIFT 1vhqA 114 :CTVDRELKALAQAMHQ T0286 119 :PNVTLFV 1vhqA 130 :AGKPLGF T0286 129 :YP 1vhqA 140 :AP T0286 131 :WPEAIKQYNA 1vhqA 159 :DIDTAEVLEE T0286 153 :GKKVYFV 1vhqA 178 :VDDIVVD T0286 160 :KLSEIQFDRNTD 1vhqA 192 :TPAYMLAQNIAE T0286 180 :SEIGYKKIANIWYKYT 1vhqA 204 :AASGIDKLVSRVLVLA Number of specific fragments extracted= 11 number of extra gaps= 0 total=346 Number of alignments=30 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1bwr/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/T0286/1bwr/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0286/1bwr/merged-good-all-a2m.gz for input Trying 1bwr/merged-good-all-a2m Error: Couldn't open file 1bwr/merged-good-all-a2m or 1bwr/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1tmy/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1tmy expands to /projects/compbio/data/pdb/1tmy.pdb.gz 1tmy:Warning: there is no chain 1tmy will retry with 1tmyA # T0286 read from 1tmy/merged-good-all-a2m # 1tmy read from 1tmy/merged-good-all-a2m # adding 1tmy to template set # found chain 1tmy in template set Warning: unaligning (T0286)T5 because first residue in template chain is (1tmy)G2 T0286 6 :IKIMPVGD 1tmy 3 :KRVLIVDD T0286 24 :MGSYRTELYRLLTQA 1tmy 11 :AAFMRMMLKDIITKA T0286 41 :SIDFVGS 1tmy 26 :GYEVAGE T0286 62 :GH 1tmy 33 :AT T0286 67 :TIPQIASNIN 1tmy 35 :NGREAVEKYK T0286 81 :THNPDVVFLWIG 1tmy 45 :ELKPDIVTMDIT T0286 99 :NGNL 1tmy 57 :MPEM T0286 106 :GLSNLIDQIFTVKPNVTLFVADYYPWPEAIKQYNAV 1tmy 61 :NGIDAIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKA T0286 143 :PGIVQQKANA 1tmy 108 :PSRVVEALNK Number of specific fragments extracted= 9 number of extra gaps= 0 total=355 Number of alignments=31 # 1tmy read from 1tmy/merged-good-all-a2m # found chain 1tmy in template set Warning: unaligning (T0286)T5 because first residue in template chain is (1tmy)G2 T0286 6 :IKIMPVGD 1tmy 3 :KRVLIVDD T0286 26 :SYRTELYRLLTQAGLSIDFVGS 1tmy 13 :FMRMMLKDIITKAGYEVAGEAT T0286 67 :TIPQIA 1tmy 35 :NGREAV T0286 77 :NWLNTHNPDVVFLWIG 1tmy 41 :EKYKELKPDIVTMDIT T0286 99 :NGNL 1tmy 57 :MPEM T0286 106 :GLSNLIDQIFTVKPNVTLFVADYYPWPEAIKQYNAV 1tmy 61 :NGIDAIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKA T0286 143 :PGIVQQKANA 1tmy 108 :PSRVVEALNK Number of specific fragments extracted= 7 number of extra gaps= 0 total=362 Number of alignments=32 # 1tmy read from 1tmy/merged-good-all-a2m # found chain 1tmy in template set Warning: unaligning (T0286)S3 because first residue in template chain is (1tmy)G2 Warning: unaligning (T0286)Y157 because of BadResidue code BAD_PEPTIDE in next template residue (1tmy)I102 Warning: unaligning (T0286)F158 because of BadResidue code BAD_PEPTIDE at template residue (1tmy)I102 T0286 4 :KTIKIMP 1tmy 3 :KRVLIVD T0286 23 :EMGSYRTELYRLLTQAGLSIDFVGSQ 1tmy 10 :DAAFMRMMLKDIITKAGYEVAGEATN T0286 72 :ASNINNWLNTHNPDVVFLWI 1tmy 36 :GREAVEKYKELKPDIVTMDI T0286 104 :ATGLSNLIDQIFTVKPNVTLFVADYYPW 1tmy 59 :EMNGIDAIKEIMKIDPNAKIIVCSAMGQ T0286 143 :PGIVQQKANAGKKV 1tmy 87 :QAMVIEAIKAGAKD T0286 159 :V 1tmy 103 :V T0286 166 :FDR 1tmy 106 :FQP T0286 193 :KYTIDILRAL 1tmy 109 :SRVVEALNKV Number of specific fragments extracted= 8 number of extra gaps= 1 total=370 Number of alignments=33 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1es9A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0286 read from 1es9A/merged-good-all-a2m # 1es9A read from 1es9A/merged-good-all-a2m # found chain 1es9A in training set Warning: unaligning (T0286)Y32 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1es9A)Q54 Warning: unaligning (T0286)R33 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1es9A)Q54 Warning: unaligning (T0286)L34 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1es9A)C55 Warning: unaligning (T0286)L35 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1es9A)W58 Warning: unaligning (T0286)Q37 because of BadResidue code BAD_PEPTIDE in next template residue (1es9A)L61 Warning: unaligning (T0286)A38 because of BadResidue code BAD_PEPTIDE at template residue (1es9A)L61 Warning: unaligning (T0286)G39 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1es9A)F62 Warning: unaligning (T0286)N76 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1es9A)G87 Warning: unaligning (T0286)N77 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1es9A)G87 Warning: unaligning (T0286)D167 because of BadResidue code CHAIN_BREAK_BEFORE in next template residue (1es9A)S181 Warning: unaligning (T0286)L199 because last residue in template chain is (1es9A)L216 T0286 3 :SKTIKIMPVGDSCTE 1es9A 36 :DKEPEVVFIGDSLVQ T0286 30 :EL 1es9A 51 :LM T0286 36 :T 1es9A 59 :R T0286 40 :LSIDFVGS 1es9A 63 :SPLHALNF T0286 62 :GHSGWTIPQIASNI 1es9A 71 :GIGGDSTQHVLWRL T0286 78 :WLNTHNPDVVFLWIGGN 1es9A 88 :ELEHIRPKIVVVWVGTN T0286 99 :NGNLN 1es9A 105 :NHGHT T0286 104 :ATGLSNLIDQIFTVKPNVTLFVADYYPW 1es9A 114 :TGGIKAIVQLVNERQPQARVVVLGLLPR T0286 132 :PEAIKQYNAVIPGIVQQKANAGKKVYFVKLSEIQF 1es9A 145 :PNPLREKNRRVNELVRAALAGHPRAHFLDADPGFV T0286 168 :RNTDISWDGLHLSEIGYKKIANIWYKYTIDI 1es9A 185 :ISHHDMYDYLHLSRLGYTPVCRALHSLLLRL Number of specific fragments extracted= 10 number of extra gaps= 5 total=380 Number of alignments=34 # 1es9A read from 1es9A/merged-good-all-a2m # found chain 1es9A in training set Warning: unaligning (T0286)Y32 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1es9A)Q54 Warning: unaligning (T0286)R33 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1es9A)Q54 Warning: unaligning (T0286)L34 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1es9A)C55 Warning: unaligning (T0286)L35 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1es9A)W58 Warning: unaligning (T0286)Q37 because of BadResidue code BAD_PEPTIDE in next template residue (1es9A)L61 Warning: unaligning (T0286)A38 because of BadResidue code BAD_PEPTIDE at template residue (1es9A)L61 Warning: unaligning (T0286)G39 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1es9A)F62 Warning: unaligning (T0286)N77 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1es9A)G87 Warning: unaligning (T0286)D167 because of BadResidue code CHAIN_BREAK_BEFORE in next template residue (1es9A)S181 Warning: unaligning (T0286)R168 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (1es9A)S181 Warning: unaligning (T0286)L199 because last residue in template chain is (1es9A)L216 T0286 3 :SKTIKIMPVGDSCT 1es9A 36 :DKEPEVVFIGDSLV T0286 29 :TEL 1es9A 50 :QLM T0286 36 :T 1es9A 59 :R T0286 40 :LSIDFVGS 1es9A 63 :SPLHALNF T0286 62 :GHSGWTIPQIASNIN 1es9A 71 :GIGGDSTQHVLWRLE T0286 78 :WLNTHNPDVVFLWIGGNDLLLNGNLNATGLSNLIDQIFTVKPNVTLFVADYYPW 1es9A 88 :ELEHIRPKIVVVWVGTNNHGHTAEQVTGGIKAIVQLVNERQPQARVVVLGLLPR T0286 132 :PEAIKQYNAVIPGIVQQKANAGKKVYFVKLSEIQF 1es9A 145 :PNPLREKNRRVNELVRAALAGHPRAHFLDADPGFV T0286 169 :NT 1es9A 182 :DG T0286 171 :DISWDGLHLSEIGYKKIANIWYKYTIDI 1es9A 188 :HDMYDYLHLSRLGYTPVCRALHSLLLRL Number of specific fragments extracted= 9 number of extra gaps= 5 total=389 Number of alignments=35 # 1es9A read from 1es9A/merged-good-all-a2m # found chain 1es9A in training set Warning: unaligning (T0286)N77 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1es9A)G87 T0286 19 :MGGGEMGSYRTELYRLLTQAGLSIDFVGSQ 1es9A 18 :QGDGKWMSLHHRFVADSKDKEPEVVFIGDS T0286 63 :HSGWTIPQIASNIN 1es9A 72 :IGGDSTQHVLWRLE T0286 78 :WLNTHNPDVVFLWIGGNDLLLNGNLNATGLSNLIDQIFTVKPNVTLFVADYYP 1es9A 88 :ELEHIRPKIVVVWVGTNNHGHTAEQVTGGIKAIVQLVNERQPQARVVVLGLLP T0286 131 :WPEAIKQYNAVIPGIVQQKANAGKKVYFVKLSEIQF 1es9A 144 :HPNPLREKNRRVNELVRAALAGHPRAHFLDADPGFV T0286 167 :DRNTDISWDGLHLSEIGYKKIANIWYKYTIDI 1es9A 184 :TISHHDMYDYLHLSRLGYTPVCRALHSLLLRL Number of specific fragments extracted= 5 number of extra gaps= 1 total=394 Number of alignments=36 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1deoA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1deoA expands to /projects/compbio/data/pdb/1deo.pdb.gz 1deoA:# T0286 read from 1deoA/merged-good-all-a2m # 1deoA read from 1deoA/merged-good-all-a2m # adding 1deoA to template set # found chain 1deoA in template set T0286 7 :KIMPVGDSCTEGMGG 1deoA 2 :TVYLAGDSTMAKNGG T0286 22 :GEMGSYRTELYRLL 1deoA 18 :SGTNGWGEYLASYL T0286 41 :SIDFVGS 1deoA 32 :SATVVND T0286 62 :GHSGWTIPQIA 1deoA 39 :AVAGRSARSYT T0286 73 :SNINNWLNTHN 1deoA 52 :GRFENIADVVT T0286 84 :PDVVFLWIGGNDLLLNGNLN 1deoA 64 :GDYVIVEFGHNDGGSLSTDN T0286 104 :ATGLSNLIDQIFTV 1deoA 111 :PAYLENAAKLFTAK T0286 120 :NVTLFVADYYPW 1deoA 125 :GAKVILSSQTPN T0286 139 :NAVIPGIVQQKANAG 1deoA 148 :PTRFVEYAELAAEVA T0286 155 :KVYFVKLSEIQFD 1deoA 163 :GVEYVDHWSYVDS T0286 168 :RNTDISWDGLHLSEIGYKKIANIWYKYTIDI 1deoA 185 :VNSYFPIDHTHTSPAGAEVVAEAFLKAVVCT T0286 199 :LRAL 1deoA 219 :LKSV Number of specific fragments extracted= 12 number of extra gaps= 0 total=406 Number of alignments=37 # 1deoA read from 1deoA/merged-good-all-a2m # found chain 1deoA in template set Warning: unaligning (T0286)I6 because first residue in template chain is (1deoA)T1 T0286 7 :KIMPVGDSCTEGMGGGEMG 1deoA 2 :TVYLAGDSTMAKNGGGSGT T0286 26 :SYRTELYRLL 1deoA 22 :GWGEYLASYL T0286 41 :SIDFVGS 1deoA 32 :SATVVND T0286 62 :GHSGWTIPQIAS 1deoA 39 :AVAGRSARSYTR T0286 74 :NINNWLNTHNP 1deoA 53 :RFENIADVVTA T0286 85 :DVVFLWIGGND 1deoA 65 :DYVIVEFGHND T0286 96 :LL 1deoA 91 :TG T0286 103 :NATGLSNLIDQIFTV 1deoA 110 :FPAYLENAAKLFTAK T0286 120 :NVTLFVADYYPW 1deoA 125 :GAKVILSSQTPN T0286 132 :PEAIKQYNAVIPGIV 1deoA 148 :PTRFVEYAELAAEVA T0286 155 :KVYFVKLSEIQFDRNT 1deoA 163 :GVEYVDHWSYVDSIYE T0286 171 :DISWDGLHLSEIGYKKIANIWYKYTID 1deoA 188 :YFPIDHTHTSPAGAEVVAEAFLKAVVC Number of specific fragments extracted= 12 number of extra gaps= 0 total=418 Number of alignments=38 # 1deoA read from 1deoA/merged-good-all-a2m # found chain 1deoA in template set T0286 7 :KIMPVGDSCTEGM 1deoA 2 :TVYLAGDSTMAKN T0286 20 :GGGEMGSYRTEL 1deoA 16 :GGSGTNGWGEYL T0286 40 :LSIDFVGSQRSG 1deoA 31 :LSATVVNDAVAG T0286 66 :WTIPQIA 1deoA 43 :RSARSYT T0286 73 :SNINNWLNTH 1deoA 55 :ENIADVVTAG T0286 85 :DVVFLWIGGND 1deoA 65 :DYVIVEFGHND T0286 99 :NG 1deoA 76 :GG T0286 101 :NLNATGLSNLIDQIFT 1deoA 108 :LTFPAYLENAAKLFTA T0286 119 :PNVTLFVADYYP 1deoA 124 :KGAKVILSSQTP T0286 131 :WP 1deoA 148 :PT T0286 137 :Q 1deoA 150 :R T0286 142 :IPGIVQQKANAGKKVYFV 1deoA 151 :FVEYAELAAEVAGVEYVD T0286 169 :NTDISWDGLHLSEIGYKKIANIWYKYTI 1deoA 186 :NSYFPIDHTHTSPAGAEVVAEAFLKAVV Number of specific fragments extracted= 13 number of extra gaps= 0 total=431 Number of alignments=39 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2apjA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2apjA expands to /projects/compbio/data/pdb/2apj.pdb.gz 2apjA:Bad short name: CI2 for alphabet: pdb_atoms Bad short name: CJ for alphabet: pdb_atoms Bad short name: CI1 for alphabet: pdb_atoms Bad short name: CH1 for alphabet: pdb_atoms Skipped atom 275, because occupancy 0.350 <= existing 0.650 in 2apjA Skipped atom 277, because occupancy 0.350 <= existing 0.650 in 2apjA Skipped atom 279, because occupancy 0.350 <= existing 0.650 in 2apjA Skipped atom 547, because occupancy 0.350 <= existing 0.650 in 2apjA Skipped atom 549, because occupancy 0.350 <= existing 0.650 in 2apjA Skipped atom 551, because occupancy 0.350 <= existing 0.650 in 2apjA Skipped atom 734, because occupancy 0.350 <= existing 0.650 in 2apjA Skipped atom 736, because occupancy 0.350 <= existing 0.650 in 2apjA Skipped atom 738, because occupancy 0.350 <= existing 0.650 in 2apjA Skipped atom 1623, because occupancy 0.350 <= existing 0.650 in 2apjA Skipped atom 1625, because occupancy 0.350 <= existing 0.650 in 2apjA Skipped atom 1627, because occupancy 0.350 <= existing 0.650 in 2apjA Skipped atom 1825, because occupancy 0.350 <= existing 0.650 in 2apjA Skipped atom 1827, because occupancy 0.350 <= existing 0.650 in 2apjA # T0286 read from 2apjA/merged-good-all-a2m # 2apjA read from 2apjA/merged-good-all-a2m # adding 2apjA to template set # found chain 2apjA in template set Warning: unaligning (T0286)D13 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (2apjA)N32 Warning: unaligning (T0286)C15 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (2apjA)N32 Warning: unaligning (T0286)T16 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2apjA)M33 T0286 1 :MASKTIKIMPVG 2apjA 18 :PIPPNQIFILSG T0286 17 :EGMGG 2apjA 34 :AGRGG T0286 22 :GEMG 2apjA 42 :DHHN T0286 26 :SYRTELYRLLTQAGLSIDFVGS 2apjA 97 :AFANAVKNRLETDSAVIGLVPC T0286 62 :GHSGWTIPQIA 2apjA 119 :ASGGTAIKEWE T0286 73 :SNI 2apjA 140 :KRT T0286 77 :NWLNTHNP 2apjA 143 :EESRKCGG T0286 85 :DVVFLWIGGNDLLLN 2apjA 153 :KAVLWYQGESDVLDI T0286 104 :ATGLSNLIDQIFTV 2apjA 174 :GNNMDRLIKNLRHD T0286 118 :KPNVTLFVADYYPWPEAI 2apjA 190 :LPSLPIIQVAIASGGGYI T0286 144 :GIVQQKANAGK 2apjA 208 :DKVREAQLGLK T0286 155 :KVYFVKL 2apjA 221 :NVVCVDA T0286 168 :RNTDISWDGLHLSEIGYKKIANIWYKYTIDIL 2apjA 228 :KGLPLKSDNLHLTTEAQVQLGLSLAQAYLSNF Number of specific fragments extracted= 13 number of extra gaps= 0 total=444 Number of alignments=40 # 2apjA read from 2apjA/merged-good-all-a2m # found chain 2apjA in template set Warning: unaligning (T0286)D13 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (2apjA)N32 Warning: unaligning (T0286)C15 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (2apjA)N32 Warning: unaligning (T0286)T16 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2apjA)M33 T0286 3 :SKTIKIMPVG 2apjA 20 :PPNQIFILSG T0286 17 :EGMGG 2apjA 34 :AGRGG T0286 22 :GEMG 2apjA 43 :HHNN T0286 26 :SYRTELYRLLTQAGLSIDFVGS 2apjA 97 :AFANAVKNRLETDSAVIGLVPC T0286 62 :GHSGWTIPQIAS 2apjA 119 :ASGGTAIKEWER T0286 74 :NINNWLN 2apjA 137 :RMVKRTE T0286 81 :THNP 2apjA 147 :KCGG T0286 85 :DVVFLWIGGND 2apjA 153 :KAVLWYQGESD T0286 96 :LL 2apjA 166 :DI T0286 100 :GNLNATGLSNLIDQIFTV 2apjA 170 :AESYGNNMDRLIKNLRHD T0286 118 :KPNVTLFVADYYPWPEA 2apjA 190 :LPSLPIIQVAIASGGGY T0286 143 :PGIVQQKANAGK 2apjA 207 :IDKVREAQLGLK T0286 155 :KVYFVKLSEI 2apjA 221 :NVVCVDAKGL T0286 171 :DISWDGLHLSEIGYKKIANIWYKYTIDIL 2apjA 231 :PLKSDNLHLTTEAQVQLGLSLAQAYLSNF Number of specific fragments extracted= 14 number of extra gaps= 0 total=458 Number of alignments=41 # 2apjA read from 2apjA/merged-good-all-a2m # found chain 2apjA in template set T0286 1 :MASKTIKIMPVGDSCTEGMGGGEMGSYRTELYRLLT 2apjA 108 :TDSAVIGLVPCASGGTAIKEWERGSHLYERMVKRTE T0286 77 :N 2apjA 144 :E T0286 78 :WLNTHNPDVVFLWIGGNDLLLNG 2apjA 146 :RKCGGEIKAVLWYQGESDVLDIH T0286 101 :NLNATGLSNLIDQIFTV 2apjA 171 :ESYGNNMDRLIKNLRHD T0286 118 :KPNVTLFVADYYPWPEAIKQYNAVIPG 2apjA 190 :LPSLPIIQVAIASGGGYIDKVREAQLG T0286 153 :GKKVYFVKLSE 2apjA 219 :LSNVVCVDAKG T0286 170 :TDISWDGLHLSEIGYKKIANIWYKYTIDIL 2apjA 230 :LPLKSDNLHLTTEAQVQLGLSLAQAYLSNF Number of specific fragments extracted= 7 number of extra gaps= 0 total=465 Number of alignments=42 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1w5fA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1w5fA expands to /projects/compbio/data/pdb/1w5f.pdb.gz 1w5fA:# T0286 read from 1w5fA/merged-good-all-a2m # 1w5fA read from 1w5fA/merged-good-all-a2m # adding 1w5fA to template set # found chain 1w5fA in template set Warning: unaligning (T0286)K4 because first residue in template chain is (1w5fA)L22 T0286 5 :TIKIMPVG 1w5fA 23 :KIKVIGVG T0286 26 :SYRTELYRLLTQAGL 1w5fA 31 :GAGNNAINRMIEIGI T0286 41 :SIDFVGS 1w5fA 47 :GVEFVAV T0286 66 :WTIPQIA 1w5fA 54 :NTDLQVL T0286 73 :SNINNWLNTH 1w5fA 97 :EKIREVLQDT T0286 85 :DVVFLWIGGN 1w5fA 107 :HMVFITAGFG T0286 100 :GNLNATGLSNLIDQIFTV 1w5fA 117 :GGTGTGASPVIAKIAKEM T0286 120 :NVT 1w5fA 135 :GIL T0286 123 :LFVADYYPW 1w5fA 140 :AIVTTPFYF T0286 132 :PEAIKQYNAVIPGIVQQ 1w5fA 150 :GPERLKKAIEGLKKLRK T0286 152 :AGKKVYFVKLSEIQFDRNTDISW 1w5fA 167 :HVDTLIKISNNKLMEELPRDVKI T0286 181 :EIGYKKIANIWYKYTIDILRALAGE 1w5fA 190 :KDAFLKADETLHQGVKGISELITKR Number of specific fragments extracted= 12 number of extra gaps= 0 total=477 Number of alignments=43 # 1w5fA read from 1w5fA/merged-good-all-a2m # found chain 1w5fA in template set Warning: unaligning (T0286)K4 because first residue in template chain is (1w5fA)L22 T0286 5 :TIKIMPVG 1w5fA 23 :KIKVIGVG T0286 26 :SYRTELYRLLTQAGL 1w5fA 31 :GAGNNAINRMIEIGI T0286 41 :SIDFVGS 1w5fA 47 :GVEFVAV T0286 62 :GH 1w5fA 54 :NT T0286 68 :IPQIAS 1w5fA 56 :DLQVLE T0286 74 :NINNWLNTH 1w5fA 98 :KIREVLQDT T0286 85 :DVVFLWIGGND 1w5fA 107 :HMVFITAGFGG T0286 105 :TGLSNLIDQIFTV 1w5fA 122 :GASPVIAKIAKEM T0286 120 :NVT 1w5fA 135 :GIL T0286 123 :LFVADYYPW 1w5fA 140 :AIVTTPFYF T0286 132 :PEAIKQYNAVIPGIVQQ 1w5fA 150 :GPERLKKAIEGLKKLRK T0286 152 :AGKKVYFVKLSEIQFDRNTDISW 1w5fA 167 :HVDTLIKISNNKLMEELPRDVKI T0286 181 :EIGYKKIANIWYKYTIDILRALAGE 1w5fA 190 :KDAFLKADETLHQGVKGISELITKR Number of specific fragments extracted= 13 number of extra gaps= 0 total=490 Number of alignments=44 # 1w5fA read from 1w5fA/merged-good-all-a2m # found chain 1w5fA in template set Warning: unaligning (T0286)K4 because first residue in template chain is (1w5fA)L22 T0286 5 :TIKIMPVG 1w5fA 23 :KIKVIGVG T0286 26 :SYRTELYRLLTQAGL 1w5fA 31 :GAGNNAINRMIEIGI T0286 41 :SIDFVGSQRS 1w5fA 47 :GVEFVAVNTD T0286 55 :LPDKDHEGHSGWTIPQIASNINN 1w5fA 72 :GENITRGLGAGGRPEIGEQAALE T0286 80 :NTHNPDVVFLWIGG 1w5fA 102 :VLQDTHMVFITAGF T0286 99 :NGNLNATGLSNLIDQIFTVKPNVTLFVA 1w5fA 116 :GGGTGTGASPVIAKIAKEMGILTVAIVT T0286 129 :YPWPEAIKQYNAVIPGIVQQKANAGKKVYFVKLSEIQFDRNTDIS 1w5fA 144 :TPFYFEGPERLKKAIEGLKKLRKHVDTLIKISNNKLMEELPRDVK T0286 180 :SEIGYKKIANIWYKYTIDILRALAGE 1w5fA 189 :IKDAFLKADETLHQGVKGISELITKR Number of specific fragments extracted= 8 number of extra gaps= 0 total=498 Number of alignments=45 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1orrA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0286 read from 1orrA/merged-good-all-a2m # 1orrA read from 1orrA/merged-good-all-a2m # found chain 1orrA in training set Warning: unaligning (T0286)Y194 because last residue in template chain is (1orrA)I339 T0286 7 :KIMPVGD 1orrA 3 :KLLITGG T0286 24 :MGSYRTELYRLLTQAGLSIDFVGS 1orrA 10 :CGFLGSNLASFALSQGIDLIVFDN T0286 63 :HSGWTIPQIA 1orrA 34 :LSRKGATDNL T0286 73 :SNINNWLNTHNPDVVFLWIGGNDLLLNGNLN 1orrA 63 :NDVTRLITKYMPDSCFHLAGQVAMTTSIDNP T0286 104 :ATGLSNLIDQIFTVKPNVTLFVADYYPW 1orrA 101 :VGGTLNLLEAVRQYNSNCNIIYSSTNKV T0286 132 :PEAIKQYNAVIPGIVQQKANAGK 1orrA 162 :HSPYGCSKGAADQYMLDYARIFG T0286 155 :KVYFVKLSEIQFD 1orrA 186 :NTVVFRHSSMYGG T0286 168 :RNTDIS 1orrA 319 :WSPKVS T0286 180 :SEIGYKKIANIWYK 1orrA 325 :AKDGVQKMYDWTSS Number of specific fragments extracted= 9 number of extra gaps= 0 total=507 Number of alignments=46 # 1orrA read from 1orrA/merged-good-all-a2m # found chain 1orrA in training set Warning: unaligning (T0286)I6 because first residue in template chain is (1orrA)A2 Warning: unaligning (T0286)Y194 because last residue in template chain is (1orrA)I339 T0286 7 :KIMPVGDSCT 1orrA 3 :KLLITGGCGF T0286 27 :YRTELYRLLTQAGLSIDFVGS 1orrA 13 :LGSNLASFALSQGIDLIVFDN T0286 63 :HSGWTIPQIAS 1orrA 34 :LSRKGATDNLH T0286 74 :NINNWLNTHNPDVVFLWIGG 1orrA 64 :DVTRLITKYMPDSCFHLAGQ T0286 98 :LNGNLNATG 1orrA 84 :VAMTTSIDN T0286 107 :LSNLIDQIFTVKPNVTLFVADYYPW 1orrA 104 :TLNLLEAVRQYNSNCNIIYSSTNKV T0286 132 :PEAIKQYNAVIPGIVQQKANAGK 1orrA 162 :HSPYGCSKGAADQYMLDYARIFG T0286 155 :KVYFVKLSEIQFDRNT 1orrA 186 :NTVVFRHSSMYGGRQF T0286 171 :DISWDG 1orrA 318 :DWSPKV T0286 179 :LSEIGYKKIANIWYK 1orrA 324 :SAKDGVQKMYDWTSS Number of specific fragments extracted= 10 number of extra gaps= 0 total=517 Number of alignments=47 # 1orrA read from 1orrA/merged-good-all-a2m # found chain 1orrA in training set T0286 2 :ASKTIKIMP 1orrA 24 :QGIDLIVFD T0286 19 :M 1orrA 34 :L T0286 24 :MGSYRTELYRLLTQAG 1orrA 35 :SRKGATDNLHWLSSLG T0286 41 :SIDFVGSQRS 1orrA 51 :NFEFVHGDIR T0286 60 :H 1orrA 61 :N T0286 72 :ASNINNWLNTHNPDVVFLWIGGNDLLLNG 1orrA 62 :KNDVTRLITKYMPDSCFHLAGQVAMTTSI T0286 101 :NLNATGLSNLIDQIFTVKPNVTLFVADYYP 1orrA 98 :EINVGGTLNLLEAVRQYNSNCNIIYSSTNK T0286 131 :WPEAIKQYNAVIPGIVQQKANAGKKVYFVKLSEIQFDRNTDISWDGL 1orrA 161 :FHSPYGCSKGAADQYMLDYARIFGLNTVVFRHSSMYGGRQFATYDQG T0286 187 :IANIWYKYTIDIL 1orrA 208 :WVGWFCQKAVEIK Number of specific fragments extracted= 9 number of extra gaps= 0 total=526 Number of alignments=48 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1k7cA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0286 read from 1k7cA/merged-good-all-a2m # 1k7cA read from 1k7cA/merged-good-all-a2m # found chain 1k7cA in training set Warning: unaligning (T0286)P130 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1k7cA)N136 Warning: unaligning (T0286)W131 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1k7cA)N136 T0286 7 :KIMPVGDSCTEGMGG 1k7cA 2 :TVYLAGDSTMAKNGG T0286 22 :GEMGSYRTELYRLL 1k7cA 18 :SGTNGWGEYLASYL T0286 41 :SIDFVGS 1k7cA 32 :SATVVND T0286 62 :GHSGWTIPQIA 1k7cA 39 :AVAGRSARSYT T0286 73 :SNINNWLNTHN 1k7cA 52 :GRFENIADVVT T0286 84 :PDVVFLWIGGNDLLLNGNLN 1k7cA 64 :GDYVIVEFGHNDGGSLSTDN T0286 104 :ATGLSNLIDQIFTV 1k7cA 111 :PAYLENAAKLFTAK T0286 120 :NVTLFVADYY 1k7cA 125 :GAKVILSSQT T0286 132 :PEAIKQYNAVIPGIV 1k7cA 148 :PTRFVEYAELAAEVA T0286 155 :KVYFVKLSEIQFD 1k7cA 163 :GVEYVDHWSYVDS T0286 168 :RNTDISWDGLHLSEIGYKKIANIWYKYTIDI 1k7cA 185 :VNSYFPIDHTHTSPAGAEVVAEAFLKAVVCT Number of specific fragments extracted= 11 number of extra gaps= 1 total=537 Number of alignments=49 # 1k7cA read from 1k7cA/merged-good-all-a2m # found chain 1k7cA in training set Warning: unaligning (T0286)I6 because first residue in template chain is (1k7cA)T1 Warning: unaligning (T0286)P130 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1k7cA)N136 Warning: unaligning (T0286)W131 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1k7cA)N136 T0286 7 :KIMPVGDSCTEGMGGGEMG 1k7cA 2 :TVYLAGDSTMAKNGGGSGT T0286 26 :SYRTELYRLL 1k7cA 22 :GWGEYLASYL T0286 41 :SIDFVGS 1k7cA 32 :SATVVND T0286 62 :GHSGWTIPQIAS 1k7cA 39 :AVAGRSARSYTR T0286 74 :NINNWLNTHNP 1k7cA 53 :RFENIADVVTA T0286 85 :DVVFLWIGGND 1k7cA 65 :DYVIVEFGHND T0286 96 :LL 1k7cA 91 :TG T0286 103 :NATGLSNLIDQIFTV 1k7cA 110 :FPAYLENAAKLFTAK T0286 120 :NVTLFVADYY 1k7cA 125 :GAKVILSSQT T0286 132 :PEAIKQYNAVIPGIV 1k7cA 148 :PTRFVEYAELAAEVA T0286 155 :KVYFVKLSEIQFDRNT 1k7cA 163 :GVEYVDHWSYVDSIYE T0286 171 :DISWDGLHLSEIGYKKIANIWYKYTI 1k7cA 188 :YFPIDHTHTSPAGAEVVAEAFLKAVV Number of specific fragments extracted= 12 number of extra gaps= 1 total=549 Number of alignments=50 # 1k7cA read from 1k7cA/merged-good-all-a2m # found chain 1k7cA in training set Warning: unaligning (T0286)P130 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1k7cA)N136 T0286 7 :KIMPVGDSCTEGMGGGE 1k7cA 2 :TVYLAGDSTMAKNGGGS T0286 24 :MGSYRTEL 1k7cA 20 :TNGWGEYL T0286 40 :LSIDFVGSQRSG 1k7cA 31 :LSATVVNDAVAG T0286 66 :WTIPQIA 1k7cA 43 :RSARSYT T0286 73 :SNINNWLNTH 1k7cA 55 :ENIADVVTAG T0286 85 :DVVFLWIGGND 1k7cA 65 :DYVIVEFGHND T0286 100 :G 1k7cA 77 :G T0286 101 :NLNATGLSNLIDQIFT 1k7cA 108 :LTFPAYLENAAKLFTA T0286 119 :PNVTLFVADYY 1k7cA 124 :KGAKVILSSQT T0286 132 :PEA 1k7cA 148 :PTR T0286 142 :IPGIVQQKANAGKKVYFV 1k7cA 151 :FVEYAELAAEVAGVEYVD T0286 169 :NTDISWDGLHLSEIGYKKIANIWYKYTID 1k7cA 186 :NSYFPIDHTHTSPAGAEVVAEAFLKAVVC Number of specific fragments extracted= 12 number of extra gaps= 1 total=561 Number of alignments=51 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1vjgA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1vjgA expands to /projects/compbio/data/pdb/1vjg.pdb.gz 1vjgA:Skipped atom 37, because occupancy 0.350 <= existing 0.650 in 1vjgA Skipped atom 39, because occupancy 0.350 <= existing 0.650 in 1vjgA Skipped atom 41, because occupancy 0.350 <= existing 0.650 in 1vjgA Skipped atom 43, because occupancy 0.350 <= existing 0.650 in 1vjgA Skipped atom 418, because occupancy 0.400 <= existing 0.600 in 1vjgA Skipped atom 422, because occupancy 0.400 <= existing 0.600 in 1vjgA Skipped atom 424, because occupancy 0.400 <= existing 0.600 in 1vjgA Skipped atom 490, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 494, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 496, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 498, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 500, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 502, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 521, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 525, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 527, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 557, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 561, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 563, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 565, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 567, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 569, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 571, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 878, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 882, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 884, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 886, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 888, because occupancy 0.500 <= existing 0.500 in 1vjgA Skipped atom 890, because occupancy 0.500 <= existing 0.500 in 1vjgA 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 # T0286 read from 1vjgA/merged-good-all-a2m # 1vjgA read from 1vjgA/merged-good-all-a2m # adding 1vjgA to template set # found chain 1vjgA in template set Warning: unaligning (T0286)A2 because first residue in template chain is (1vjgA)S5 Warning: unaligning (T0286)S3 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1vjgA)K6 Warning: unaligning (T0286)K118 because of BadResidue code NON_PLANAR_PEPTIDE in next template residue (1vjgA)P119 Warning: unaligning (T0286)P119 because of BadResidue code NON_PLANAR_PEPTIDE at template residue (1vjgA)P119 T0286 4 :KTIKIMPVGDSCTEGMGGGEMGSYRTELYRLLTQAGLSIDFVGS 1vjgA 7 :TQIRICFVGDSFVNGTGDPECLGWTGRVCVNANKKGYDVTYYNL T0286 62 :GHSGWTIPQIASNINNWLNTH 1vjgA 51 :GIRRDTSSDIAKRWLQEVSLR T0286 84 :P 1vjgA 76 :Y T0286 85 :DVVFLWIGGNDLLLNGNLN 1vjgA 78 :SLVVFSFGLNDTTLENGKP T0286 104 :ATGLSNLIDQIFTV 1vjgA 104 :IKNTREILTQAKKL T0286 123 :LFVADYYPW 1vjgA 120 :VLMISPAPY T0286 132 :PEAIKQYNAVIPGIVQQKANAGK 1vjgA 133 :DPGRRRRTIDLSQQLALVCQDLD T0286 156 :VYFVKLSEIQFD 1vjgA 156 :VPYLDVFPLLEK T0286 174 :WDGLHLSEIGYKKIANIWYKY 1vjgA 178 :NDGVHPQAGGYTEFARIVENW T0286 197 :DILRAL 1vjgA 199 :DAWLNW Number of specific fragments extracted= 10 number of extra gaps= 1 total=571 Number of alignments=52 # 1vjgA read from 1vjgA/merged-good-all-a2m # found chain 1vjgA in template set Warning: unaligning (T0286)A2 because first residue in template chain is (1vjgA)S5 Warning: unaligning (T0286)S3 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1vjgA)K6 Warning: unaligning (T0286)K118 because of BadResidue code NON_PLANAR_PEPTIDE in next template residue (1vjgA)P119 Warning: unaligning (T0286)P119 because of BadResidue code NON_PLANAR_PEPTIDE at template residue (1vjgA)P119 T0286 4 :KTIKIMPVGDSCTEGMGGGEMGSYRTELYRLLTQAGLSIDFVGS 1vjgA 7 :TQIRICFVGDSFVNGTGDPECLGWTGRVCVNANKKGYDVTYYNL T0286 62 :GHSGWTIPQIASNINNWLNTHN 1vjgA 51 :GIRRDTSSDIAKRWLQEVSLRL T0286 85 :DVVFLWIGGND 1vjgA 78 :SLVVFSFGLND T0286 96 :LLLNGNLNATGLSNLIDQIFTV 1vjgA 96 :PRVSIAETIKNTREILTQAKKL T0286 123 :LFVADYYPW 1vjgA 120 :VLMISPAPY T0286 132 :PEAIKQYNAVIPGIVQQKANAGK 1vjgA 133 :DPGRRRRTIDLSQQLALVCQDLD T0286 156 :VYFVKLSEIQFDRNT 1vjgA 156 :VPYLDVFPLLEKPSV T0286 174 :WDGLHLSEIGYKKIANIWY 1vjgA 178 :NDGVHPQAGGYTEFARIVE T0286 197 :DILRA 1vjgA 199 :DAWLN Number of specific fragments extracted= 9 number of extra gaps= 1 total=580 Number of alignments=53 # 1vjgA read from 1vjgA/merged-good-all-a2m # found chain 1vjgA in template set Warning: unaligning (T0286)S3 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1vjgA)K6 Warning: unaligning (T0286)V121 because of BadResidue code NON_PLANAR_PEPTIDE in next template residue (1vjgA)P119 Warning: unaligning (T0286)T122 because of BadResidue code NON_PLANAR_PEPTIDE at template residue (1vjgA)P119 T0286 4 :KTIKIMPVGDSCTEGMGGGEMGSYRTELYRLLTQAGLSIDFVGSQR 1vjgA 7 :TQIRICFVGDSFVNGTGDPECLGWTGRVCVNANKKGYDVTYYNLGI T0286 64 :SGWTIPQIASNINN 1vjgA 53 :RRDTSSDIAKRWLQ T0286 78 :WLNTHNPDVVFLWIGGNDLLLNG 1vjgA 71 :RLHKEYNSLVVFSFGLNDTTLEN T0286 101 :NLNATGLSNLIDQIFTV 1vjgA 101 :AETIKNTREILTQAKKL T0286 123 :LFVADYYP 1vjgA 120 :VLMISPAP T0286 131 :WPEA 1vjgA 133 :DPGR T0286 136 :KQYNAVIPGIVQQKANAGKKVYFVKLSEIQFDR 1vjgA 137 :RRRTIDLSQQLALVCQDLDVPYLDVFPLLEKPS T0286 172 :ISWDGLHLSEIGYKKIANIWY 1vjgA 176 :KANDGVHPQAGGYTEFARIVE Number of specific fragments extracted= 8 number of extra gaps= 2 total=588 Number of alignments=54 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ek6A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0286 read from 1ek6A/merged-good-all-a2m # 1ek6A read from 1ek6A/merged-good-all-a2m # found chain 1ek6A in training set T0286 6 :IKIMPVGD 1ek6A 3 :EKVLVTGG T0286 24 :MGSYRTELYRLLTQAGLSIDFVGSQRS 1ek6A 11 :AGYIGSHTVLELLEAGYLPVVIDNFHN T0286 60 :HEGHSGWTIPQIA 1ek6A 38 :AFRGGGSLPESLR T0286 73 :SNINNWLNTHNPDVVFLWIGGNDLLLNGNLN 1ek6A 71 :GALQRLFKKYSFMAVIHFAGLKAVGESVQKP T0286 104 :ATGLSNLIDQIFTV 1ek6A 109 :LTGTIQLLEIMKAH T0286 120 :NVTLFVADYYPW 1ek6A 123 :GVKNLVFSSSAT T0286 132 :PEAIKQYNAVIPGIVQQKANAGK 1ek6A 154 :TNPYGKSKFFIEEMIRDLCQADK T0286 155 :KVYFVKLSEIQFD 1ek6A 179 :NAVLLRYFNPTGA T0286 168 :RNTDISW 1ek6A 231 :DTEDGTG T0286 175 :DGLHLSE 1ek6A 240 :DYIHVVD T0286 182 :IGYKKIANIW 1ek6A 249 :KGHIAALRKL T0286 192 :YKYTIDILRALA 1ek6A 277 :VLQMVQAMEKAS Number of specific fragments extracted= 12 number of extra gaps= 0 total=600 Number of alignments=55 # 1ek6A read from 1ek6A/merged-good-all-a2m # found chain 1ek6A in training set T0286 6 :IKIMPVGD 1ek6A 3 :EKVLVTGG T0286 14 :SCT 1ek6A 31 :VID T0286 17 :EGMGGGEMGSYRTELYRLLTQAGLSIDFVGS 1ek6A 35 :FHNAFRGGGSLPESLRRVQELTGRSVEFEEM T0286 74 :NINNWLNTHNPDVVFLWIGGND 1ek6A 72 :ALQRLFKKYSFMAVIHFAGLKA T0286 100 :GNLNATGLSNLIDQIFTV 1ek6A 105 :YRVNLTGTIQLLEIMKAH T0286 120 :NVTLFVADYYPW 1ek6A 123 :GVKNLVFSSSAT T0286 132 :PEAIKQYNAVIPGIVQQKANAGK 1ek6A 154 :TNPYGKSKFFIEEMIRDLCQADK T0286 155 :KVYFVKLSEIQFDRNT 1ek6A 179 :NAVLLRYFNPTGAHAS T0286 173 :SWDGLHLS 1ek6A 238 :VRDYIHVV T0286 181 :EIGYKKIANIW 1ek6A 248 :AKGHIAALRKL T0286 192 :YKYTIDILRALA 1ek6A 277 :VLQMVQAMEKAS Number of specific fragments extracted= 11 number of extra gaps= 0 total=611 Number of alignments=56 # 1ek6A read from 1ek6A/merged-good-all-a2m # found chain 1ek6A in training set T0286 7 :KIMPVGDS 1ek6A 4 :KVLVTGGA T0286 34 :LLTQAGLSIDFVGSQRSGPSSLPDKDH 1ek6A 21 :ELLEAGYLPVVIDNFHNAFRGGGSLPE T0286 71 :IASNIN 1ek6A 48 :SLRRVQ T0286 78 :WLNTHNPDV 1ek6A 54 :ELTGRSVEF T0286 96 :L 1ek6A 67 :I T0286 102 :LNATGLSNLIDQ 1ek6A 68 :LDQGALQRLFKK T0286 119 :PNVTLFVADYYP 1ek6A 80 :YSFMAVIHFAGL T0286 131 :WPEAIKQYNAVIPGIVQQKANAGKKVYFVKLSEIQFDRNTDISWDGLHLSE 1ek6A 101 :PLDYYRVNLTGTIQLLEIMKAHGVKNLVFSSSATVYGNPQYLPLDEAHPTG T0286 182 :IGYKKIANIWYKYTIDILRA 1ek6A 155 :NPYGKSKFFIEEMIRDLCQA Number of specific fragments extracted= 9 number of extra gaps= 0 total=620 Number of alignments=57 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1vcoA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1vcoA expands to /projects/compbio/data/pdb/1vco.pdb.gz 1vcoA:# T0286 read from 1vcoA/merged-good-all-a2m # 1vcoA read from 1vcoA/merged-good-all-a2m # adding 1vcoA to template set # found chain 1vcoA in template set Warning: unaligning (T0286)S3 because first residue in template chain is (1vcoA)R10 Warning: unaligning (T0286)I164 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1vcoA)A347 Warning: unaligning (T0286)D167 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1vcoA)A347 T0286 4 :KTIKIMPVG 1vcoA 11 :PRKYVFITG T0286 18 :GMGGGEMG 1vcoA 20 :GVVSSLGK T0286 26 :SYRTELYRLLTQAGLSIDFVGSQRSGPSSLPDKDHE 1vcoA 29 :ILTSSLGALLRARGYRVTAIKIDPYVNVDAGTMRPY T0286 62 :GHS 1vcoA 67 :GEV T0286 66 :WTIPQIA 1vcoA 70 :FVTADGA T0286 73 :SNINNWLNTHNPDVVFLWIGGN 1vcoA 134 :ERIRKVAEEQKAEIVVVEVGGT T0286 97 :LLNGNLN 1vcoA 156 :VGDIESL T0286 104 :ATGLSNLIDQIFTV 1vcoA 199 :TKPTQHSVATLRGV T0286 120 :NV 1vcoA 213 :GI T0286 122 :TLFVADYYPW 1vcoA 218 :ILVLRSARPV T0286 132 :PEAIKQYNA 1vcoA 284 :LSFWQEAVR T0286 149 :KANAGK 1vcoA 293 :VLKHPE T0286 155 :KVYFVKLSE 1vcoA 335 :EVKWVDAES T0286 181 :EIGYKKIANIWYK 1vcoA 370 :IEGKVRAAQYARE Number of specific fragments extracted= 14 number of extra gaps= 0 total=634 Number of alignments=58 # 1vcoA read from 1vcoA/merged-good-all-a2m # found chain 1vcoA in template set Warning: unaligning (T0286)S3 because first residue in template chain is (1vcoA)R10 Warning: unaligning (T0286)I164 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1vcoA)A347 Warning: unaligning (T0286)D167 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1vcoA)A347 T0286 4 :KTIKIMPVG 1vcoA 11 :PRKYVFITG T0286 18 :GMGGGEMG 1vcoA 20 :GVVSSLGK T0286 26 :SYRTELYRLLTQAGLSIDFV 1vcoA 29 :ILTSSLGALLRARGYRVTAI T0286 46 :GSQRSGPSSLP 1vcoA 52 :PYVNVDAGTMR T0286 59 :DHEGHSGWTIPQIASNINNWLNTHNPDVVFLWIGGNDLLLN 1vcoA 120 :QTVQVIPHITDEIKERIRKVAEEQKAEIVVVEVGGTVGDIE T0286 100 :GNLNATG 1vcoA 168 :IRQFRFD T0286 107 :LSNLIDQIFTV 1vcoA 202 :TQHSVATLRGV T0286 120 :NVT 1vcoA 213 :GIQ T0286 123 :LFVADYYPW 1vcoA 219 :LVLRSARPV T0286 132 :PEAIKQYNA 1vcoA 284 :LSFWQEAVR T0286 149 :KANAGK 1vcoA 293 :VLKHPE T0286 155 :KVYFVKLSE 1vcoA 335 :EVKWVDAES T0286 168 :RNT 1vcoA 348 :DLE T0286 172 :ISWDGLHLSEI 1vcoA 525 :FKSRPMRPSPP T0286 184 :YKKIANIWY 1vcoA 536 :FVGFVEAAL Number of specific fragments extracted= 15 number of extra gaps= 0 total=649 Number of alignments=59 # 1vcoA read from 1vcoA/merged-good-all-a2m # found chain 1vcoA in template set Warning: unaligning (T0286)K4 because first residue in template chain is (1vcoA)R10 T0286 5 :TIKIMP 1vcoA 11 :PRKYVF T0286 15 :CTEGMGGG 1vcoA 17 :ITGGVVSS T0286 23 :EMGSYRTELYRLLTQAGLSIDFV 1vcoA 26 :GKGILTSSLGALLRARGYRVTAI T0286 46 :GSQRS 1vcoA 51 :DPYVN T0286 51 :GPSSLPDKDHEGH 1vcoA 115 :GEYLSQTVQVIPH T0286 67 :TIPQIASNINNWLNTHNPDVVFLWIGGN 1vcoA 128 :ITDEIKERIRKVAEEQKAEIVVVEVGGT T0286 97 :LLNG 1vcoA 156 :VGDI T0286 101 :NLNATGLSNLIDQIFTV 1vcoA 196 :EFKTKPTQHSVATLRGV T0286 118 :KPNVTLFVADYY 1vcoA 215 :QPDILVLRSARP T0286 131 :WPEAIKQYNAVIP 1vcoA 228 :PEEVRRKVALFTN T0286 153 :GKK 1vcoA 241 :VRP T0286 156 :VYFVKLSEIQF 1vcoA 246 :VFSSPTVEHLY T0286 183 :GYKKIAN 1vcoA 258 :VPLLLEE T0286 190 :IWYKYTIDI 1vcoA 266 :GLGRAVERA Number of specific fragments extracted= 14 number of extra gaps= 0 total=663 Number of alignments=60 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1nf3A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1nf3A expands to /projects/compbio/data/pdb/1nf3.pdb.gz 1nf3A:# T0286 read from 1nf3A/merged-good-all-a2m # 1nf3A read from 1nf3A/merged-good-all-a2m # adding 1nf3A to template set # found chain 1nf3A in template set T0286 4 :KTIKIMPVGD 1nf3A 2 :QTIKCVVVGD T0286 24 :MG 1nf3A 12 :GA T0286 41 :SIDFVGS 1nf3A 52 :TLGLFDT T0286 66 :WTIPQIASNINNWLN 1nf3A 59 :AGLEDYDRLRPLSYP T0286 83 :NPDVVFLWIGGN 1nf3A 74 :QTDVFLVCFSVV T0286 101 :NL 1nf3A 86 :SP T0286 104 :ATGLSN 1nf3A 90 :FENVKE T0286 110 :LIDQIFTVKPNVTLFVADYYPW 1nf3A 97 :WVPEITHHCPKTPFLLVGTQID T0286 132 :PEAIKQYNAV 1nf3A 122 :DPSTIEKLAK T0286 143 :PGIVQQKANAGK 1nf3A 139 :PETAEKLARDLK T0286 156 :VYFVKLSEIQ 1nf3A 152 :VKYVECSALT T0286 167 :D 1nf3A 162 :Q T0286 182 :IGYKKIANIWYKYTI 1nf3A 163 :KGLKNVFDEAILAAL T0286 201 :ALAGE 1nf3A 178 :EPPEP Number of specific fragments extracted= 14 number of extra gaps= 0 total=677 Number of alignments=61 # 1nf3A read from 1nf3A/merged-good-all-a2m # found chain 1nf3A in template set T0286 4 :KTIKIMPVGD 1nf3A 2 :QTIKCVVVGD T0286 26 :SYRTELYRLL 1nf3A 15 :GKTCLLISYT T0286 37 :Q 1nf3A 25 :T T0286 46 :GSQRSGPSSLP 1nf3A 26 :NKFPSEYVPTV T0286 67 :TIPQIASNIN 1nf3A 60 :GLEDYDRLRP T0286 81 :THN 1nf3A 70 :LSY T0286 84 :PDVVFLWIGGND 1nf3A 75 :TDVFLVCFSVVS T0286 101 :NLNATGLSN 1nf3A 87 :PSSFENVKE T0286 110 :LIDQIFTVKPNVTLFVADYYPW 1nf3A 97 :WVPEITHHCPKTPFLLVGTQID T0286 132 :PEAIKQYNA 1nf3A 122 :DPSTIEKLA T0286 143 :PGIVQQKANAGK 1nf3A 139 :PETAEKLARDLK T0286 155 :K 1nf3A 153 :K T0286 158 :FVKL 1nf3A 154 :YVEC T0286 163 :EIQFDRN 1nf3A 158 :SALTQKG T0286 184 :YKKIANIWYKYTIDI 1nf3A 165 :LKNVFDEAILAALEP Number of specific fragments extracted= 15 number of extra gaps= 0 total=692 Number of alignments=62 # 1nf3A read from 1nf3A/merged-good-all-a2m # found chain 1nf3A in template set T0286 4 :KTIKIMPVGD 1nf3A 2 :QTIKCVVVGD T0286 24 :MGSYRTELYRLLTQAGL 1nf3A 12 :GAVGKTCLLISYTTNKF T0286 49 :RS 1nf3A 29 :PS T0286 53 :SSLPDKDH 1nf3A 59 :AGLEDYDR T0286 76 :NNWLNTHNPDVVFLWIG 1nf3A 67 :LRPLSYPQTDVFLVCFS T0286 97 :LLNGNLNATGLSNLIDQIFTVKPNVTLFVADYYP 1nf3A 84 :VVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQI T0286 131 :WPEAIKQYNA 1nf3A 122 :DPSTIEKLAK T0286 143 :PGIVQQKANAGKKVYFVKLS 1nf3A 139 :PETAEKLARDLKAVKYVECS T0286 166 :F 1nf3A 159 :A T0286 179 :LSEIGYKKIANIWYKYTI 1nf3A 160 :LTQKGLKNVFDEAILAAL Number of specific fragments extracted= 10 number of extra gaps= 0 total=702 Number of alignments=63 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1jrlA/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/T0286/1jrlA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0286/1jrlA/merged-good-all-a2m.gz for input Trying 1jrlA/merged-good-all-a2m Error: Couldn't open file 1jrlA/merged-good-all-a2m or 1jrlA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1hdoA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0286 read from 1hdoA/merged-good-all-a2m # 1hdoA read from 1hdoA/merged-good-all-a2m # found chain 1hdoA in training set Warning: unaligning (T0286)G153 because of BadResidue code BAD_PEPTIDE in next template residue (1hdoA)G143 Warning: unaligning (T0286)K155 because of BadResidue code BAD_PEPTIDE at template residue (1hdoA)G143 T0286 6 :IKIMPVG 1hdoA 4 :KKIAIFG T0286 23 :EMGSYRTELYRLLTQAGLSIDFVGSQRSGPSSLPDKDHEGHSGWTI 1hdoA 11 :ATGQTGLTTLAQAVQAGYEVTVLVRDSSRLPSEGPRPAHVVVGDVL T0286 73 :SNINNWLNTH 1hdoA 59 :ADVDKTVAGQ T0286 85 :DVVFLWIGGN 1hdoA 69 :DAVIVLLGTR T0286 97 :LLNGNLN 1hdoA 79 :NDLSPTT T0286 104 :ATGLSNLIDQIFTV 1hdoA 88 :SEGARNIVAAMKAH T0286 120 :NV 1hdoA 102 :GV T0286 122 :TLFVADYYPW 1hdoA 105 :KVVACTSAFL T0286 132 :PEAIKQYNAVIPG 1hdoA 122 :PPRLQAVTDDHIR T0286 146 :VQQKANA 1hdoA 135 :MHKVLRE T0286 156 :VYFVKLS 1hdoA 144 :LKYVAVM T0286 163 :EIQFD 1hdoA 152 :PHIGD T0286 172 :ISWDGLHLS 1hdoA 165 :VTLDGRGPS T0286 184 :YKKIANIWYK 1hdoA 178 :KHDLGHFMLR Number of specific fragments extracted= 14 number of extra gaps= 1 total=716 Number of alignments=64 # 1hdoA read from 1hdoA/merged-good-all-a2m # found chain 1hdoA in training set Warning: unaligning (T0286)G153 because of BadResidue code BAD_PEPTIDE in next template residue (1hdoA)G143 Warning: unaligning (T0286)K155 because of BadResidue code BAD_PEPTIDE at template residue (1hdoA)G143 T0286 5 :TIKIMPVG 1hdoA 3 :VKKIAIFG T0286 23 :EMGSYRTELYRLLTQAGLSIDFVGSQRSGPSSLPDKDHEGHSGWTIP 1hdoA 11 :ATGQTGLTTLAQAVQAGYEVTVLVRDSSRLPSEGPRPAHVVVGDVLQ T0286 72 :ASNINNWLNTH 1hdoA 58 :AADVDKTVAGQ T0286 85 :DVVFLWIGGNDLLLNGNLNATGLSNLIDQIFTV 1hdoA 69 :DAVIVLLGTRNDLSPTTVMSEGARNIVAAMKAH T0286 120 :NVT 1hdoA 102 :GVD T0286 123 :LFVADYYPW 1hdoA 106 :VVACTSAFL T0286 132 :PEAIKQYNAVIPGIV 1hdoA 122 :PPRLQAVTDDHIRMH T0286 148 :QKANA 1hdoA 137 :KVLRE T0286 156 :VYFVKLS 1hdoA 144 :LKYVAVM T0286 163 :EIQFDRNT 1hdoA 152 :PHIGDQPL T0286 171 :DISWDGLHLS 1hdoA 164 :TVTLDGRGPS T0286 184 :YKKIANIWY 1hdoA 178 :KHDLGHFML Number of specific fragments extracted= 12 number of extra gaps= 1 total=728 Number of alignments=65 # 1hdoA read from 1hdoA/merged-good-all-a2m # found chain 1hdoA in training set Warning: unaligning (T0286)W131 because of BadResidue code BAD_PEPTIDE at template residue (1hdoA)V121 Warning: unaligning (T0286)A152 because of BadResidue code BAD_PEPTIDE in next template residue (1hdoA)G143 Warning: unaligning (T0286)G153 because of BadResidue code BAD_PEPTIDE at template residue (1hdoA)G143 T0286 7 :KIMPVG 1hdoA 5 :KIAIFG T0286 23 :EMGSYRTELYRLLTQAGLSIDFVGSQRS 1hdoA 11 :ATGQTGLTTLAQAVQAGYEVTVLVRDSS T0286 51 :GP 1hdoA 53 :GD T0286 65 :GWTIPQIASNI 1hdoA 55 :VLQAADVDKTV T0286 82 :HNPDVVFLWIGGN 1hdoA 66 :AGQDAVIVLLGTR T0286 98 :LN 1hdoA 79 :ND T0286 101 :NLNATGLSNLIDQIFTV 1hdoA 85 :TVMSEGARNIVAAMKAH T0286 122 :TLFVADYYP 1hdoA 105 :KVVACTSAF T0286 132 :PEAIKQYNAVIPGIVQQKAN 1hdoA 122 :PPRLQAVTDDHIRMHKVLRE T0286 154 :KKVYFV 1hdoA 144 :LKYVAV T0286 160 :KLSEIQFDRNTDISWDGLHL 1hdoA 153 :HIGDQPLTGAYTVTLDGRGP Number of specific fragments extracted= 11 number of extra gaps= 2 total=739 Number of alignments=66 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1a4rA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1a4rA expands to /projects/compbio/data/pdb/1a4r.pdb.gz 1a4rA:# T0286 read from 1a4rA/merged-good-all-a2m # 1a4rA read from 1a4rA/merged-good-all-a2m # adding 1a4rA to template set # found chain 1a4rA in template set T0286 4 :KTIKIMPVGD 1a4rA 2 :QTIKCVVVGD T0286 23 :EMGSYRTELYRLLTQ 1a4rA 12 :VAVGKTCLLISYTTN T0286 48 :QRSGPSSLPDKDHEGH 1a4rA 27 :KFPSEYVPTVFDNYAV T0286 64 :SGWT 1a4rA 57 :DTAG T0286 69 :PQIASNINNWLNT 1a4rA 62 :EDYDRLRPLSYPQ T0286 84 :PDVVFLWIGGN 1a4rA 75 :TDVFLVCFSVV T0286 101 :NLN 1a4rA 86 :SPS T0286 104 :ATGLSN 1a4rA 90 :FENVKE T0286 110 :LIDQIFTVKPNVTLFVADYYPW 1a4rA 97 :WVPEITHHCPKTPFLLVGTQID T0286 132 :PEAIKQYNAV 1a4rA 122 :DPSTIEKLAK T0286 143 :PGIVQQKANAGK 1a4rA 139 :PETAEKLARDLK T0286 155 :K 1a4rA 153 :K T0286 158 :FVKLS 1a4rA 154 :YVECS T0286 164 :IQFD 1a4rA 159 :ALTQ T0286 182 :IGYKKIANIWYKY 1a4rA 163 :KGLKNVFDEAILA T0286 199 :LRALAG 1a4rA 176 :ALEPPE Number of specific fragments extracted= 16 number of extra gaps= 0 total=755 Number of alignments=67 # 1a4rA read from 1a4rA/merged-good-all-a2m # found chain 1a4rA in template set T0286 5 :TIKIMPVGD 1a4rA 3 :TIKCVVVGD T0286 26 :SYRTELYRLLTQAGLS 1a4rA 15 :GKTCLLISYTTNKFPS T0286 51 :GPSSLP 1a4rA 31 :EYVPTV T0286 57 :DKDHE 1a4rA 57 :DTAGQ T0286 69 :PQIASNINNWLNT 1a4rA 62 :EDYDRLRPLSYPQ T0286 84 :PDVVFLWIGGND 1a4rA 75 :TDVFLVCFSVVS T0286 101 :NLNATGLSN 1a4rA 87 :PSSFENVKE T0286 110 :LIDQIFTVKPNVTLFVADYYPW 1a4rA 97 :WVPEITHHCPKTPFLLVGTQID T0286 132 :PEAIKQYNAV 1a4rA 122 :DPSTIEKLAK T0286 143 :PGIVQQKANAGK 1a4rA 139 :PETAEKLARDLK T0286 155 :K 1a4rA 153 :K T0286 158 :FVKL 1a4rA 154 :YVEC T0286 163 :EIQFDRN 1a4rA 158 :SALTQKG T0286 184 :YKKIANIWYKYT 1a4rA 165 :LKNVFDEAILAA Number of specific fragments extracted= 14 number of extra gaps= 0 total=769 Number of alignments=68 # 1a4rA read from 1a4rA/merged-good-all-a2m # found chain 1a4rA in template set T0286 4 :KTIKIMPVGD 1a4rA 2 :QTIKCVVVGD T0286 24 :MGSYRTELYRLLTQAGLSIDFVGSQRS 1a4rA 12 :VAVGKTCLLISYTTNKFPSEYVPTVFD T0286 51 :GPSSLPDKDH 1a4rA 57 :DTAGQEDYDR T0286 76 :NNWLNTHNPDVVFLWIG 1a4rA 67 :LRPLSYPQTDVFLVCFS T0286 97 :LLNGNLNATGLSNLIDQIFTVKPNVTLFVADYYP 1a4rA 84 :VVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQI T0286 131 :WPEAIKQYNA 1a4rA 122 :DPSTIEKLAK T0286 143 :PGIVQQKANAGKKVYFVKLS 1a4rA 139 :PETAEKLARDLKAVKYVECS T0286 179 :LSEIGYKKIANIWYKYT 1a4rA 160 :LTQKGLKNVFDEAILAA Number of specific fragments extracted= 8 number of extra gaps= 0 total=777 Number of alignments=69 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1zmbA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1zmbA expands to /projects/compbio/data/pdb/1zmb.pdb.gz 1zmbA: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 # T0286 read from 1zmbA/merged-good-all-a2m # 1zmbA read from 1zmbA/merged-good-all-a2m # adding 1zmbA to template set # found chain 1zmbA in template set T0286 5 :TIKIMPVGDSCTEGMGGGEMG 1zmbA 2 :VKSFLMLGQSNMAGRGFINEV T0286 26 :SYRTELYRLLTQAGL 1zmbA 55 :SLAGSFADAWSQKNQ T0286 41 :SIDFVGS 1zmbA 72 :IIGLIPC T0286 62 :GHSGWTIPQIA 1zmbA 79 :AEGGSSIDEWA T0286 73 :SNINNWLNTHNPDVVFLWIGGNDLLLNGNLN 1zmbA 100 :TEAKFAMESSELTGILWHQGESDSLNGNYKV T0286 104 :ATGLSNLIDQIFTVK 1zmbA 132 :YKKLLLIIEALRKEL T0286 119 :PNVTLFVADYYPW 1zmbA 149 :PDIPIIIGGLGDF T0286 135 :IKQ 1zmbA 171 :CTE T0286 139 :NAVIPGIVQQKANAGKKVYFVKLSEIQ 1zmbA 174 :YNFINKELQKFAFEQDNCYFVTASGLT T0286 172 :ISWDGLHLSEIGYKKIANIWYKYTID 1zmbA 201 :CNPDGIHIDAISQRKFGLRYFEAFFN Number of specific fragments extracted= 10 number of extra gaps= 0 total=787 Number of alignments=70 # 1zmbA read from 1zmbA/merged-good-all-a2m # found chain 1zmbA in template set T0286 5 :TIKIMPVGDSCTEGMGGGEMG 1zmbA 2 :VKSFLMLGQSNMAGRGFINEV T0286 26 :SYRTELYRLLTQAGL 1zmbA 55 :SLAGSFADAWSQKNQ T0286 41 :SIDFVGS 1zmbA 72 :IIGLIPC T0286 62 :GHSGWTIPQIAS 1zmbA 79 :AEGGSSIDEWAL T0286 74 :NINNWLNTHNPDVVFLWIGGND 1zmbA 101 :EAKFAMESSELTGILWHQGESD T0286 96 :LLLNGNLNATGLSNLIDQIFTVK 1zmbA 124 :LNGNYKVYYKKLLLIIEALRKEL T0286 119 :PNVTLFVADYYPW 1zmbA 149 :PDIPIIIGGLGDF T0286 132 :PEAI 1zmbA 171 :CTEY T0286 140 :AVIPGIVQQKANAGKKVYFVKLSEI 1zmbA 175 :NFINKELQKFAFEQDNCYFVTASGL T0286 171 :DISWDGLHLSEIGYKKIANIWYKYTID 1zmbA 200 :TCNPDGIHIDAISQRKFGLRYFEAFFN Number of specific fragments extracted= 10 number of extra gaps= 0 total=797 Number of alignments=71 # 1zmbA read from 1zmbA/merged-good-all-a2m # found chain 1zmbA in template set T0286 2 :ASKTIKIMPVG 1zmbA 69 :QEDIIGLIPCA T0286 53 :SSLPDKDHEGHSGWTIPQIASNINNWLNTHNPDVVFLWIGGNDLLLNG 1zmbA 80 :EGGSSIDEWALDGVLFRHALTEAKFAMESSELTGILWHQGESDSLNGN T0286 101 :NLNATGLSNLIDQIFTV 1zmbA 129 :KVYYKKLLLIIEALRKE T0286 118 :KPNVTLFVADYYP 1zmbA 148 :VPDIPIIIGGLGD T0286 131 :WPEAIKQYNAVIPGIV 1zmbA 170 :GCTEYNFINKELQKFA T0286 151 :NAGKKVYFVKLSEI 1zmbA 186 :FEQDNCYFVTASGL T0286 171 :DISWDGLHLSEIGYKKIANIWYKYTID 1zmbA 200 :TCNPDGIHIDAISQRKFGLRYFEAFFN Number of specific fragments extracted= 7 number of extra gaps= 0 total=804 Number of alignments=72 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1u0sY/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1u0sY expands to /projects/compbio/data/pdb/1u0s.pdb.gz 1u0sY:Skipped atom 825, because occupancy 0.500 <= existing 0.500 in 1u0sY Skipped atom 827, because occupancy 0.500 <= existing 0.500 in 1u0sY Skipped atom 829, because occupancy 0.500 <= existing 0.500 in 1u0sY Skipped atom 831, because occupancy 0.500 <= existing 0.500 in 1u0sY Skipped atom 833, because occupancy 0.500 <= existing 0.500 in 1u0sY Skipped atom 835, because occupancy 0.500 <= existing 0.500 in 1u0sY Skipped atom 837, because occupancy 0.500 <= existing 0.500 in 1u0sY Skipped atom 839, because occupancy 0.500 <= existing 0.500 in 1u0sY Skipped atom 841, because occupancy 0.500 <= existing 0.500 in 1u0sY Skipped atom 843, because occupancy 0.500 <= existing 0.500 in 1u0sY Skipped atom 845, because occupancy 0.500 <= existing 0.500 in 1u0sY # T0286 read from 1u0sY/merged-good-all-a2m # 1u0sY read from 1u0sY/merged-good-all-a2m # adding 1u0sY to template set # found chain 1u0sY in template set Warning: unaligning (T0286)T5 because first residue in template chain is (1u0sY)G2 T0286 6 :IKIMPVGD 1u0sY 3 :KRVLIVDD T0286 24 :MGSYRTELYRLLTQA 1u0sY 11 :AAFMRMMLKDIITKA T0286 41 :SIDFVGS 1u0sY 26 :GYEVAGE T0286 62 :GHS 1u0sY 33 :ATN T0286 68 :IP 1u0sY 36 :GR T0286 74 :NINNWLNTHNPDVVFLWIGG 1u0sY 38 :EAVEKYKELKPDIVTMDITM T0286 100 :G 1u0sY 58 :P T0286 104 :ATGLSNLIDQIFTVKPNVTLFVADYYPWPEAIKQYNAV 1u0sY 59 :EMNGIDAIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKA T0286 143 :PGIVQQKANA 1u0sY 108 :PSRVVEALNK Number of specific fragments extracted= 9 number of extra gaps= 0 total=813 Number of alignments=73 # 1u0sY read from 1u0sY/merged-good-all-a2m # found chain 1u0sY in template set Warning: unaligning (T0286)T5 because first residue in template chain is (1u0sY)G2 T0286 6 :IKIMPVGD 1u0sY 3 :KRVLIVDD T0286 26 :SYRTELYRLLTQAGLSIDFVGS 1u0sY 13 :FMRMMLKDIITKAGYEVAGEAT T0286 67 :TI 1u0sY 35 :NG T0286 73 :SNINNWLNTHNPDVVFLWIGG 1u0sY 37 :REAVEKYKELKPDIVTMDITM T0286 100 :GN 1u0sY 58 :PE T0286 106 :GLSNLIDQIFTVKPNVTLFVADYYPWPEAIKQYNAV 1u0sY 61 :NGIDAIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKA T0286 143 :PGIVQQKANA 1u0sY 108 :PSRVVEALNK Number of specific fragments extracted= 7 number of extra gaps= 0 total=820 Number of alignments=74 # 1u0sY read from 1u0sY/merged-good-all-a2m # found chain 1u0sY in template set Warning: unaligning (T0286)S3 because first residue in template chain is (1u0sY)G2 T0286 4 :KTIKIMP 1u0sY 3 :KRVLIVD T0286 23 :EMGSYRTELYRLLTQAGLSIDFVGSQ 1u0sY 10 :DAAFMRMMLKDIITKAGYEVAGEATN T0286 72 :ASNINNWLNTHNPDVVFLWI 1u0sY 36 :GREAVEKYKELKPDIVTMDI T0286 101 :NL 1u0sY 59 :EM T0286 106 :GLSNLIDQIFTVKPNVTLFVADYYPW 1u0sY 61 :NGIDAIKEIMKIDPNAKIIVCSAMGQ T0286 143 :PGIVQQKANAGKKVYFV 1u0sY 87 :QAMVIEAIKAGAKDFIV T0286 188 :ANIWYKYTIDI 1u0sY 108 :PSRVVEALNKV Number of specific fragments extracted= 7 number of extra gaps= 0 total=827 Number of alignments=75 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1wab/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1wab expands to /projects/compbio/data/pdb/1wab.pdb.gz 1wab:Warning: there is no chain 1wab will retry with 1wabA # T0286 read from 1wab/merged-good-all-a2m # 1wab read from 1wab/merged-good-all-a2m # adding 1wab to template set # found chain 1wab in template set Warning: unaligning (T0286)R33 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1wab)C55 Warning: unaligning (T0286)L34 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1wab)C55 Warning: unaligning (T0286)L35 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1wab)W58 Warning: unaligning (T0286)A38 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1wab)F62 Warning: unaligning (T0286)G39 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1wab)F62 Warning: unaligning (T0286)L199 because last residue in template chain is (1wab)L216 T0286 3 :SKTIKIMPVGDSCTE 1wab 36 :DKEPEVVFIGDSLVQ T0286 30 :ELY 1wab 51 :LMH T0286 36 :TQ 1wab 59 :RE T0286 40 :LSIDFVGS 1wab 63 :SPLHALNF T0286 62 :GHSGWTIPQIASNI 1wab 71 :GIGGDSTQHVLWRL T0286 76 :NNWLNTHNPDVVFLWIGGN 1wab 86 :NGELEHIRPKIVVVWVGTN T0286 99 :NGNLN 1wab 105 :NHGHT T0286 104 :ATGLSNLIDQIFTVKPNVTLFVADYYPW 1wab 114 :TGGIKAIVQLVNERQPQARVVVLGLLPR T0286 132 :PEAIKQYNAVIPGIVQQKANAGKKVYFVKLSEIQFDRNTDISW 1wab 145 :PNPLREKNRRVNELVRAALAGHPRAHFLDADPGFVHSDGTISH T0286 175 :DGLHLSEIGYKKIANIWYKYTIDI 1wab 192 :DYLHLSRLGYTPVCRALHSLLLRL Number of specific fragments extracted= 10 number of extra gaps= 3 total=837 Number of alignments=76 # 1wab read from 1wab/merged-good-all-a2m # found chain 1wab in template set Warning: unaligning (T0286)R33 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1wab)C55 Warning: unaligning (T0286)L34 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1wab)C55 Warning: unaligning (T0286)L35 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1wab)W58 Warning: unaligning (T0286)A38 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1wab)F62 Warning: unaligning (T0286)G39 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1wab)F62 Warning: unaligning (T0286)L199 because last residue in template chain is (1wab)L216 T0286 4 :KTIKIMPVGDSCT 1wab 37 :KEPEVVFIGDSLV T0286 29 :TELY 1wab 50 :QLMH T0286 36 :TQ 1wab 59 :RE T0286 40 :LSIDFVGS 1wab 63 :SPLHALNF T0286 62 :GHSGWTIPQIASNINN 1wab 71 :GIGGDSTQHVLWRLEN T0286 78 :WLNTHNPDVVFLWIGGNDLLLNGNLNATGLSNLIDQIFTVKPNVTLFVADYYPW 1wab 88 :ELEHIRPKIVVVWVGTNNHGHTAEQVTGGIKAIVQLVNERQPQARVVVLGLLPR T0286 132 :PEAIKQYNAVIPGIVQQKANAGKKVYFVKLSEIQFDRNT 1wab 145 :PNPLREKNRRVNELVRAALAGHPRAHFLDADPGFVHSDG T0286 171 :DISWDGLHLSEIGYKKIANIWYKYTIDI 1wab 188 :HDMYDYLHLSRLGYTPVCRALHSLLLRL Number of specific fragments extracted= 8 number of extra gaps= 3 total=845 Number of alignments=77 # 1wab read from 1wab/merged-good-all-a2m # found chain 1wab in template set T0286 19 :MGGGEMGSYRTELYRLLTQAGLSIDFVGSQ 1wab 18 :QGDGRWMSLHHRFVADSKDKEPEVVFIGDS T0286 63 :HSGWTIPQIASNINN 1wab 72 :IGGDSTQHVLWRLEN T0286 78 :WLNTHNPDVVFLWIGGNDLLLNGNLNATGLSNLIDQIFTVKPNVTLFVADYYP 1wab 88 :ELEHIRPKIVVVWVGTNNHGHTAEQVTGGIKAIVQLVNERQPQARVVVLGLLP T0286 131 :WPEAIKQYNAVIPGIVQQKANAGKKVYFVKLSEIQF 1wab 144 :HPNPLREKNRRVNELVRAALAGHPRAHFLDADPGFV T0286 167 :DRNTDISWDGLHLSEIGYKKIANIWYKYTIDI 1wab 184 :TISHHDMYDYLHLSRLGYTPVCRALHSLLLRL Number of specific fragments extracted= 5 number of extra gaps= 0 total=850 Number of alignments=78 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1t2dA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0286 read from 1t2dA/merged-good-all-a2m # 1t2dA read from 1t2dA/merged-good-all-a2m # found chain 1t2dA in training set Warning: unaligning (T0286)S3 because first residue in template chain is (1t2dA)A1 Warning: unaligning (T0286)Y129 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1t2dA)V128 Warning: unaligning (T0286)P130 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1t2dA)V128 T0286 4 :KTIKIMPVG 1t2dA 2 :PKAKIVLVG T0286 24 :MGSYRTELYRLLTQAGL 1t2dA 11 :SGMIGGVMATLIVQKNL T0286 41 :SIDFVGS 1t2dA 29 :DVVLFDI T0286 64 :SGWTIPQIASNINNWL 1t2dA 36 :VKNMPHGKALDTSHTN T0286 80 :NTHN 1t2dA 67 :DDLA T0286 84 :PDVVFLWIGGN 1t2dA 72 :ADVVIVTAGFT T0286 98 :LNGNLN 1t2dA 83 :KAPGKS T0286 104 :ATGLSNLIDQIFTVKPNVTLFVADY 1t2dA 102 :NKIMIEIGGHIKKNCPNAFIIVVTN T0286 132 :PEAIKQYNAVIPGIVQQKANAGK 1t2dA 210 :DAELEAIFDRTVNTALEIVNLHA T0286 165 :QFD 1t2dA 233 :SPY T0286 168 :RNTDISWDGLHLSEIGYKK 1t2dA 282 :ANGVEQVIELQLNSEEKAK T0286 188 :ANIWYKYTIDILR 1t2dA 301 :FDEAIAETKRMKA Number of specific fragments extracted= 12 number of extra gaps= 1 total=862 Number of alignments=79 # 1t2dA read from 1t2dA/merged-good-all-a2m # found chain 1t2dA in training set Warning: unaligning (T0286)S3 because first residue in template chain is (1t2dA)A1 Warning: unaligning (T0286)Y129 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1t2dA)V128 T0286 4 :KTIKIMPVGD 1t2dA 2 :PKAKIVLVGS T0286 26 :SYRTELYRLLTQAGL 1t2dA 13 :MIGGVMATLIVQKNL T0286 41 :SIDFV 1t2dA 29 :DVVLF T0286 62 :GHSGWTIPQIASNINNWLNTHN 1t2dA 34 :DIVKNMPHGKALDTSHTNVMAY T0286 84 :PDVVFLWIGGND 1t2dA 72 :ADVVIVTAGFTK T0286 96 :LLLN 1t2dA 85 :PGKS T0286 100 :GNLNATGLSNLIDQIFTVKPNVTLFVADY 1t2dA 98 :LPLNNKIMIEIGGHIKKNCPNAFIIVVTN T0286 132 :PEAIKQYNAVIPGIVQQKANAGK 1t2dA 210 :DAELEAIFDRTVNTALEIVNLHA T0286 171 :DISW 1t2dA 287 :QVIE T0286 177 :LHLSEIGYKKI 1t2dA 291 :LQLNSEEKAKF T0286 189 :NIWYKYTIDILR 1t2dA 302 :DEAIAETKRMKA Number of specific fragments extracted= 11 number of extra gaps= 1 total=873 Number of alignments=80 # 1t2dA read from 1t2dA/merged-good-all-a2m # found chain 1t2dA in training set Warning: unaligning (T0286)Y129 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1t2dA)V128 Warning: unaligning (T0286)P130 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1t2dA)V128 T0286 4 :KTIKIMPVGD 1t2dA 2 :PKAKIVLVGS T0286 25 :GSYRTELYRLLTQAGL 1t2dA 12 :GMIGGVMATLIVQKNL T0286 41 :SIDFVGSQRS 1t2dA 29 :DVVLFDIVKN T0286 51 :GPSSLPD 1t2dA 62 :GSNTYDD T0286 81 :THNPDVVFLWIGGNDL 1t2dA 69 :LAGADVVIVTAGFTKA T0286 101 :NLNATGLSNLIDQIFTVKPNVTLFVADY 1t2dA 99 :PLNNKIMIEIGGHIKKNCPNAFIIVVTN T0286 131 :WP 1t2dA 234 :PY T0286 136 :KQYNAVIPGIVQQKANAGKKVYFV 1t2dA 236 :VAPAAAIIEMAESYLKDLKKVLIC T0286 160 :KLSEIQFDR 1t2dA 261 :TLLEGQYGH T0286 169 :NTDISWDGLHLSEIGYKKI 1t2dA 283 :NGVEQVIELQLNSEEKAKF T0286 189 :NIWYKYTIDILR 1t2dA 302 :DEAIAETKRMKA Number of specific fragments extracted= 11 number of extra gaps= 1 total=884 Number of alignments=81 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1mh1/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0286 read from 1mh1/merged-good-all-a2m # 1mh1 read from 1mh1/merged-good-all-a2m # found chain 1mh1 in training set T0286 2 :ASKTIKIMPVGD 1mh1 2A:SPQAIKCVVVGD T0286 23 :EMGSYRTELYRLLTQ 1mh1 12 :GAVGKTCLLISYTTN T0286 48 :QRSGPSSLPDKDHEGH 1mh1 27 :AFPGEYIPTVFDNYSA T0286 64 :SGWTI 1mh1 56 :WDTAG T0286 69 :PQIASNINNW 1mh1 62 :EDYDRLRPLS T0286 82 :HN 1mh1 72 :YP T0286 84 :PDVVFLWIGGN 1mh1 75 :TDVSLICFSLV T0286 100 :GN 1mh1 86 :SP T0286 104 :ATGLSN 1mh1 90 :FENVRA T0286 110 :LIDQIFTVKPNVTLFVADYYPW 1mh1 97 :WYPEVRHHCPNTPIILVGTKLD T0286 132 :PEAIKQYNAV 1mh1 122 :DKDTIEKLKE T0286 143 :PGIVQQKANAG 1mh1 139 :YPQGLAMAKEI T0286 155 :KVYFVKLSEIQFD 1mh1 150 :GAVKYLECSALTQ T0286 182 :IGYKKIANIWYKYT 1mh1 163 :RGLKTVFDEAIRAV Number of specific fragments extracted= 14 number of extra gaps= 0 total=898 Number of alignments=82 # 1mh1 read from 1mh1/merged-good-all-a2m # found chain 1mh1 in training set T0286 2 :ASKTIKIMPVGD 1mh1 2A:SPQAIKCVVVGD T0286 25 :GSYRTELYRLLTQAGLS 1mh1 14 :VGKTCLLISYTTNAFPG T0286 51 :GPSSLP 1mh1 31 :EYIPTV T0286 57 :DKDHE 1mh1 57 :DTAGQ T0286 69 :PQIASNINN 1mh1 62 :EDYDRLRPL T0286 81 :THN 1mh1 71 :SYP T0286 84 :PDVVFLWIGGND 1mh1 75 :TDVSLICFSLVS T0286 101 :NLNATGLSN 1mh1 87 :PASFENVRA T0286 110 :LIDQIFTVKPNVTLFVADYYPW 1mh1 97 :WYPEVRHHCPNTPIILVGTKLD T0286 132 :PEAIKQYNAV 1mh1 122 :DKDTIEKLKE T0286 143 :PGIVQQKANAG 1mh1 139 :YPQGLAMAKEI T0286 155 :KVYFVKLSEIQFDRN 1mh1 150 :GAVKYLECSALTQRG T0286 184 :YKKIANIWYKYT 1mh1 165 :LKTVFDEAIRAV Number of specific fragments extracted= 13 number of extra gaps= 0 total=911 Number of alignments=83 # 1mh1 read from 1mh1/merged-good-all-a2m # found chain 1mh1 in training set T0286 2 :ASKTIKIMPVGD 1mh1 2A:SPQAIKCVVVGD T0286 24 :MGSYRTELYRLLTQAGL 1mh1 12 :GAVGKTCLLISYTTNAF T0286 46 :GSQ 1mh1 30 :GEY T0286 51 :GPSSLPDKDH 1mh1 57 :DTAGQEDYDR T0286 76 :NNWLNTHNPDVVFLWIG 1mh1 67 :LRPLSYPQTDVSLICFS T0286 97 :LLNGNLNATGLSNLIDQIFTVKPNVTLFVADYYP 1mh1 84 :LVSPASFENVRAKWYPEVRHHCPNTPIILVGTKL T0286 131 :WPEAIKQYNAV 1mh1 122 :DKDTIEKLKEK T0286 143 :PGIVQQKANAGKKVYFVKLSE 1mh1 139 :YPQGLAMAKEIGAVKYLECSA T0286 179 :LSEIGYKKIANIWYKYT 1mh1 160 :LTQRGLKTVFDEAIRAV Number of specific fragments extracted= 9 number of extra gaps= 0 total=920 Number of alignments=84 # command:Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0286//projects/compbio/experiments/protein-predict/casp7/T0286/align.constraints_v3.costfcn or /projects/compbio/experiments/protein-predict/casp7/T0286//projects/compbio/experiments/protein-predict/casp7/T0286/align.constraints_v3.costfcn.gz for input Trying /projects/compbio/experiments/protein-predict/casp7/T0286/align.constraints_v3.costfcn # reading script from file /projects/compbio/experiments/protein-predict/casp7/T0286/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((T0286)V87.CB, (T0286)I114.CB) [> 3.4107 = 5.6846 < 7.3899] w=1.0000 to align # Constraint # added constraint: constraint((T0286)L89.CB, (T0286)F124.CB) [> 4.2624 = 7.1040 < 9.2352] w=0.9760 to align # Constraint # added constraint: constraint((T0286)L89.CB, (T0286)V125.CB) [> 3.2562 = 5.4269 < 7.0550] w=0.9620 to align # Constraint # added constraint: constraint((T0286)F88.CB, (T0286)F124.CB) [> 3.1124 = 5.1873 < 6.7435] w=0.9620 to align # Constraint # added constraint: constraint((T0286)V87.CB, (T0286)L123.CB) [> 3.0803 = 5.1339 < 6.6740] w=0.9376 to align # Constraint # added constraint: constraint((T0286)V87.CB, (T0286)F124.CB) [> 4.2403 = 7.0671 < 9.1872] w=0.9235 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)F88.CB) [> 3.7373 = 6.2288 < 8.0974] w=0.9026 to align # Constraint # added constraint: constraint((T0286)L89.CB, (T0286)A126.CB) [> 3.9995 = 6.6659 < 8.6656] w=0.8963 to align # Constraint # added constraint: constraint((T0286)V86.CB, (T0286)L123.CB) [> 4.1796 = 6.9660 < 9.0557] w=0.8955 to align # Constraint # added constraint: constraint((T0286)V87.CB, (T0286)V121.CB) [> 3.5165 = 5.8608 < 7.6190] w=0.8918 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)F88.CB) [> 4.3316 = 7.2193 < 9.3851] w=0.8892 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)V87.CB) [> 3.0339 = 5.0565 < 6.5734] w=0.8892 to align # Constraint # added constraint: constraint((T0286)V86.CB, (T0286)V121.CB) [> 3.9419 = 6.5699 < 8.5409] w=0.8794 to align # Constraint # added constraint: constraint((T0286)I111.CB, (T0286)L123.CB) [> 3.7537 = 6.2562 < 8.1331] w=0.8753 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)V87.CB) [> 4.3389 = 7.2314 < 9.4009] w=0.8739 to align # Constraint # added constraint: constraint((T0286)V86.CB, (T0286)F124.CB) [> 4.0366 = 6.7277 < 8.7460] w=0.8543 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)F88.CB) [> 2.9890 = 4.9817 < 6.4762] w=0.8531 to align # Constraint # added constraint: constraint((T0286)L89.CB, (T0286)L123.CB) [> 3.8607 = 6.4345 < 8.3648] w=0.8514 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)V86.CB) [> 2.8758 = 4.7930 < 6.2309] w=0.8490 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)L89.CB) [> 2.9559 = 4.9265 < 6.4045] w=0.8470 to align # Constraint # added constraint: constraint((T0286)I114.CB, (T0286)L123.CB) [> 3.5775 = 5.9624 < 7.7512] w=0.8411 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)W90.CB) [> 4.2078 = 7.0129 < 9.1168] w=0.8295 to align # Constraint # added constraint: constraint((T0286)D85.CB, (T0286)V121.CB) [> 3.8755 = 6.4592 < 8.3970] w=0.8245 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)V86.CB) [> 4.4165 = 7.3608 < 9.5691] w=0.8220 to align # Constraint # added constraint: constraint((T0286)W90.CB, (T0286)A126.CB) [> 2.6825 = 4.4709 < 5.8121] w=0.8138 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)V87.CB) [> 3.9174 = 6.5290 < 8.4877] w=0.8086 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)F88.CB) [> 4.2109 = 7.0181 < 9.1236] w=0.8086 to align # Constraint # added constraint: constraint((T0286)K7.CB, (T0286)D85.CB) [> 3.1602 = 5.2670 < 6.8471] w=0.7980 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)D85.CB) [> 3.9817 = 6.6361 < 8.6269] w=0.7959 to align # Constraint # added constraint: constraint((T0286)K7.CB, (T0286)V86.CB) [> 4.4720 = 7.4534 < 9.6894] w=0.7940 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)V45.CB) [> 3.3086 = 5.5143 < 7.1686] w=0.7856 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)I42.CB) [> 3.2731 = 5.4552 < 7.0918] w=0.7856 to align # Constraint # added constraint: constraint((T0286)V87.CB, (T0286)T122.CB) [> 4.3863 = 7.3104 < 9.5035] w=0.7847 to align # Constraint # added constraint: constraint((T0286)V86.CB, (T0286)T122.CB) [> 2.9397 = 4.8996 < 6.3695] w=0.7847 to align # Constraint # added constraint: constraint((T0286)L123.CB, (T0286)V156.CB) [> 3.3131 = 5.5218 < 7.1783] w=0.7832 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)D43.CB) [> 4.1705 = 6.9508 < 9.0361] w=0.7814 to align # Constraint # added constraint: constraint((T0286)V125.CB, (T0286)F158.CB) [> 3.4666 = 5.7777 < 7.5110] w=0.7805 to align # Constraint # added constraint: constraint((T0286)D127.CB, (T0286)L161.CB) [> 3.5150 = 5.8583 < 7.6158] w=0.7769 to align # Constraint # added constraint: constraint((T0286)F124.CB, (T0286)Y157.CB) [> 3.2763 = 5.4605 < 7.0987] w=0.7693 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)W90.CB) [> 3.0558 = 5.0930 < 6.6209] w=0.7664 to align # Constraint # added constraint: constraint((T0286)V125.CB, (T0286)V159.CB) [> 4.0379 = 6.7299 < 8.7488] w=0.7640 to align # Constraint # added constraint: constraint((T0286)K7.CB, (T0286)D43.CB) [> 3.1912 = 5.3186 < 6.9142] w=0.7616 to align # Constraint # added constraint: constraint((T0286)F124.CB, (T0286)V159.CB) [> 3.7604 = 6.2674 < 8.1476] w=0.7604 to align # Constraint # added constraint: constraint((T0286)L89.CB, (T0286)L110.CB) [> 3.4937 = 5.8228 < 7.5697] w=0.7591 to align # Constraint # added constraint: constraint((T0286)F124.CB, (T0286)F158.CB) [> 4.2041 = 7.0068 < 9.1088] w=0.7495 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)V87.CB) [> 4.5888 = 7.6480 < 9.9424] w=0.7425 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)F44.CB) [> 3.5765 = 5.9608 < 7.7490] w=0.7393 to align # Constraint # added constraint: constraint((T0286)F88.CB, (T0286)L123.CB) [> 4.5554 = 7.5923 < 9.8700] w=0.7392 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)L89.CB) [> 4.0877 = 6.8128 < 8.8567] w=0.7385 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)I91.CB) [> 3.1990 = 5.3316 < 6.9311] w=0.7365 to align # Constraint # added constraint: constraint((T0286)A126.CB, (T0286)V159.CB) [> 3.3382 = 5.5636 < 7.2327] w=0.7266 to align # Constraint # added constraint: constraint((T0286)D127.CB, (T0286)K160.CB) [> 3.0305 = 5.0507 < 6.5660] w=0.7225 to align # Constraint # added constraint: constraint((T0286)F88.CB, (T0286)A126.CB) [> 3.7866 = 6.3111 < 8.2044] w=0.7207 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)W90.CB) [> 4.1124 = 6.8541 < 8.9103] w=0.7119 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)R28.CB) [> 3.2787 = 5.4644 < 7.1038] w=0.7026 to align # Constraint # added constraint: constraint((T0286)P84.CB, (T0286)V121.CB) [> 3.5315 = 5.8859 < 7.6516] w=0.6912 to align # Constraint # added constraint: constraint((T0286)L89.CB, (T0286)L107.CB) [> 3.9974 = 6.6623 < 8.6610] w=0.6865 to align # Constraint # added constraint: constraint((T0286)L107.CB, (T0286)V125.CB) [> 4.1292 = 6.8820 < 8.9466] w=0.6836 to align # Constraint # added constraint: constraint((T0286)D127.CB, (T0286)V159.CB) [> 3.9018 = 6.5030 < 8.4538] w=0.6772 to align # Constraint # added constraint: constraint((T0286)K7.CB, (T0286)P84.CB) [> 3.1069 = 5.1782 < 6.7317] w=0.6751 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)V45.CB) [> 4.1142 = 6.8570 < 8.9141] w=0.6603 to align # Constraint # added constraint: constraint((T0286)A126.CB, (T0286)L161.CB) [> 3.4851 = 5.8084 < 7.5510] w=0.6523 to align # Constraint # added constraint: constraint((T0286)V125.CB, (T0286)V146.CB) [> 3.7889 = 6.3149 < 8.2093] w=0.6454 to align # Constraint # added constraint: constraint((T0286)V125.CB, (T0286)Y157.CB) [> 4.0734 = 6.7891 < 8.8258] w=0.6361 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)L31.CB) [> 4.0051 = 6.6752 < 8.6777] w=0.6310 to align # Constraint # added constraint: constraint((T0286)G92.CA, (T0286)Y128.CB) [> 3.0338 = 5.0564 < 6.5733] w=0.6302 to align # Constraint # added constraint: constraint((T0286)G93.CA, (T0286)Y128.CB) [> 3.4454 = 5.7424 < 7.4651] w=0.6261 to align # Constraint # added constraint: constraint((T0286)F124.CB, (T0286)V156.CB) [> 3.8449 = 6.4081 < 8.3305] w=0.6255 to align # Constraint # added constraint: constraint((T0286)L123.CB, (T0286)Y157.CB) [> 4.1378 = 6.8962 < 8.9651] w=0.6154 to align # Constraint # added constraint: constraint((T0286)I6.CB, (T0286)D85.CB) [> 3.2046 = 5.3410 < 6.9433] w=0.6149 to align # Constraint # added constraint: constraint((T0286)T122.CB, (T0286)V156.CB) [> 4.0611 = 6.7685 < 8.7990] w=0.6143 to align # Constraint # added constraint: constraint((T0286)Y32.CB, (T0286)F44.CB) [> 3.3768 = 5.6280 < 7.3163] w=0.6132 to align # Constraint # added constraint: constraint((T0286)Y32.CB, (T0286)I42.CB) [> 3.4154 = 5.6924 < 7.4001] w=0.6057 to align # Constraint # added constraint: constraint((T0286)D85.CB, (T0286)T122.CB) [> 4.1416 = 6.9027 < 8.9735] w=0.6040 to align # Constraint # added constraint: constraint((T0286)Y129.CB, (T0286)S162.CB) [> 3.7377 = 6.2295 < 8.0984] w=0.6013 to align # Constraint # added constraint: constraint((T0286)V125.CB, (T0286)V156.CB) [> 3.9476 = 6.5794 < 8.5532] w=0.6005 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)I91.CB) [> 3.6059 = 6.0099 < 7.8128] w=0.5916 to align # Constraint # added constraint: constraint((T0286)D127.CB, (T0286)F158.CB) [> 4.0099 = 6.6832 < 8.6881] w=0.5915 to align # Constraint # added constraint: constraint((T0286)F124.CB, (T0286)W191.CB) [> 3.7210 = 6.2017 < 8.0621] w=0.5861 to align # Constraint # added constraint: constraint((T0286)Y129.CB, (T0286)L161.CB) [> 3.4951 = 5.8251 < 7.5726] w=0.5687 to align # Constraint # added constraint: constraint((T0286)L79.CB, (T0286)I114.CB) [> 3.9009 = 6.5015 < 8.4520] w=0.5687 to align # Constraint # added constraint: constraint((T0286)I75.CB, (T0286)L110.CB) [> 3.5217 = 5.8695 < 7.6304] w=0.5668 to align # Constraint # added constraint: constraint((T0286)L107.CB, (T0286)K149.CB) [> 3.4877 = 5.8128 < 7.5567] w=0.5633 to align # Constraint # added constraint: constraint((T0286)A126.CB, (T0286)F158.CB) [> 4.0992 = 6.8319 < 8.8815] w=0.5619 to align # Constraint # added constraint: constraint((T0286)T122.CB, (T0286)Y157.CB) [> 3.9448 = 6.5747 < 8.5471] w=0.5618 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)W78.CB) [> 3.7074 = 6.1790 < 8.0327] w=0.5541 to align # Constraint # added constraint: constraint((T0286)A104.CB, (T0286)I145.CB) [> 3.3218 = 5.5363 < 7.1972] w=0.5522 to align # Constraint # added constraint: constraint((T0286)Y128.CB, (T0286)L161.CB) [> 3.8838 = 6.4730 < 8.4149] w=0.5462 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)S47.CB) [> 4.2674 = 7.1124 < 9.2462] w=0.5447 to align # Constraint # added constraint: constraint((T0286)L123.CB, (T0286)K155.CB) [> 3.6906 = 6.1509 < 7.9962] w=0.5408 to align # Constraint # added constraint: constraint((T0286)D127.CB, (T0286)P143.CB) [> 3.4824 = 5.8039 < 7.5451] w=0.5353 to align # Constraint # added constraint: constraint((T0286)W90.CB, (T0286)V125.CB) [> 4.3696 = 7.2826 < 9.4675] w=0.5327 to align # Constraint # added constraint: constraint((T0286)I75.CB, (T0286)Q113.CB) [> 3.1468 = 5.2446 < 6.8180] w=0.5307 to align # Constraint # added constraint: constraint((T0286)L161.CB, (T0286)I187.CB) [> 3.6185 = 6.0308 < 7.8400] w=0.5306 to align # Constraint # added constraint: constraint((T0286)V125.CB, (T0286)A150.CB) [> 3.1166 = 5.1943 < 6.7526] w=0.5241 to align # Constraint # added constraint: constraint((T0286)Y128.CB, (T0286)N139.CB) [> 3.3923 = 5.6539 < 7.3501] w=0.5239 to align # Constraint # added constraint: constraint((T0286)D127.CB, (T0286)V146.CB) [> 3.5481 = 5.9135 < 7.6875] w=0.5228 to align # Constraint # added constraint: constraint((T0286)V146.CB, (T0286)F158.CB) [> 3.5619 = 5.9365 < 7.7175] w=0.5191 to align # Constraint # added constraint: constraint((T0286)K7.CB, (T0286)I42.CB) [> 4.2507 = 7.0844 < 9.2098] w=0.5171 to align # Constraint # added constraint: constraint((T0286)I91.CB, (T0286)Y128.CB) [> 3.9989 = 6.6648 < 8.6642] w=0.5121 to align # Constraint # added constraint: constraint((T0286)L79.CB, (T0286)V117.CB) [> 3.0446 = 5.0744 < 6.5967] w=0.5118 to align # Constraint # added constraint: constraint((T0286)F88.CB, (T0286)W191.CB) [> 3.7799 = 6.2999 < 8.1899] w=0.5093 to align # Constraint # added constraint: constraint((T0286)A126.CB, (T0286)W191.CB) [> 4.2034 = 7.0057 < 9.1074] w=0.5052 to align # Constraint # added constraint: constraint((T0286)P130.CB, (T0286)S162.CB) [> 3.3974 = 5.6623 < 7.3610] w=0.5051 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)G46.CA) [> 3.0226 = 5.0376 < 6.5489] w=0.5050 to align # Constraint # added constraint: constraint((T0286)L31.CB, (T0286)A188.CB) [> 3.0749 = 5.1248 < 6.6623] w=0.5016 to align # Constraint # added constraint: constraint((T0286)R28.CB, (T0286)F44.CB) [> 3.8671 = 6.4452 < 8.3788] w=0.5016 to align # Constraint # added constraint: constraint((T0286)A126.CB, (T0286)K160.CB) [> 4.2459 = 7.0764 < 9.1993] w=0.5006 to align # Constraint # added constraint: constraint((T0286)L107.CB, (T0286)V146.CB) [> 3.9357 = 6.5595 < 8.5273] w=0.4993 to align # Constraint # added constraint: constraint((T0286)F88.CB, (T0286)V125.CB) [> 4.2507 = 7.0846 < 9.2099] w=0.4984 to align # Constraint # added constraint: constraint((T0286)I6.CB, (T0286)V86.CB) [> 3.8870 = 6.4782 < 8.4217] w=0.4978 to align # Constraint # added constraint: constraint((T0286)L34.CB, (T0286)A188.CB) [> 3.6474 = 6.0790 < 7.9027] w=0.4975 to align # Constraint # added constraint: constraint((T0286)L89.CB, (T0286)I111.CB) [> 4.1451 = 6.9085 < 8.9811] w=0.4897 to align # Constraint # added constraint: constraint((T0286)A126.CB, (T0286)I187.CB) [> 4.0243 = 6.7071 < 8.7192] w=0.4888 to align # Constraint # added constraint: constraint((T0286)I91.CB, (T0286)L107.CB) [> 3.8578 = 6.4297 < 8.3586] w=0.4877 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)W90.CB) [> 4.3227 = 7.2045 < 9.3658] w=0.4841 to align # Constraint # added constraint: constraint((T0286)S108.CB, (T0286)K149.CB) [> 3.5445 = 5.9075 < 7.6798] w=0.4840 to align # Constraint # added constraint: constraint((T0286)W90.CB, (T0286)Y128.CB) [> 3.9253 = 6.5421 < 8.5048] w=0.4797 to align # Constraint # added constraint: constraint((T0286)G92.CA, (T0286)N103.CB) [> 3.6049 = 6.0082 < 7.8107] w=0.4788 to align # Constraint # added constraint: constraint((T0286)A72.CB, (T0286)N109.CB) [> 3.9736 = 6.6227 < 8.6095] w=0.4758 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)H82.CB) [> 3.6441 = 6.0735 < 7.8955] w=0.4749 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)R28.CB) [> 3.2128 = 5.3546 < 6.9610] w=0.4745 to align # Constraint # added constraint: constraint((T0286)V86.CB, (T0286)T195.CB) [> 3.4304 = 5.7173 < 7.4325] w=0.4741 to align # Constraint # added constraint: constraint((T0286)Y27.CB, (T0286)W90.CB) [> 3.2573 = 5.4289 < 7.0576] w=0.4737 to align # Constraint # added constraint: constraint((T0286)I111.CB, (T0286)K149.CB) [> 3.8759 = 6.4599 < 8.3978] w=0.4723 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)L79.CB) [> 3.9022 = 6.5036 < 8.4547] w=0.4694 to align # Constraint # added constraint: constraint((T0286)A104.CB, (T0286)K149.CB) [> 3.6705 = 6.1175 < 7.9528] w=0.4674 to align # Constraint # added constraint: constraint((T0286)V45.CB, (T0286)W78.CB) [> 3.6639 = 6.1065 < 7.9385] w=0.4671 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)G46.CA) [> 3.9905 = 6.6508 < 8.6460] w=0.4670 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)S47.CB) [> 3.6292 = 6.0487 < 7.8632] w=0.4655 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)S47.CB) [> 3.6313 = 6.0522 < 7.8679] w=0.4655 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)L35.CB) [> 3.7991 = 6.3318 < 8.2313] w=0.4642 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)V45.CB) [> 4.2381 = 7.0635 < 9.1825] w=0.4628 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)F44.CB) [> 3.2341 = 5.3902 < 7.0072] w=0.4628 to align # Constraint # added constraint: constraint((T0286)L31.CB, (T0286)Y192.CB) [> 3.7741 = 6.2901 < 8.1772] w=0.4625 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)G46.CA) [> 4.2438 = 7.0730 < 9.1949] w=0.4611 to align # Constraint # added constraint: constraint((T0286)T122.CB, (T0286)K155.CB) [> 3.3080 = 5.5134 < 7.1674] w=0.4574 to align # Constraint # added constraint: constraint((T0286)I68.CB, (T0286)G106.CA) [> 3.1849 = 5.3082 < 6.9006] w=0.4527 to align # Constraint # added constraint: constraint((T0286)E30.CB, (T0286)A188.CB) [> 2.5943 = 4.3238 < 5.6209] w=0.4490 to align # Constraint # added constraint: constraint((T0286)Y27.CB, (T0286)A188.CB) [> 3.1514 = 5.2524 < 6.8281] w=0.4490 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)I71.CB) [> 3.9212 = 6.5354 < 8.4960] w=0.4489 to align # Constraint # added constraint: constraint((T0286)Q147.CB, (T0286)F158.CB) [> 3.1821 = 5.3035 < 6.8945] w=0.4456 to align # Constraint # added constraint: constraint((T0286)Y27.CB, (T0286)Y184.CB) [> 3.2730 = 5.4550 < 7.0915] w=0.4455 to align # Constraint # added constraint: constraint((T0286)F124.CB, (T0286)Y194.CB) [> 3.6041 = 6.0069 < 7.8090] w=0.4443 to align # Constraint # added constraint: constraint((T0286)V159.CB, (T0286)W191.CB) [> 3.7431 = 6.2384 < 8.1100] w=0.4400 to align # Constraint # added constraint: constraint((T0286)K7.CB, (T0286)H82.CB) [> 3.4761 = 5.7935 < 7.5315] w=0.4398 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)G92.CA) [> 4.3706 = 7.2843 < 9.4696] w=0.4361 to align # Constraint # added constraint: constraint((T0286)L34.CB, (T0286)Y192.CB) [> 3.1516 = 5.2527 < 6.8285] w=0.4358 to align # Constraint # added constraint: constraint((T0286)Y128.CB, (T0286)I142.CB) [> 3.6413 = 6.0689 < 7.8896] w=0.4299 to align # Constraint # added constraint: constraint((T0286)I68.CB, (T0286)L110.CB) [> 4.1021 = 6.8369 < 8.8879] w=0.4276 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)I75.CB) [> 3.9862 = 6.6436 < 8.6367] w=0.4274 to align # Constraint # added constraint: constraint((T0286)N76.CB, (T0286)V117.CB) [> 3.8538 = 6.4229 < 8.3498] w=0.4259 to align # Constraint # added constraint: constraint((T0286)I75.CB, (T0286)I114.CB) [> 4.1959 = 6.9932 < 9.0912] w=0.4225 to align # Constraint # added constraint: constraint((T0286)I111.CB, (T0286)G153.CA) [> 3.5437 = 5.9062 < 7.6781] w=0.4219 to align # Constraint # added constraint: constraint((T0286)N80.CB, (T0286)V117.CB) [> 3.7868 = 6.3113 < 8.2046] w=0.4189 to align # Constraint # added constraint: constraint((T0286)I111.CB, (T0286)V156.CB) [> 3.7564 = 6.2607 < 8.1389] w=0.4168 to align # Constraint # added constraint: constraint((T0286)I6.CB, (T0286)S41.CB) [> 4.1557 = 6.9262 < 9.0041] w=0.4143 to align # Constraint # added constraint: constraint((T0286)L31.CB, (T0286)F88.CB) [> 3.8808 = 6.4681 < 8.4085] w=0.4141 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)I91.CB) [> 3.6077 = 6.0129 < 7.8168] w=0.4115 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)F44.CB) [> 4.5165 = 7.5275 < 9.7858] w=0.4100 to align # Constraint # added constraint: constraint((T0286)E30.CB, (T0286)K185.CB) [> 3.4813 = 5.8021 < 7.5428] w=0.4070 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)S47.CB) [> 3.1084 = 5.1806 < 6.7348] w=0.4067 to align # Constraint # added constraint: constraint((T0286)K7.CB, (T0286)V45.CB) [> 3.7028 = 6.1713 < 8.0227] w=0.4067 to align # Constraint # added constraint: constraint((T0286)L31.CB, (T0286)W90.CB) [> 3.9282 = 6.5470 < 8.5111] w=0.4065 to align # Constraint # added constraint: constraint((T0286)V159.CB, (T0286)Y194.CB) [> 3.3493 = 5.5821 < 7.2568] w=0.4060 to align # Constraint # added constraint: constraint((T0286)V87.CB, (T0286)L110.CB) [> 4.2560 = 7.0934 < 9.2214] w=0.3994 to align # Constraint # added constraint: constraint((T0286)I91.CB, (T0286)V125.CB) [> 4.2301 = 7.0501 < 9.1651] w=0.3991 to align # Constraint # added constraint: constraint((T0286)A72.CB, (T0286)L110.CB) [> 3.8219 = 6.3698 < 8.2807] w=0.3985 to align # Constraint # added constraint: constraint((T0286)L89.CB, (T0286)I114.CB) [> 4.3242 = 7.2069 < 9.3690] w=0.3972 to align # Constraint # added constraint: constraint((T0286)I68.CB, (T0286)D95.CB) [> 3.3003 = 5.5005 < 7.1506] w=0.3889 to align # Constraint # added constraint: constraint((T0286)I68.CB, (T0286)L107.CB) [> 3.6149 = 6.0249 < 7.8323] w=0.3872 to align # Constraint # added constraint: constraint((T0286)L31.CB, (T0286)W191.CB) [> 3.5037 = 5.8394 < 7.5913] w=0.3867 to align # Constraint # added constraint: constraint((T0286)Y27.CB, (T0286)I187.CB) [> 3.0001 = 5.0002 < 6.5003] w=0.3853 to align # Constraint # added constraint: constraint((T0286)V159.CB, (T0286)I190.CB) [> 3.4606 = 5.7677 < 7.4980] w=0.3816 to align # Constraint # added constraint: constraint((T0286)P130.CB, (T0286)L161.CB) [> 3.9878 = 6.6464 < 8.6403] w=0.3804 to align # Constraint # added constraint: constraint((T0286)W66.CB, (T0286)I91.CB) [> 4.2288 = 7.0480 < 9.1623] w=0.3789 to align # Constraint # added constraint: constraint((T0286)W66.CB, (T0286)N94.CB) [> 3.7530 = 6.2551 < 8.1316] w=0.3789 to align # Constraint # added constraint: constraint((T0286)T67.CB, (T0286)G92.CA) [> 4.1778 = 6.9631 < 9.0520] w=0.3789 to align # Constraint # added constraint: constraint((T0286)I68.CB, (T0286)I91.CB) [> 3.0606 = 5.1010 < 6.6314] w=0.3789 to align # Constraint # added constraint: constraint((T0286)I68.CB, (T0286)G92.CA) [> 3.6630 = 6.1050 < 7.9366] w=0.3789 to align # Constraint # added constraint: constraint((T0286)I71.CB, (T0286)I91.CB) [> 3.7044 = 6.1740 < 8.0262] w=0.3789 to align # Constraint # added constraint: constraint((T0286)D171.CB, (T0286)S180.CB) [> 3.4530 = 5.7549 < 7.4814] w=0.3761 to align # Constraint # added constraint: constraint((T0286)W90.CB, (T0286)D127.CB) [> 3.6675 = 6.1126 < 7.9463] w=0.3753 to align # Constraint # added constraint: constraint((T0286)C15.CB, (T0286)W90.CB) [> 3.7393 = 6.2321 < 8.1018] w=0.3740 to align # Constraint # added constraint: constraint((T0286)F124.CB, (T0286)T195.CB) [> 3.8558 = 6.4263 < 8.3542] w=0.3696 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)I71.CB) [> 3.7869 = 6.3115 < 8.2050] w=0.3677 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)Y32.CB) [> 3.5519 = 5.9198 < 7.6958] w=0.3663 to align # Constraint # added constraint: constraint((T0286)I6.CB, (T0286)D43.CB) [> 3.9454 = 6.5757 < 8.5485] w=0.3646 to align # Constraint # added constraint: constraint((T0286)T67.CB, (T0286)D95.CB) [> 3.0109 = 5.0182 < 6.5237] w=0.3635 to align # Constraint # added constraint: constraint((T0286)I111.CB, (T0286)V125.CB) [> 4.1723 = 6.9538 < 9.0399] w=0.3625 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)W66.CB) [> 3.7626 = 6.2710 < 8.1524] w=0.3602 to align # Constraint # added constraint: constraint((T0286)P130.CB, (T0286)N139.CB) [> 3.5968 = 5.9947 < 7.7931] w=0.3584 to align # Constraint # added constraint: constraint((T0286)Y129.CB, (T0286)Q165.CB) [> 3.7723 = 6.2871 < 8.1733] w=0.3575 to align # Constraint # added constraint: constraint((T0286)F88.CB, (T0286)T195.CB) [> 4.2474 = 7.0791 < 9.2028] w=0.3538 to align # Constraint # added constraint: constraint((T0286)S47.CB, (T0286)G62.CA) [> 3.0607 = 5.1012 < 6.6315] w=0.3521 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)L40.CB) [> 3.5098 = 5.8497 < 7.6046] w=0.3513 to align # Constraint # added constraint: constraint((T0286)G65.CA, (T0286)N94.CB) [> 3.0025 = 5.0041 < 6.5054] w=0.3508 to align # Constraint # added constraint: constraint((T0286)S14.CB, (T0286)G65.CA) [> 3.5097 = 5.8496 < 7.6044] w=0.3496 to align # Constraint # added constraint: constraint((T0286)L161.CB, (T0286)I190.CB) [> 3.6262 = 6.0436 < 7.8567] w=0.3474 to align # Constraint # added constraint: constraint((T0286)S47.CB, (T0286)N74.CB) [> 4.0047 = 6.6745 < 8.6769] w=0.3442 to align # Constraint # added constraint: constraint((T0286)Q165.CB, (T0286)G183.CA) [> 4.4149 = 7.3582 < 9.5657] w=0.3433 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)W78.CB) [> 4.3054 = 7.1757 < 9.3284] w=0.3420 to align # Constraint # added constraint: constraint((T0286)L79.CB, (T0286)Q113.CB) [> 3.2304 = 5.3840 < 6.9991] w=0.3390 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)T67.CB) [> 4.3218 = 7.2030 < 9.3639] w=0.3380 to align # Constraint # added constraint: constraint((T0286)T16.CB, (T0286)W90.CB) [> 3.2924 = 5.4873 < 7.1335] w=0.3368 to align # Constraint # added constraint: constraint((T0286)C15.CB, (T0286)H178.CB) [> 4.2069 = 7.0115 < 9.1150] w=0.3368 to align # Constraint # added constraint: constraint((T0286)S14.CB, (T0286)H178.CB) [> 3.6929 = 6.1548 < 8.0012] w=0.3368 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)D43.CB) [> 2.8549 = 4.7582 < 6.1857] w=0.3364 to align # Constraint # added constraint: constraint((T0286)S14.CB, (T0286)S64.CB) [> 2.3508 = 3.9180 < 5.0934] w=0.3356 to align # Constraint # added constraint: constraint((T0286)Y129.CB, (T0286)L179.CB) [> 4.2834 = 7.1391 < 9.2808] w=0.3336 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)G46.CA) [> 3.4727 = 5.7879 < 7.5243] w=0.3333 to align # Constraint # added constraint: constraint((T0286)E17.CB, (T0286)S64.CB) [> 3.2657 = 5.4428 < 7.0756] w=0.3327 to align # Constraint # added constraint: constraint((T0286)N103.CB, (T0286)I142.CB) [> 3.8283 = 6.3805 < 8.2947] w=0.3321 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)G92.CA) [> 4.3911 = 7.3186 < 9.5141] w=0.3249 to align # Constraint # added constraint: constraint((T0286)A72.CB, (T0286)G106.CA) [> 3.6490 = 6.0817 < 7.9061] w=0.3249 to align # Constraint # added constraint: constraint((T0286)G93.CA, (T0286)N103.CB) [> 4.1278 = 6.8796 < 8.9435] w=0.3232 to align # Constraint # added constraint: constraint((T0286)P69.CB, (T0286)G106.CA) [> 4.2916 = 7.1526 < 9.2984] w=0.3228 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)S41.CB) [> 4.2549 = 7.0915 < 9.2190] w=0.3227 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)V45.CB) [> 4.1567 = 6.9278 < 9.0062] w=0.3227 to align # Constraint # added constraint: constraint((T0286)D171.CB, (T0286)I182.CB) [> 3.5966 = 5.9943 < 7.7926] w=0.3225 to align # Constraint # added constraint: constraint((T0286)G46.CA, (T0286)G62.CA) [> 3.6244 = 6.0407 < 7.8530] w=0.3223 to align # Constraint # added constraint: constraint((T0286)V159.CB, (T0286)I187.CB) [> 3.7311 = 6.2185 < 8.0840] w=0.3212 to align # Constraint # added constraint: constraint((T0286)G92.CA, (T0286)Y129.CB) [> 3.8160 = 6.3600 < 8.2680] w=0.3136 to align # Constraint # added constraint: constraint((T0286)A104.CB, (T0286)V141.CB) [> 3.4100 = 5.6834 < 7.3884] w=0.3128 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)G62.CA) [> 3.6433 = 6.0722 < 7.8938] w=0.3116 to align # Constraint # added constraint: constraint((T0286)G20.CA, (T0286)H178.CB) [> 3.5144 = 5.8574 < 7.6146] w=0.3087 to align # Constraint # added constraint: constraint((T0286)E17.CB, (T0286)G46.CA) [> 4.4124 = 7.3540 < 9.5602] w=0.3087 to align # Constraint # added constraint: constraint((T0286)I6.CB, (T0286)I42.CB) [> 3.1093 = 5.1822 < 6.7368] w=0.3085 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)G93.CA) [> 3.9433 = 6.5722 < 8.5438] w=0.3083 to align # Constraint # added constraint: constraint((T0286)F115.CB, (T0286)G153.CA) [> 4.2505 = 7.0842 < 9.2095] w=0.3080 to align # Constraint # added constraint: constraint((T0286)G92.CA, (T0286)I142.CB) [> 3.6972 = 6.1620 < 8.0106] w=0.3076 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)N94.CB) [> 3.3025 = 5.5042 < 7.1555] w=0.3055 to align # Constraint # added constraint: constraint((T0286)V121.CB, (T0286)K155.CB) [> 4.3310 = 7.2183 < 9.3838] w=0.3037 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)L89.CB) [> 4.4257 = 7.3762 < 9.5890] w=0.2996 to align # Constraint # added constraint: constraint((T0286)V87.CB, (T0286)K118.CB) [> 3.9284 = 6.5473 < 8.5115] w=0.2991 to align # Constraint # added constraint: constraint((T0286)K7.CB, (T0286)F44.CB) [> 4.4683 = 7.4472 < 9.6813] w=0.2990 to align # Constraint # added constraint: constraint((T0286)K7.CB, (T0286)S41.CB) [> 3.0593 = 5.0988 < 6.6284] w=0.2984 to align # Constraint # added constraint: constraint((T0286)C15.CB, (T0286)L179.CB) [> 3.9098 = 6.5164 < 8.4713] w=0.2947 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)W66.CB) [> 2.8515 = 4.7525 < 6.1782] w=0.2947 to align # Constraint # added constraint: constraint((T0286)C15.CB, (T0286)Y129.CB) [> 3.7551 = 6.2585 < 8.1360] w=0.2947 to align # Constraint # added constraint: constraint((T0286)S47.CB, (T0286)W78.CB) [> 3.4646 = 5.7743 < 7.5066] w=0.2947 to align # Constraint # added constraint: constraint((T0286)T16.CB, (T0286)R28.CB) [> 3.4832 = 5.8053 < 7.5469] w=0.2938 to align # Constraint # added constraint: constraint((T0286)G92.CA, (T0286)D127.CB) [> 3.5960 = 5.9933 < 7.7913] w=0.2933 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)T195.CB) [> 3.9458 = 6.5763 < 8.5492] w=0.2908 to align # Constraint # added constraint: constraint((T0286)L35.CB, (T0286)Y192.CB) [> 3.5314 = 5.8857 < 7.6514] w=0.2906 to align # Constraint # added constraint: constraint((T0286)I6.CB, (T0286)L40.CB) [> 3.5701 = 5.9502 < 7.7352] w=0.2888 to align # Constraint # added constraint: constraint((T0286)G93.CA, (T0286)Y129.CB) [> 4.0372 = 6.7287 < 8.7472] w=0.2852 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)G62.CA) [> 3.9535 = 6.5892 < 8.5660] w=0.2848 to align # Constraint # added constraint: constraint((T0286)S47.CB, (T0286)H63.CB) [> 4.3808 = 7.3013 < 9.4917] w=0.2847 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)G62.CA) [> 2.7403 = 4.5671 < 5.9372] w=0.2835 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)S64.CB) [> 3.9471 = 6.5784 < 8.5520] w=0.2821 to align # Constraint # added constraint: constraint((T0286)T16.CB, (T0286)G46.CA) [> 4.1666 = 6.9443 < 9.0275] w=0.2807 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)F44.CB) [> 4.2948 = 7.1581 < 9.3055] w=0.2806 to align # Constraint # added constraint: constraint((T0286)L34.CB, (T0286)N189.CB) [> 3.8109 = 6.3516 < 8.2570] w=0.2771 to align # Constraint # added constraint: constraint((T0286)G93.CA, (T0286)I142.CB) [> 4.1760 = 6.9600 < 9.0480] w=0.2771 to align # Constraint # added constraint: constraint((T0286)I164.CB, (T0286)K186.CB) [> 4.1335 = 6.8891 < 8.9558] w=0.2738 to align # Constraint # added constraint: constraint((T0286)I91.CB, (T0286)D127.CB) [> 3.5429 = 5.9049 < 7.6763] w=0.2718 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)H63.CB) [> 4.2460 = 7.0766 < 9.1996] w=0.2695 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)G65.CA) [> 3.2383 = 5.3972 < 7.0164] w=0.2667 to align # Constraint # added constraint: constraint((T0286)W131.CB, (T0286)L177.CB) [> 3.4365 = 5.7275 < 7.4458] w=0.2666 to align # Constraint # added constraint: constraint((T0286)E17.CB, (T0286)H63.CB) [> 3.5710 = 5.9516 < 7.7371] w=0.2653 to align # Constraint # added constraint: constraint((T0286)P130.CB, (T0286)Q165.CB) [> 3.1725 = 5.2875 < 6.8737] w=0.2642 to align # Constraint # added constraint: constraint((T0286)T122.CB, (T0286)T195.CB) [> 3.6293 = 6.0488 < 7.8635] w=0.2622 to align # Constraint # added constraint: constraint((T0286)Y27.CB, (T0286)A126.CB) [> 4.0716 = 6.7860 < 8.8218] w=0.2604 to align # Constraint # added constraint: constraint((T0286)C15.CB, (T0286)G93.CA) [> 4.4174 = 7.3623 < 9.5710] w=0.2591 to align # Constraint # added constraint: constraint((T0286)P143.CB, (T0286)F158.CB) [> 3.5711 = 5.9519 < 7.7375] w=0.2546 to align # Constraint # added constraint: constraint((T0286)Y128.CB, (T0286)K160.CB) [> 3.4103 = 5.6838 < 7.3889] w=0.2543 to align # Constraint # added constraint: constraint((T0286)T16.CB, (T0286)G62.CA) [> 2.8922 = 4.8204 < 6.2665] w=0.2526 to align # Constraint # added constraint: constraint((T0286)E17.CB, (T0286)G62.CA) [> 2.6158 = 4.3596 < 5.6675] w=0.2526 to align # Constraint # added constraint: constraint((T0286)I172.CB, (T0286)G183.CA) [> 3.8492 = 6.4153 < 8.3399] w=0.2489 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)L35.CB) [> 4.2774 = 7.1290 < 9.2676] w=0.2469 to align # Constraint # added constraint: constraint((T0286)N103.CB, (T0286)I145.CB) [> 3.6233 = 6.0388 < 7.8505] w=0.2461 to align # Constraint # added constraint: constraint((T0286)T122.CB, (T0286)I198.CB) [> 3.3610 = 5.6016 < 7.2821] w=0.2444 to align # Constraint # added constraint: constraint((T0286)K7.CB, (T0286)L40.CB) [> 4.4159 = 7.3598 < 9.5677] w=0.2420 to align # Constraint # added constraint: constraint((T0286)E17.CB, (T0286)S26.CB) [> 3.2536 = 5.4226 < 7.0494] w=0.2386 to align # Constraint # added constraint: constraint((T0286)T16.CB, (T0286)S26.CB) [> 3.5545 = 5.9242 < 7.7015] w=0.2386 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)G62.CA) [> 3.8903 = 6.4839 < 8.4291] w=0.2386 to align # Constraint # added constraint: constraint((T0286)S108.CB, (T0286)I145.CB) [> 3.6420 = 6.0700 < 7.8910] w=0.2372 to align # Constraint # added constraint: constraint((T0286)D127.CB, (T0286)I142.CB) [> 3.9126 = 6.5211 < 8.4774] w=0.2333 to align # Constraint # added constraint: constraint((T0286)V45.CB, (T0286)I75.CB) [> 3.9962 = 6.6603 < 8.6584] w=0.2314 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)I71.CB) [> 4.1705 = 6.9508 < 9.0360] w=0.2309 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)H63.CB) [> 4.1125 = 6.8542 < 8.9104] w=0.2287 to align # Constraint # added constraint: constraint((T0286)F124.CB, (T0286)I198.CB) [> 4.1558 = 6.9263 < 9.0042] w=0.2278 to align # Constraint # added constraint: constraint((T0286)L31.CB, (T0286)I42.CB) [> 4.4340 = 7.3900 < 9.6070] w=0.2271 to align # Constraint # added constraint: constraint((T0286)I68.CB, (T0286)N103.CB) [> 3.3835 = 5.6391 < 7.3309] w=0.2245 to align # Constraint # added constraint: constraint((T0286)M19.CB, (T0286)S64.CB) [> 4.0200 = 6.7000 < 8.7099] w=0.2245 to align # Constraint # added constraint: constraint((T0286)T5.CB, (T0286)S41.CB) [> 3.2614 = 5.4357 < 7.0664] w=0.2237 to align # Constraint # added constraint: constraint((T0286)Y27.CB, (T0286)L179.CB) [> 4.2618 = 7.1030 < 9.2339] w=0.2229 to align # Constraint # added constraint: constraint((T0286)H63.CB, (T0286)N74.CB) [> 4.2976 = 7.1627 < 9.3115] w=0.2225 to align # Constraint # added constraint: constraint((T0286)P84.CB, (T0286)I114.CB) [> 4.5014 = 7.5024 < 9.7531] w=0.2221 to align # Constraint # added constraint: constraint((T0286)Q165.CB, (T0286)K186.CB) [> 4.1896 = 6.9826 < 9.0774] w=0.2213 to align # Constraint # added constraint: constraint((T0286)Q165.CB, (T0286)I187.CB) [> 3.5675 = 5.9459 < 7.7297] w=0.2178 to align # Constraint # added constraint: constraint((T0286)N94.CB, (T0286)I135.CB) [> 3.4643 = 5.7738 < 7.5059] w=0.2140 to align # Constraint # added constraint: constraint((T0286)C15.CB, (T0286)I187.CB) [> 4.5238 = 7.5396 < 9.8015] w=0.2105 to align # Constraint # added constraint: constraint((T0286)T16.CB, (T0286)F88.CB) [> 4.5665 = 7.6108 < 9.8940] w=0.2105 to align # Constraint # added constraint: constraint((T0286)S14.CB, (T0286)H63.CB) [> 4.6130 = 7.6883 < 9.9948] w=0.2105 to align # Constraint # added constraint: constraint((T0286)G20.CA, (T0286)L179.CB) [> 4.1644 = 6.9407 < 9.0229] w=0.2105 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)L31.CB) [> 4.4067 = 7.3446 < 9.5479] w=0.2100 to align # Constraint # added constraint: constraint((T0286)L96.CB, (T0286)I135.CB) [> 3.4907 = 5.8179 < 7.5633] w=0.2095 to align # Constraint # added constraint: constraint((T0286)D85.CB, (T0286)N120.CB) [> 4.1455 = 6.9092 < 8.9820] w=0.2083 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)T81.CB) [> 4.1812 = 6.9687 < 9.0593] w=0.2030 to align # Constraint # added constraint: constraint((T0286)A38.CB, (T0286)I196.CB) [> 3.8648 = 6.4413 < 8.3737] w=0.2020 to align # Constraint # added constraint: constraint((T0286)P69.CB, (T0286)D95.CB) [> 4.4363 = 7.3939 < 9.6121] w=0.1965 to align # Constraint # added constraint: constraint((T0286)C15.CB, (T0286)Y128.CB) [> 4.2138 = 7.0230 < 9.1299] w=0.1965 to align # Constraint # added constraint: constraint((T0286)L35.CB, (T0286)F88.CB) [> 4.6117 = 7.6861 < 9.9919] w=0.1931 to align # Constraint # added constraint: constraint((T0286)G46.CA, (T0286)I91.CB) [> 3.8578 = 6.4297 < 8.3586] w=0.1929 to align # Constraint # added constraint: constraint((T0286)Y129.CB, (T0286)K160.CB) [> 3.4573 = 5.7622 < 7.4908] w=0.1925 to align # Constraint # added constraint: constraint((T0286)E30.CB, (T0286)I187.CB) [> 4.5215 = 7.5358 < 9.7965] w=0.1909 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)M24.CB) [> 3.8570 = 6.4283 < 8.3568] w=0.1904 to align # Constraint # added constraint: constraint((T0286)F115.CB, (T0286)K154.CB) [> 4.3569 = 7.2615 < 9.4399] w=0.1900 to align # Constraint # added constraint: constraint((T0286)L123.CB, (T0286)F158.CB) [> 3.7100 = 6.1833 < 8.0383] w=0.1870 to align # Constraint # added constraint: constraint((T0286)L35.CB, (T0286)I196.CB) [> 4.2888 = 7.1480 < 9.2924] w=0.1858 to align # Constraint # added constraint: constraint((T0286)V146.CB, (T0286)Y157.CB) [> 3.8844 = 6.4740 < 8.4163] w=0.1829 to align # Constraint # added constraint: constraint((T0286)N83.CB, (T0286)N120.CB) [> 4.2208 = 7.0347 < 9.1451] w=0.1825 to align # Constraint # added constraint: constraint((T0286)G21.CA, (T0286)E181.CB) [> 3.7491 = 6.2485 < 8.1230] w=0.1824 to align # Constraint # added constraint: constraint((T0286)M19.CB, (T0286)H178.CB) [> 2.5480 = 4.2467 < 5.5207] w=0.1824 to align # Constraint # added constraint: constraint((T0286)G18.CA, (T0286)Y184.CB) [> 4.0659 = 6.7765 < 8.8094] w=0.1824 to align # Constraint # added constraint: constraint((T0286)G18.CA, (T0286)H178.CB) [> 4.1909 = 6.9848 < 9.0803] w=0.1824 to align # Constraint # added constraint: constraint((T0286)Y157.CB, (T0286)I198.CB) [> 3.5539 = 5.9232 < 7.7001] w=0.1824 to align # Constraint # added constraint: constraint((T0286)G93.CA, (T0286)W131.CB) [> 3.7728 = 6.2880 < 8.1744] w=0.1816 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)V121.CB) [> 4.5526 = 7.5876 < 9.8639] w=0.1811 to align # Constraint # added constraint: constraint((T0286)C15.CB, (T0286)Y27.CB) [> 3.8212 = 6.3687 < 8.2793] w=0.1810 to align # Constraint # added constraint: constraint((T0286)F115.CB, (T0286)V156.CB) [> 4.2671 = 7.1119 < 9.2455] w=0.1790 to align # Constraint # added constraint: constraint((T0286)Q165.CB, (T0286)L179.CB) [> 3.5059 = 5.8431 < 7.5960] w=0.1766 to align # Constraint # added constraint: constraint((T0286)G93.CA, (T0286)Y138.CB) [> 4.3570 = 7.2618 < 9.4403] w=0.1747 to align # Constraint # added constraint: constraint((T0286)V125.CB, (T0286)K160.CB) [> 3.8387 = 6.3979 < 8.3173] w=0.1737 to align # Constraint # added constraint: constraint((T0286)G93.CA, (T0286)D127.CB) [> 3.4661 = 5.7769 < 7.5099] w=0.1727 to align # Constraint # added constraint: constraint((T0286)P130.CB, (T0286)K160.CB) [> 3.0594 = 5.0990 < 6.6287] w=0.1716 to align # Constraint # added constraint: constraint((T0286)L35.CB, (T0286)A188.CB) [> 4.2489 = 7.0814 < 9.2059] w=0.1707 to align # Constraint # added constraint: constraint((T0286)S14.CB, (T0286)L177.CB) [> 4.4877 = 7.4794 < 9.7233] w=0.1684 to align # Constraint # added constraint: constraint((T0286)G21.CA, (T0286)H178.CB) [> 3.2990 = 5.4984 < 7.1479] w=0.1684 to align # Constraint # added constraint: constraint((T0286)G93.CA, (T0286)L177.CB) [> 4.5913 = 7.6522 < 9.9478] w=0.1684 to align # Constraint # added constraint: constraint((T0286)G20.CA, (T0286)Y184.CB) [> 4.1398 = 6.8997 < 8.9696] w=0.1684 to align # Constraint # added constraint: constraint((T0286)H82.CB, (T0286)K118.CB) [> 4.0939 = 6.8232 < 8.8701] w=0.1679 to align # Constraint # added constraint: constraint((T0286)V146.CB, (T0286)V156.CB) [> 3.1273 = 5.2121 < 6.7758] w=0.1642 to align # Constraint # added constraint: constraint((T0286)I164.CB, (T0286)L179.CB) [> 3.1921 = 5.3201 < 6.9162] w=0.1639 to align # Constraint # added constraint: constraint((T0286)S14.CB, (T0286)Q48.CB) [> 4.3382 = 7.2303 < 9.3993] w=0.1631 to align # Constraint # added constraint: constraint((T0286)V86.CB, (T0286)I198.CB) [> 3.9114 = 6.5190 < 8.4747] w=0.1628 to align # Constraint # added constraint: constraint((T0286)G100.CA, (T0286)Y138.CB) [> 3.8518 = 6.4197 < 8.3456] w=0.1612 to align # Constraint # added constraint: constraint((T0286)I6.CB, (T0286)L199.CB) [> 3.6093 = 6.0155 < 7.8201] w=0.1588 to align # Constraint # added constraint: constraint((T0286)W90.CB, (T0286)Y129.CB) [> 4.4295 = 7.3824 < 9.5971] w=0.1578 to align # Constraint # added constraint: constraint((T0286)W131.CB, (T0286)G176.CA) [> 3.4256 = 5.7093 < 7.4221] w=0.1544 to align # Constraint # added constraint: constraint((T0286)L96.CB, (T0286)Y138.CB) [> 3.7015 = 6.1691 < 8.0198] w=0.1544 to align # Constraint # added constraint: constraint((T0286)Y129.CB, (T0286)L177.CB) [> 4.5579 = 7.5964 < 9.8754] w=0.1535 to align # Constraint # added constraint: constraint((T0286)S14.CB, (T0286)W66.CB) [> 4.5492 = 7.5820 < 9.8565] w=0.1532 to align # Constraint # added constraint: constraint((T0286)D95.CB, (T0286)I135.CB) [> 4.0786 = 6.7977 < 8.8371] w=0.1525 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)F44.CB) [> 2.1555 = 3.5924 < 4.6702] w=0.1524 to align # Constraint # added constraint: constraint((T0286)G18.CA, (T0286)N94.CB) [> 4.0259 = 6.7098 < 8.7228] w=0.1523 to align # Constraint # added constraint: constraint((T0286)I68.CB, (T0286)N94.CB) [> 4.5661 = 7.6101 < 9.8932] w=0.1508 to align # Constraint # added constraint: constraint((T0286)G18.CA, (T0286)S64.CB) [> 4.0212 = 6.7021 < 8.7127] w=0.1503 to align # Constraint # added constraint: constraint((T0286)G46.CA, (T0286)S64.CB) [> 4.1359 = 6.8932 < 8.9612] w=0.1492 to align # Constraint # added constraint: constraint((T0286)F44.CB, (T0286)A72.CB) [> 4.2485 = 7.0808 < 9.2050] w=0.1490 to align # Constraint # added constraint: constraint((T0286)L96.CB, (T0286)Y128.CB) [> 3.8445 = 6.4076 < 8.3299] w=0.1478 to align # Constraint # added constraint: constraint((T0286)T122.CB, (T0286)L199.CB) [> 3.5683 = 5.9472 < 7.7313] w=0.1456 to align # Constraint # added constraint: constraint((T0286)R49.CB, (T0286)I71.CB) [> 3.8385 = 6.3974 < 8.3167] w=0.1453 to align # Constraint # added constraint: constraint((T0286)T5.CB, (T0286)I42.CB) [> 4.5611 = 7.6018 < 9.8823] w=0.1431 to align # Constraint # added constraint: constraint((T0286)F158.CB, (T0286)Y194.CB) [> 3.6732 = 6.1221 < 7.9587] w=0.1413 to align # Constraint # added constraint: constraint((T0286)A126.CB, (T0286)Y157.CB) [> 4.3727 = 7.2878 < 9.4741] w=0.1413 to align # Constraint # added constraint: constraint((T0286)M19.CB, (T0286)L179.CB) [> 4.5207 = 7.5345 < 9.7949] w=0.1403 to align # Constraint # added constraint: constraint((T0286)G18.CA, (T0286)L179.CB) [> 4.4111 = 7.3518 < 9.5573] w=0.1403 to align # Constraint # added constraint: constraint((T0286)G20.CA, (T0286)S180.CB) [> 3.6969 = 6.1616 < 8.0100] w=0.1403 to align # Constraint # added constraint: constraint((T0286)W90.CB, (T0286)L161.CB) [> 4.1946 = 6.9910 < 9.0882] w=0.1399 to align # Constraint # added constraint: constraint((T0286)T16.CB, (T0286)I91.CB) [> 4.3692 = 7.2820 < 9.4666] w=0.1397 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)L89.CB) [> 3.5515 = 5.9193 < 7.6950] w=0.1355 to align # Constraint # added constraint: constraint((T0286)S162.CB, (T0286)G176.CA) [> 3.9416 = 6.5693 < 8.5401] w=0.1352 to align # Constraint # added constraint: constraint((T0286)Y157.CB, (T0286)W191.CB) [> 3.4711 = 5.7852 < 7.5208] w=0.1339 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)F44.CB) [> 4.7547 = 7.9244 < 10.3017] w=0.1282 to align # Constraint # added constraint: constraint((T0286)F124.CB, (T0286)A150.CB) [> 4.3803 = 7.3006 < 9.4907] w=0.1279 to align # Constraint # added constraint: constraint((T0286)G18.CA, (T0286)R28.CB) [> 4.0690 = 6.7817 < 8.8163] w=0.1263 to align # Constraint # added constraint: constraint((T0286)G18.CA, (T0286)T29.CB) [> 3.5886 = 5.9811 < 7.7754] w=0.1263 to align # Constraint # added constraint: constraint((T0286)G20.CA, (T0286)S173.CB) [> 3.8712 = 6.4520 < 8.3875] w=0.1263 to align # Constraint # added constraint: constraint((T0286)E17.CB, (T0286)R28.CB) [> 4.1439 = 6.9065 < 8.9784] w=0.1257 to align # Constraint # added constraint: constraint((T0286)C15.CB, (T0286)I91.CB) [> 4.5120 = 7.5200 < 9.7760] w=0.1248 to align # Constraint # added constraint: constraint((T0286)Q48.CB, (T0286)S64.CB) [> 3.4773 = 5.7956 < 7.5342] w=0.1246 to align # Constraint # added constraint: constraint((T0286)Q48.CB, (T0286)W66.CB) [> 4.2978 = 7.1629 < 9.3118] w=0.1246 to align # Constraint # added constraint: constraint((T0286)L89.CB, (T0286)D127.CB) [> 3.8257 = 6.3761 < 8.2889] w=0.1244 to align # Constraint # added constraint: constraint((T0286)S41.CB, (T0286)P84.CB) [> 4.0375 = 6.7291 < 8.7478] w=0.1237 to align # Constraint # added constraint: constraint((T0286)F88.CB, (T0286)D127.CB) [> 4.7303 = 7.8838 < 10.2490] w=0.1235 to align # Constraint # added constraint: constraint((T0286)S173.CB, (T0286)G183.CA) [> 4.1396 = 6.8994 < 8.9692] w=0.1226 to align # Constraint # added constraint: constraint((T0286)I172.CB, (T0286)I182.CB) [> 3.4944 = 5.8241 < 7.5713] w=0.1226 to align # Constraint # added constraint: constraint((T0286)F124.CB, (T0286)K160.CB) [> 4.3021 = 7.1702 < 9.3213] w=0.1207 to align # Constraint # added constraint: constraint((T0286)V159.CB, (T0286)G183.CA) [> 4.4471 = 7.4117 < 9.6353] w=0.1192 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)L199.CB) [> 4.3825 = 7.3041 < 9.4953] w=0.1140 to align # Constraint # added constraint: constraint((T0286)S14.CB, (T0286)G62.CA) [> 4.4730 = 7.4550 < 9.6915] w=0.1123 to align # Constraint # added constraint: constraint((T0286)M19.CB, (T0286)G93.CA) [> 3.8248 = 6.3747 < 8.2871] w=0.1119 to align # Constraint # added constraint: constraint((T0286)P130.CB, (T0286)D175.CB) [> 4.2930 = 7.1549 < 9.3014] w=0.1097 to align # Constraint # added constraint: constraint((T0286)F166.CB, (T0286)H178.CB) [> 2.3812 = 3.9687 < 5.1593] w=0.1091 to align # Constraint # added constraint: constraint((T0286)G46.CA, (T0286)H63.CB) [> 4.0014 = 6.6690 < 8.6698] w=0.1088 to align # Constraint # added constraint: constraint((T0286)L123.CB, (T0286)A150.CB) [> 4.1813 = 6.9688 < 9.0595] w=0.1085 to align # Constraint # added constraint: constraint((T0286)E163.CB, (T0286)L177.CB) [> 3.6831 = 6.1385 < 7.9800] w=0.1078 to align # Constraint # added constraint: constraint((T0286)E163.CB, (T0286)D175.CB) [> 3.3696 = 5.6161 < 7.3009] w=0.1078 to align # Constraint # added constraint: constraint((T0286)R49.CB, (T0286)S64.CB) [> 3.4076 = 5.6793 < 7.3831] w=0.1076 to align # Constraint # added constraint: constraint((T0286)G92.CA, (T0286)Y138.CB) [> 4.3325 = 7.2208 < 9.3870] w=0.1071 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)G92.CA) [> 4.6169 = 7.6948 < 10.0032] w=0.1070 to align # Constraint # added constraint: constraint((T0286)Y129.CB, (T0286)G176.CA) [> 3.5020 = 5.8368 < 7.5878] w=0.1063 to align # Constraint # added constraint: constraint((T0286)S162.CB, (T0286)D175.CB) [> 2.9204 = 4.8674 < 6.3276] w=0.1059 to align # Constraint # added constraint: constraint((T0286)L161.CB, (T0286)G183.CA) [> 3.1562 = 5.2604 < 6.8385] w=0.1051 to align # Constraint # added constraint: constraint((T0286)L123.CB, (T0286)V159.CB) [> 4.3151 = 7.1918 < 9.3494] w=0.1042 to align # Constraint # added constraint: constraint((T0286)D85.CB, (T0286)L199.CB) [> 3.3205 = 5.5341 < 7.1943] w=0.1035 to align # Constraint # added constraint: constraint((T0286)G51.CA, (T0286)Q70.CB) [> 3.7509 = 6.2515 < 8.1269] w=0.1035 to align # Constraint # added constraint: constraint((T0286)L161.CB, (T0286)Y184.CB) [> 2.8262 = 4.7103 < 6.1234] w=0.1026 to align # Constraint # added constraint: constraint((T0286)G20.CA, (T0286)N94.CB) [> 3.7194 = 6.1990 < 8.0587] w=0.1003 to align # Constraint # added constraint: constraint((T0286)V159.CB, (T0286)T195.CB) [> 3.9861 = 6.6435 < 8.6365] w=0.0982 to align # Constraint # added constraint: constraint((T0286)M19.CB, (T0286)S173.CB) [> 3.9695 = 6.6159 < 8.6007] w=0.0982 to align # Constraint # added constraint: constraint((T0286)G21.CA, (T0286)S173.CB) [> 4.1709 = 6.9514 < 9.0369] w=0.0982 to align # Constraint # added constraint: constraint((T0286)Q48.CB, (T0286)H63.CB) [> 4.4844 = 7.4740 < 9.7162] w=0.0966 to align # Constraint # added constraint: constraint((T0286)V86.CB, (T0286)L202.CB) [> 4.4372 = 7.3952 < 9.6138] w=0.0965 to align # Constraint # added constraint: constraint((T0286)S41.CB, (T0286)V86.CB) [> 4.2463 = 7.0772 < 9.2003] w=0.0957 to align # Constraint # added constraint: constraint((T0286)I42.CB, (T0286)V87.CB) [> 4.4102 = 7.3504 < 9.5555] w=0.0957 to align # Constraint # added constraint: constraint((T0286)I164.CB, (T0286)L177.CB) [> 3.5707 = 5.9511 < 7.7365] w=0.0951 to align # Constraint # added constraint: constraint((T0286)I164.CB, (T0286)G176.CA) [> 4.2716 = 7.1194 < 9.2552] w=0.0951 to align # Constraint # added constraint: constraint((T0286)N76.CB, (T0286)D112.CB) [> 4.6610 = 7.7684 < 10.0989] w=0.0947 to align # Constraint # added constraint: constraint((T0286)S162.CB, (T0286)L177.CB) [> 3.6830 = 6.1383 < 7.9798] w=0.0933 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)I91.CB) [> 4.1631 = 6.9385 < 9.0201] w=0.0929 to align # Constraint # added constraint: constraint((T0286)K160.CB, (T0286)G183.CA) [> 4.0981 = 6.8301 < 8.8792] w=0.0916 to align # Constraint # added constraint: constraint((T0286)P56.CB, (T0286)G65.CA) [> 3.6084 = 6.0141 < 7.8183] w=0.0883 to align # Constraint # added constraint: constraint((T0286)Y128.CB, (T0286)V159.CB) [> 3.5669 = 5.9449 < 7.7284] w=0.0868 to align # Constraint # added constraint: constraint((T0286)D127.CB, (T0286)Y157.CB) [> 4.1948 = 6.9913 < 9.0887] w=0.0856 to align # Constraint # added constraint: constraint((T0286)F158.CB, (T0286)I190.CB) [> 3.3460 = 5.5767 < 7.2497] w=0.0849 to align # Constraint # added constraint: constraint((T0286)E17.CB, (T0286)R49.CB) [> 3.3122 = 5.5204 < 7.1765] w=0.0842 to align # Constraint # added constraint: constraint((T0286)C15.CB, (T0286)L177.CB) [> 4.0993 = 6.8321 < 8.8817] w=0.0842 to align # Constraint # added constraint: constraint((T0286)E23.CB, (T0286)S173.CB) [> 3.9595 = 6.5992 < 8.5790] w=0.0842 to align # Constraint # added constraint: constraint((T0286)E23.CB, (T0286)W174.CB) [> 3.8770 = 6.4617 < 8.4002] w=0.0842 to align # Constraint # added constraint: constraint((T0286)G25.CA, (T0286)H178.CB) [> 3.8561 = 6.4268 < 8.3549] w=0.0842 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)R49.CB) [> 4.2676 = 7.1126 < 9.2464] w=0.0830 to align # Constraint # added constraint: constraint((T0286)Q48.CB, (T0286)G65.CA) [> 3.3395 = 5.5659 < 7.2357] w=0.0825 to align # Constraint # added constraint: constraint((T0286)S41.CB, (T0286)D85.CB) [> 3.1283 = 5.2138 < 6.7779] w=0.0825 to align # Constraint # added constraint: constraint((T0286)V86.CB, (T0286)V125.CB) [> 4.1425 = 6.9041 < 8.9753] w=0.0825 to align # Constraint # added constraint: constraint((T0286)W131.CB, (T0286)I172.CB) [> 3.8711 = 6.4519 < 8.3874] w=0.0810 to align # Constraint # added constraint: constraint((T0286)I164.CB, (T0286)S173.CB) [> 3.7960 = 6.3267 < 8.2246] w=0.0809 to align # Constraint # added constraint: constraint((T0286)W131.CB, (T0286)K160.CB) [> 4.1435 = 6.9059 < 8.9776] w=0.0807 to align # Constraint # added constraint: constraint((T0286)S41.CB, (T0286)L202.CB) [> 4.2569 = 7.0949 < 9.2234] w=0.0806 to align # Constraint # added constraint: constraint((T0286)N94.CB, (T0286)Y129.CB) [> 3.5191 = 5.8652 < 7.6248] w=0.0779 to align # Constraint # added constraint: constraint((T0286)L55.CB, (T0286)S64.CB) [> 3.5652 = 5.9421 < 7.7247] w=0.0754 to align # Constraint # added constraint: constraint((T0286)S53.CB, (T0286)S64.CB) [> 3.7457 = 6.2429 < 8.1158] w=0.0744 to align # Constraint # added constraint: constraint((T0286)I91.CB, (T0286)Y129.CB) [> 3.6896 = 6.1493 < 7.9941] w=0.0736 to align # Constraint # added constraint: constraint((T0286)L89.CB, (T0286)Y129.CB) [> 2.8294 = 4.7156 < 6.1303] w=0.0736 to align # Constraint # added constraint: constraint((T0286)S54.CB, (T0286)G65.CA) [> 3.1780 = 5.2966 < 6.8856] w=0.0736 to align # Constraint # added constraint: constraint((T0286)T67.CB, (T0286)L110.CB) [> 4.4503 = 7.4171 < 9.6423] w=0.0736 to align # Constraint # added constraint: constraint((T0286)K4.CB, (T0286)L40.CB) [> 3.1287 = 5.2145 < 6.7789] w=0.0708 to align # Constraint # added constraint: constraint((T0286)G20.CA, (T0286)D175.CB) [> 4.0726 = 6.7877 < 8.8239] w=0.0702 to align # Constraint # added constraint: constraint((T0286)Y129.CB, (T0286)S173.CB) [> 4.6227 = 7.7045 < 10.0158] w=0.0702 to align # Constraint # added constraint: constraint((T0286)E17.CB, (T0286)Q48.CB) [> 1.9703 = 3.2838 < 4.2689] w=0.0702 to align # Constraint # added constraint: constraint((T0286)G21.CA, (T0286)L177.CB) [> 4.7859 = 7.9765 < 10.3695] w=0.0702 to align # Constraint # added constraint: constraint((T0286)T16.CB, (T0286)L89.CB) [> 3.5763 = 5.9604 < 7.7486] w=0.0702 to align # Constraint # added constraint: constraint((T0286)P130.CB, (T0286)G176.CA) [> 3.3215 = 5.5359 < 7.1966] w=0.0693 to align # Constraint # added constraint: constraint((T0286)G20.CA, (T0286)W174.CB) [> 3.8276 = 6.3793 < 8.2931] w=0.0688 to align # Constraint # added constraint: constraint((T0286)M24.CB, (T0286)W174.CB) [> 4.1814 = 6.9691 < 9.0598] w=0.0688 to align # Constraint # added constraint: constraint((T0286)L34.CB, (T0286)S180.CB) [> 4.5756 = 7.6259 < 9.9137] w=0.0685 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)W90.CB) [> 4.2953 = 7.1589 < 9.3066] w=0.0671 to align # Constraint # added constraint: constraint((T0286)G18.CA, (T0286)D95.CB) [> 2.6974 = 4.4956 < 5.8443] w=0.0655 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)L89.CB) [> 4.2552 = 7.0920 < 9.2196] w=0.0649 to align # Constraint # added constraint: constraint((T0286)D95.CB, (T0286)Y128.CB) [> 3.9986 = 6.6644 < 8.6637] w=0.0637 to align # Constraint # added constraint: constraint((T0286)W174.CB, (T0286)Y184.CB) [> 3.2580 = 5.4300 < 7.0590] w=0.0637 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)W90.CB) [> 3.9502 = 6.5837 < 8.5588] w=0.0630 to align # Constraint # added constraint: constraint((T0286)E17.CB, (T0286)I75.CB) [> 3.4927 = 5.8212 < 7.5676] w=0.0599 to align # Constraint # added constraint: constraint((T0286)P130.CB, (T0286)A150.CB) [> 4.4221 = 7.3702 < 9.5813] w=0.0599 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)S64.CB) [> 4.4665 = 7.4442 < 9.6774] w=0.0559 to align # Constraint # added constraint: constraint((T0286)Y128.CB, (T0286)F158.CB) [> 3.0903 = 5.1504 < 6.6955] w=0.0553 to align # Constraint # added constraint: constraint((T0286)I172.CB, (T0286)A188.CB) [> 3.3400 = 5.5667 < 7.2367] w=0.0550 to align # Constraint # added constraint: constraint((T0286)S14.CB, (T0286)P69.CB) [> 4.0193 = 6.6989 < 8.7085] w=0.0549 to align # Constraint # added constraint: constraint((T0286)M19.CB, (T0286)G176.CA) [> 4.6592 = 7.7654 < 10.0950] w=0.0548 to align # Constraint # added constraint: constraint((T0286)H63.CB, (T0286)G93.CA) [> 4.3442 = 7.2404 < 9.4125] w=0.0545 to align # Constraint # added constraint: constraint((T0286)T36.CB, (T0286)A72.CB) [> 4.4356 = 7.3926 < 9.6104] w=0.0545 to align # Constraint # added constraint: constraint((T0286)L97.CB, (T0286)I135.CB) [> 4.1799 = 6.9665 < 9.0565] w=0.0544 to align # Constraint # added constraint: constraint((T0286)P56.CB, (T0286)T67.CB) [> 3.5017 = 5.8361 < 7.5870] w=0.0532 to align # Constraint # added constraint: constraint((T0286)S41.CB, (T0286)H60.CB) [> 2.7237 = 4.5396 < 5.9015] w=0.0527 to align # Constraint # added constraint: constraint((T0286)S41.CB, (T0286)E61.CB) [> 4.7334 = 7.8890 < 10.2557] w=0.0527 to align # Constraint # added constraint: constraint((T0286)I42.CB, (T0286)D59.CB) [> 2.8068 = 4.6781 < 6.0815] w=0.0527 to align # Constraint # added constraint: constraint((T0286)D43.CB, (T0286)H60.CB) [> 3.9013 = 6.5022 < 8.4529] w=0.0527 to align # Constraint # added constraint: constraint((T0286)D43.CB, (T0286)E61.CB) [> 2.5016 = 4.1693 < 5.4201] w=0.0527 to align # Constraint # added constraint: constraint((T0286)F44.CB, (T0286)E61.CB) [> 4.4778 = 7.4631 < 9.7020] w=0.0527 to align # Constraint # added constraint: constraint((T0286)S50.CB, (T0286)W66.CB) [> 4.1459 = 6.9098 < 8.9828] w=0.0526 to align # Constraint # added constraint: constraint((T0286)W90.CB, (T0286)F124.CB) [> 3.5670 = 5.9450 < 7.7284] w=0.0525 to align # Constraint # added constraint: constraint((T0286)P52.CB, (T0286)T67.CB) [> 3.7102 = 6.1836 < 8.0387] w=0.0517 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)I196.CB) [> 4.6009 = 7.6682 < 9.9686] w=0.0491 to align # Constraint # added constraint: constraint((T0286)I91.CB, (T0286)I172.CB) [> 4.6449 = 7.7415 < 10.0640] w=0.0491 to align # Constraint # added constraint: constraint((T0286)L55.CB, (T0286)G65.CA) [> 4.1765 = 6.9608 < 9.0490] w=0.0491 to align # Constraint # added constraint: constraint((T0286)S53.CB, (T0286)G65.CA) [> 4.5311 = 7.5518 < 9.8173] w=0.0491 to align # Constraint # added constraint: constraint((T0286)P52.CB, (T0286)L98.CB) [> 3.3835 = 5.6392 < 7.3310] w=0.0491 to align # Constraint # added constraint: constraint((T0286)T16.CB, (T0286)G93.CA) [> 4.2025 = 7.0041 < 9.1054] w=0.0488 to align # Constraint # added constraint: constraint((T0286)G92.CA, (T0286)A126.CB) [> 3.0144 = 5.0240 < 6.5311] w=0.0467 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)F88.CB) [> 4.7018 = 7.8364 < 10.1873] w=0.0449 to align # Constraint # added constraint: constraint((T0286)T122.CB, (T0286)L202.CB) [> 3.4612 = 5.7686 < 7.4992] w=0.0427 to align # Constraint # added constraint: constraint((T0286)S14.CB, (T0286)G93.CA) [> 4.4142 = 7.3571 < 9.5642] w=0.0421 to align # Constraint # added constraint: constraint((T0286)P132.CB, (T0286)F166.CB) [> 4.7106 = 7.8510 < 10.2063] w=0.0421 to align # Constraint # added constraint: constraint((T0286)S14.CB, (T0286)R49.CB) [> 4.7166 = 7.8610 < 10.2193] w=0.0421 to align # Constraint # added constraint: constraint((T0286)E17.CB, (T0286)S50.CB) [> 3.2312 = 5.3854 < 7.0010] w=0.0421 to align # Constraint # added constraint: constraint((T0286)S14.CB, (T0286)S50.CB) [> 3.0661 = 5.1102 < 6.6432] w=0.0421 to align # Constraint # added constraint: constraint((T0286)G22.CA, (T0286)W174.CB) [> 3.8297 = 6.3829 < 8.2977] w=0.0421 to align # Constraint # added constraint: constraint((T0286)W174.CB, (T0286)Y192.CB) [> 3.3147 = 5.5244 < 7.1817] w=0.0412 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)I91.CB) [> 4.2157 = 7.0262 < 9.1341] w=0.0409 to align # Constraint # added constraint: constraint((T0286)K160.CB, (T0286)I172.CB) [> 3.8689 = 6.4482 < 8.3826] w=0.0409 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)P52.CB) [> 4.2466 = 7.0777 < 9.2010] w=0.0402 to align # Constraint # added constraint: constraint((T0286)L97.CB, (T0286)D127.CB) [> 2.6647 = 4.4412 < 5.7736] w=0.0389 to align # Constraint # added constraint: constraint((T0286)W90.CB, (T0286)L123.CB) [> 4.5063 = 7.5105 < 9.7636] w=0.0385 to align # Constraint # added constraint: constraint((T0286)G92.CA, (T0286)V125.CB) [> 3.2554 = 5.4256 < 7.0533] w=0.0385 to align # Constraint # added constraint: constraint((T0286)G93.CA, (T0286)V125.CB) [> 3.4122 = 5.6870 < 7.3932] w=0.0385 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)L89.CB) [> 3.3416 = 5.5693 < 7.2401] w=0.0380 to align # Constraint # added constraint: constraint((T0286)M19.CB, (T0286)D175.CB) [> 4.6405 = 7.7342 < 10.0544] w=0.0281 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)S50.CB) [> 3.8029 = 6.3382 < 8.2397] w=0.0281 to align # Constraint # added constraint: constraint((T0286)P119.CB, (T0286)K155.CB) [> 3.6814 = 6.1356 < 7.9763] w=0.0280 to align # Constraint # added constraint: constraint((T0286)T5.CB, (T0286)G39.CA) [> 4.4862 = 7.4770 < 9.7201] w=0.0280 to align # Constraint # added constraint: constraint((T0286)S3.CB, (T0286)S41.CB) [> 4.2100 = 7.0167 < 9.1217] w=0.0280 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)F124.CB) [> 4.4608 = 7.4346 < 9.6650] w=0.0277 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)D127.CB) [> 3.6742 = 6.1236 < 7.9607] w=0.0277 to align # Constraint # added constraint: constraint((T0286)F166.CB, (T0286)D175.CB) [> 3.0966 = 5.1609 < 6.7092] w=0.0273 to align # Constraint # added constraint: constraint((T0286)Y129.CB, (T0286)D175.CB) [> 2.4647 = 4.1078 < 5.3401] w=0.0272 to align # Constraint # added constraint: constraint((T0286)Y129.CB, (T0286)W174.CB) [> 3.8363 = 6.3938 < 8.3120] w=0.0272 to align # Constraint # added constraint: constraint((T0286)Y128.CB, (T0286)L177.CB) [> 4.2571 = 7.0951 < 9.2236] w=0.0272 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)G93.CA) [> 4.4436 = 7.4060 < 9.6278] w=0.0269 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)V121.CB) [> 4.3269 = 7.2116 < 9.3750] w=0.0269 to align # Constraint # added constraint: constraint((T0286)F88.CB, (T0286)T122.CB) [> 4.0441 = 6.7402 < 8.7623] w=0.0269 to align # Constraint # added constraint: constraint((T0286)L89.CB, (T0286)T122.CB) [> 3.7859 = 6.3098 < 8.2027] w=0.0269 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)W66.CB) [> 3.8229 = 6.3716 < 8.2830] w=0.0266 to align # Constraint # added constraint: constraint((T0286)S50.CB, (T0286)H63.CB) [> 3.7103 = 6.1838 < 8.0389] w=0.0265 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)H60.CB) [> 2.9831 = 4.9718 < 6.4634] w=0.0262 to align # Constraint # added constraint: constraint((T0286)I71.CB, (T0286)L96.CB) [> 3.6421 = 6.0702 < 7.8912] w=0.0253 to align # Constraint # added constraint: constraint((T0286)C15.CB, (T0286)L96.CB) [> 3.4287 = 5.7144 < 7.4288] w=0.0253 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)L96.CB) [> 3.0936 = 5.1560 < 6.7028] w=0.0253 to align # Constraint # added constraint: constraint((T0286)C15.CB, (T0286)G92.CA) [> 4.1421 = 6.9036 < 8.9746] w=0.0245 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)G93.CA) [> 4.3702 = 7.2836 < 9.4687] w=0.0245 to align # Constraint # added constraint: constraint((T0286)D127.CB, (T0286)I172.CB) [> 2.5044 = 4.1740 < 5.4261] w=0.0216 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)E61.CB) [> 4.2647 = 7.1078 < 9.2401] w=0.0140 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)E61.CB) [> 4.1407 = 6.9012 < 8.9716] w=0.0140 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)E61.CB) [> 3.4192 = 5.6987 < 7.4083] w=0.0140 to align # Constraint # added constraint: constraint((T0286)L102.CB, (T0286)G176.CA) [> 4.6976 = 7.8293 < 10.1781] w=0.0140 to align # Constraint # added constraint: constraint((T0286)A2.CB, (T0286)S41.CB) [> 3.5458 = 5.9096 < 7.6825] w=0.0140 to align # Constraint # added constraint: constraint((T0286)M1.CB, (T0286)S41.CB) [> 4.7318 = 7.8863 < 10.2521] w=0.0140 to align # Constraint # added constraint: constraint((T0286)S14.CB, (T0286)V86.CB) [> 4.6910 = 7.8183 < 10.1638] w=0.0140 to align # Constraint # added constraint: constraint((T0286)D43.CB, (T0286)V121.CB) [> 4.3689 = 7.2815 < 9.4660] w=0.0140 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)V121.CB) [> 3.8765 = 6.4609 < 8.3991] w=0.0140 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)T122.CB) [> 3.7015 = 6.1692 < 8.0200] w=0.0140 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)L123.CB) [> 2.7734 = 4.6223 < 6.0089] w=0.0140 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)F124.CB) [> 4.2162 = 7.0270 < 9.1350] w=0.0140 to align # Constraint # added constraint: constraint((T0286)I8.CB, (T0286)V125.CB) [> 3.8545 = 6.4242 < 8.3515] w=0.0140 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)L123.CB) [> 4.2666 = 7.1109 < 9.2442] w=0.0140 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)F124.CB) [> 2.6212 = 4.3687 < 5.6794] w=0.0140 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)V125.CB) [> 4.1706 = 6.9510 < 9.0363] w=0.0140 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)F124.CB) [> 4.5505 = 7.5841 < 9.8594] w=0.0140 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)V125.CB) [> 2.7362 = 4.5604 < 5.9285] w=0.0140 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)D127.CB) [> 3.9682 = 6.6136 < 8.5977] w=0.0140 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)V125.CB) [> 4.1460 = 6.9100 < 8.9830] w=0.0140 to align # Constraint # added constraint: constraint((T0286)V11.CB, (T0286)Y128.CB) [> 2.2033 = 3.6722 < 4.7739] w=0.0140 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)D127.CB) [> 2.6076 = 4.3460 < 5.6498] w=0.0140 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)Y128.CB) [> 2.3921 = 3.9869 < 5.1829] w=0.0140 to align # Constraint # added constraint: constraint((T0286)G12.CA, (T0286)Y129.CB) [> 4.7219 = 7.8699 < 10.2309] w=0.0140 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)V86.CB) [> 4.5194 = 7.5323 < 9.7919] w=0.0140 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)V125.CB) [> 4.7519 = 7.9198 < 10.2958] w=0.0140 to align # Constraint # added constraint: constraint((T0286)D13.CB, (T0286)D127.CB) [> 3.8321 = 6.3869 < 8.3030] w=0.0140 to align # Constraint # added constraint: constraint((T0286)S14.CB, (T0286)I42.CB) [> 3.6052 = 6.0086 < 7.8112] w=0.0140 to align # Constraint # added constraint: constraint((T0286)D95.CB, (T0286)D175.CB) [> 2.6904 = 4.4839 < 5.8291] w=0.0140 to align # Constraint # added constraint: constraint((T0286)L96.CB, (T0286)D175.CB) [> 4.3063 = 7.1772 < 9.3304] w=0.0140 to align # Constraint # added constraint: constraint((T0286)L98.CB, (T0286)D175.CB) [> 3.9256 = 6.5427 < 8.5055] w=0.0140 to align # Constraint # added constraint: constraint((T0286)P10.CB, (T0286)W66.CB) [> 3.9083 = 6.5139 < 8.4680] w=0.0138 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)W66.CB) [> 4.0230 = 6.7050 < 8.7165] w=0.0138 to align # Constraint # added constraint: constraint((T0286)L89.CB, (T0286)G100.CA) [> 4.5723 = 7.6205 < 9.9066] w=0.0135 to align # Constraint # added constraint: constraint((T0286)M9.CB, (T0286)G100.CA) [> 3.6515 = 6.0859 < 7.9116] w=0.0135 to align # Constraint # added constraint: constraint((T0286)C15.CB, (T0286)F88.CB) [> 3.9222 = 6.5371 < 8.4982] w=0.0135 to align # Constraint # added constraint: constraint((T0286)C15.CB, (T0286)L89.CB) [> 4.1240 = 6.8734 < 8.9354] w=0.0135 to align # Constraint # added constraint: constraint((T0286)G21.CA, (T0286)G176.CA) [> 4.4493 = 7.4155 < 9.6401] w=0.0127 to align # Constraint # added constraint: constraint((T0286)I164.CB, (T0286)D175.CB) [> 3.4685 = 5.7808 < 7.5150] w=0.0127 to align # SetCost created cost = # ( 1.0000 * align ) # command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0286/ # command:# reading script from file servers-clean.under # Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0286/decoys/ # ReadConformPDB reading from PDB file chimera-15-10.pdb.gz looking for model 1 # Found a chain break before 184 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file chimera-15-17.pdb.gz looking for model 1 # Found a chain break before 184 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 T0286 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS4 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS5 # ReadConformPDB reading from PDB file servers/3Dpro_TS1.pdb.gz looking for model 1 # Found a chain break before 142 # 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 142 # 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 202 # 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 51 # 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 134 # 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 178 # 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 188 # 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 172 # 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 194 # 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 166 # 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 197 # 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 160 # 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 154 # 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 162 # 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 195 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS4 # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS5.pdb.gz looking for model 1 # Found a chain break before 160 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS5 # ReadConformPDB reading from PDB file servers/CIRCLE_TS1.pdb.gz looking for model 1 # Found a chain break before 191 # 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 T0286 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 204 # 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 T0286 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 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS5 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS1 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS2.pdb.gz looking for model 1 WARNING: atoms too close: (T0286)Q37.C and (T0286)A38.N only 0.000 apart, marking (T0286)A38.N as missing WARNING: atoms too close: (T0286)A38.N and (T0286)A38.CA only 0.000 apart, marking (T0286)A38.CA as missing WARNING: atoms too close: (T0286)Q37.C and (T0286)A38.CA only 0.000 apart, marking (T0286)A38.CA as missing WARNING: atoms too close: (T0286)A38.CA and (T0286)A38.CB only 0.000 apart, marking (T0286)A38.CB as missing WARNING: atoms too close: (T0286)A38.N and (T0286)A38.CB only 0.000 apart, marking (T0286)A38.CB as missing WARNING: atoms too close: (T0286)Q37.C and (T0286)A38.CB only 0.000 apart, marking (T0286)A38.CB as missing WARNING: atoms too close: (T0286)A38.CB and (T0286)A38.O only 0.000 apart, marking (T0286)A38.O as missing WARNING: atoms too close: (T0286)A38.CA and (T0286)A38.O only 0.000 apart, marking (T0286)A38.O as missing WARNING: atoms too close: (T0286)A38.N and (T0286)A38.O only 0.000 apart, marking (T0286)A38.O as missing WARNING: atoms too close: (T0286)Q37.C and (T0286)A38.O only 0.000 apart, marking (T0286)A38.O as missing WARNING: atoms too close: (T0286)A38.O and (T0286)A38.C only 0.000 apart, marking (T0286)A38.C as missing WARNING: atoms too close: (T0286)A38.CB and (T0286)A38.C only 0.000 apart, marking (T0286)A38.C as missing WARNING: atoms too close: (T0286)A38.CA and (T0286)A38.C only 0.000 apart, marking (T0286)A38.C as missing WARNING: atoms too close: (T0286)A38.N and (T0286)A38.C only 0.000 apart, marking (T0286)A38.C as missing WARNING: atoms too close: (T0286)Q37.C and (T0286)A38.C only 0.000 apart, marking (T0286)A38.C as missing WARNING: atoms too close: (T0286)A38.C and (T0286)G39.N only 0.000 apart, marking (T0286)A38.C as missing WARNING: atoms too close: (T0286)A38.O and (T0286)G39.N only 0.000 apart, marking (T0286)A38.O as missing WARNING: atoms too close: (T0286)A38.CB and (T0286)G39.N only 0.000 apart, marking (T0286)A38.CB as missing WARNING: atoms too close: (T0286)A38.CA and (T0286)G39.N only 0.000 apart, marking (T0286)A38.CA as missing WARNING: atoms too close: (T0286)A38.N and (T0286)G39.N only 0.000 apart, marking (T0286)A38.N as missing WARNING: atoms too close: (T0286)Q37.C and (T0286)G39.N only 0.000 apart, marking (T0286)G39.N as missing WARNING: atoms too close: (T0286)G39.N and (T0286)G39.CA only 0.000 apart, marking (T0286)G39.CA as missing WARNING: atoms too close: (T0286)A38.C and (T0286)G39.CA only 0.000 apart, marking (T0286)G39.CA as missing WARNING: atoms too close: (T0286)A38.O and (T0286)G39.CA only 0.000 apart, marking (T0286)G39.CA as missing WARNING: atoms too close: (T0286)A38.CB and (T0286)G39.CA only 0.000 apart, marking (T0286)G39.CA as missing WARNING: atoms too close: (T0286)A38.CA and (T0286)G39.CA only 0.000 apart, marking (T0286)G39.CA as missing WARNING: atoms too close: (T0286)A38.N and (T0286)G39.CA only 0.000 apart, marking (T0286)G39.CA as missing WARNING: atoms too close: (T0286)Q37.C and (T0286)G39.CA only 0.000 apart, marking (T0286)G39.CA as missing WARNING: atoms too close: (T0286)G39.CA and (T0286)G39.O only 0.000 apart, marking (T0286)G39.O as missing WARNING: atoms too close: (T0286)G39.N and (T0286)G39.O only 0.000 apart, marking (T0286)G39.O as missing WARNING: atoms too close: (T0286)A38.C and (T0286)G39.O only 0.000 apart, marking (T0286)G39.O as missing WARNING: atoms too close: (T0286)A38.O and (T0286)G39.O only 0.000 apart, marking (T0286)G39.O as missing WARNING: atoms too close: (T0286)A38.CB and (T0286)G39.O only 0.000 apart, marking (T0286)G39.O as missing WARNING: atoms too close: (T0286)A38.CA and (T0286)G39.O only 0.000 apart, marking (T0286)G39.O as missing WARNING: atoms too close: (T0286)A38.N and (T0286)G39.O only 0.000 apart, marking (T0286)G39.O as missing WARNING: atoms too close: (T0286)Q37.C and (T0286)G39.O only 0.000 apart, marking (T0286)G39.O as missing WARNING: atoms too close: (T0286)G39.O and (T0286)G39.C only 0.000 apart, marking (T0286)G39.C as missing WARNING: atoms too close: (T0286)G39.CA and (T0286)G39.C only 0.000 apart, marking (T0286)G39.C as missing WARNING: atoms too close: (T0286)G39.N and (T0286)G39.C only 0.000 apart, marking (T0286)G39.C as missing WARNING: atoms too close: (T0286)A38.C and (T0286)G39.C only 0.000 apart, marking (T0286)G39.C as missing WARNING: atoms too close: (T0286)A38.O and (T0286)G39.C only 0.000 apart, marking (T0286)G39.C as missing WARNING: atoms too close: (T0286)A38.CB and (T0286)G39.C only 0.000 apart, marking (T0286)G39.C as missing WARNING: atoms too close: (T0286)A38.CA and (T0286)G39.C only 0.000 apart, marking (T0286)G39.C as missing WARNING: atoms too close: (T0286)A38.N and (T0286)G39.C only 0.000 apart, marking (T0286)G39.C as missing WARNING: atoms too close: (T0286)Q37.C and (T0286)G39.C only 0.000 apart, marking (T0286)G39.C as missing # WARNING: incomplete conformation T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation FAMSD_TS1 # ReadConformPDB reading from PDB file servers/FAMSD_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 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 T0286 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 T0286 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 T0286 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 204 # copying to AlignedFragments data structure # naming current conformation FAMS_TS1 # ReadConformPDB reading from PDB file servers/FAMS_TS2.pdb.gz looking for model 1 # Found a chain break before 204 # copying to AlignedFragments data structure # naming current conformation FAMS_TS2 # ReadConformPDB reading from PDB file servers/FAMS_TS3.pdb.gz looking for model 1 # Found a chain break before 204 # copying to AlignedFragments data structure # naming current conformation FAMS_TS3 # ReadConformPDB reading from PDB file servers/FAMS_TS4.pdb.gz looking for model 1 # Found a chain break before 204 # copying to AlignedFragments data structure # naming current conformation FAMS_TS4 # ReadConformPDB reading from PDB file servers/FAMS_TS5.pdb.gz looking for model 1 # Found a chain break before 204 # copying to AlignedFragments data structure # naming current conformation FAMS_TS5 # ReadConformPDB reading from PDB file servers/FOLDpro_TS1.pdb.gz looking for model 1 # Found a chain break before 198 # 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 43 # 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 172 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS3 # ReadConformPDB reading from PDB file servers/FOLDpro_TS4.pdb.gz looking for model 1 # naming current conformation FOLDpro_TS4 # ReadConformPDB reading from PDB file servers/FOLDpro_TS5.pdb.gz looking for model 1 # Found a chain break before 81 # 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 T0286 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 215, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 248, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 261, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 278, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 411, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz # WARNING: incomplete conformation T0286 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 T0286 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 T0286 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 T0286 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 Skipped atom 215, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL1.pdb.gz Skipped atom 248, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL1.pdb.gz Skipped atom 261, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL1.pdb.gz Skipped atom 278, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL1.pdb.gz Skipped atom 411, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL1.pdb.gz # WARNING: incomplete conformation T0286 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 T0286 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 # WARNING: incomplete conformation T0286 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 T0286 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 T0286 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 # naming current conformation FPSOLVER-SERVER_TS1 # ReadConformPDB reading from PDB file servers/FUGMOD_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS1 # ReadConformPDB reading from PDB file servers/FUGMOD_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 Skipped atom 215, because occupancy 1.000 <= existing 1.000 in servers/FUGUE_AL2.pdb.gz Skipped atom 248, because occupancy 1.000 <= existing 1.000 in servers/FUGUE_AL2.pdb.gz Skipped atom 261, because occupancy 1.000 <= existing 1.000 in servers/FUGUE_AL2.pdb.gz Skipped atom 278, because occupancy 1.000 <= existing 1.000 in servers/FUGUE_AL2.pdb.gz Skipped atom 411, because occupancy 1.000 <= existing 1.000 in servers/FUGUE_AL2.pdb.gz # WARNING: incomplete conformation T0286 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 T0286 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 T0286 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 T0286 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 204 # 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 204 # 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 204 # 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 204 # 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 204 # 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 T0286 can't currently be optimized by undertaker # naming current conformation GeneSilicoMetaServer_TS1 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS2.pdb.gz looking for model 1 # Found a chain break before 143 # 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 120 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS3 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation GeneSilicoMetaServer_TS5 # ReadConformPDB reading from PDB file servers/HHpred1_TS1.pdb.gz looking for model 1 # Found a chain break before 171 # 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 167 # 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 153 # 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 T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 T0286 can't currently be optimized by undertaker # naming current conformation LOOPP_TS1 # ReadConformPDB reading from PDB file servers/LOOPP_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 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 T0286 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 T0286 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 T0286 can't currently be optimized by undertaker # naming current conformation LOOPP_TS5 # ReadConformPDB reading from PDB file servers/MIG_FROST_AL1.pdb.gz looking for model 1 Error: Reading chain '' from PDB file servers/MIG_FROST_AL1.pdb.gz failed---no such chain. # naming current conformation MIG_FROST_AL1 # ReadConformPDB reading from PDB file servers/MIG_FROST_FLEX_AL1.pdb.gz looking for model 1 Error: Reading chain '' from PDB file servers/MIG_FROST_FLEX_AL1.pdb.gz failed---no such chain. # naming current conformation MIG_FROST_FLEX_AL1 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS1.pdb.gz looking for model 1 # Found a chain break before 93 # 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 142 # 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 123 # 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 170 # 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 118 # 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 203 # 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 204 # 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 201 # 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 202 # 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 199 # 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 96 # copying to AlignedFragments data structure # naming current conformation NN_PUT_lab_TS1 # ReadConformPDB reading from PDB file servers/POMYSL_TS1.pdb.gz looking for model 1 # Found a chain break before 197 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS1 # ReadConformPDB reading from PDB file servers/POMYSL_TS2.pdb.gz looking for model 1 # Found a chain break before 186 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS2 # ReadConformPDB reading from PDB file servers/POMYSL_TS3.pdb.gz looking for model 1 # Found a chain break before 155 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS3 # ReadConformPDB reading from PDB file servers/POMYSL_TS4.pdb.gz looking for model 1 # Found a chain break before 163 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS4 # ReadConformPDB reading from PDB file servers/POMYSL_TS5.pdb.gz looking for model 1 # Found a chain break before 186 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS5 # 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 173 # 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 156 # 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 150 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS3 # ReadConformPDB reading from PDB file servers/PROTINFO_TS4.pdb.gz looking for model 1 # naming current conformation PROTINFO_TS4 # ReadConformPDB reading from PDB file servers/PROTINFO_TS5.pdb.gz looking for model 1 # Found a chain break before 131 # 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 T0286 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 T0286 can't currently be optimized by undertaker # naming current conformation Pcons6_TS2 # ReadConformPDB reading from PDB file servers/Pcons6_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation Pcons6_TS3 # ReadConformPDB reading from PDB file servers/Pcons6_TS4.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation Pcons6_TS4 # ReadConformPDB reading from PDB file servers/Pcons6_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation Pcons6_TS5 # ReadConformPDB reading from PDB file servers/Phyre-1_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 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 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation Phyre-2_TS1 # ReadConformPDB reading from PDB file servers/Phyre-2_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation Phyre-2_TS2 # ReadConformPDB reading from PDB file servers/Phyre-2_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation Phyre-2_TS3 # ReadConformPDB reading from PDB file servers/Phyre-2_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation Phyre-2_TS4 # ReadConformPDB reading from PDB file servers/Phyre-2_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # 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 163 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS1 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS2.pdb.gz looking for model 1 # Found a chain break before 49 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS2 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS3 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS4 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # 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 118 # 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 153 # 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 142 # 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 16 # 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 96 # 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 118 # 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 135 # 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 132 # 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 117 # 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 173 # 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 191 # 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 191 # 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 148 # 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 143 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS4 # ReadConformPDB reading from PDB file servers/RAPTOR_TS5.pdb.gz looking for model 1 # Found a chain break before 118 # 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 92 # 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 49 # 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 163 # 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 129 # 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 162 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS5 # ReadConformPDB reading from PDB file servers/ROKKY_TS1.pdb.gz looking for model 1 # naming current conformation ROKKY_TS1 # ReadConformPDB reading from PDB file servers/ROKKY_TS2.pdb.gz looking for model 1 # Found a chain break before 118 # copying to AlignedFragments data structure # naming current conformation ROKKY_TS2 # ReadConformPDB reading from PDB file servers/ROKKY_TS3.pdb.gz looking for model 1 # Found a chain break before 13 # copying to AlignedFragments data structure # naming current conformation ROKKY_TS3 # ReadConformPDB reading from PDB file servers/ROKKY_TS4.pdb.gz looking for model 1 # Found a chain break before 142 # copying to AlignedFragments data structure # naming current conformation ROKKY_TS4 # ReadConformPDB reading from PDB file servers/ROKKY_TS5.pdb.gz looking for model 1 # Found a chain break before 160 # copying to AlignedFragments data structure # naming current conformation ROKKY_TS5 # ReadConformPDB reading from PDB file servers/SAM-T02_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 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 T0286 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 # WARNING: incomplete conformation T0286 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 T0286 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 # WARNING: incomplete conformation T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 T0286 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 177 # 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 T0286 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 T0286 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 T0286 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 T0286 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 96 # copying to AlignedFragments data structure # naming current conformation SP3_TS1 # ReadConformPDB reading from PDB file servers/SP3_TS2.pdb.gz looking for model 1 # Found a chain break before 141 # 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 163 # 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 153 # 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 164 # 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 118 # 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 148 # copying to AlignedFragments data structure # naming current conformation SP4_TS2 # ReadConformPDB reading from PDB file servers/SP4_TS3.pdb.gz looking for model 1 # Found a chain break before 125 # 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 128 # 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 176 # 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 120 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS1 # ReadConformPDB reading from PDB file servers/SPARKS2_TS2.pdb.gz looking for model 1 # naming current conformation SPARKS2_TS2 # ReadConformPDB reading from PDB file servers/SPARKS2_TS3.pdb.gz looking for model 1 # Found a chain break before 163 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS3 # ReadConformPDB reading from PDB file servers/SPARKS2_TS4.pdb.gz looking for model 1 # Found a chain break before 163 # 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 103 # 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 T0286 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS1 # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS2 # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS3 # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS4 # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS5 # ReadConformPDB reading from PDB file servers/UNI-EID_expm_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # copying to AlignedFragments data structure # 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 T0286 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL1 # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL2 # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL3 # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL4 # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL5 # ReadConformPDB reading from PDB file servers/Zhang-Server_TS1.pdb.gz looking for model 1 # Found a chain break before 161 # 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 170 # 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 201 # 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 187 # 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 161 # 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 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # 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 T0286 can't currently be optimized by undertaker # naming current conformation beautshotbase_TS1 # ReadConformPDB reading from PDB file servers/forecast-s_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 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 T0286 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 Skipped atom 215, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL3.pdb.gz Skipped atom 248, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL3.pdb.gz Skipped atom 261, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL3.pdb.gz Skipped atom 278, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL3.pdb.gz Skipped atom 423, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL3.pdb.gz # WARNING: incomplete conformation T0286 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 T0286 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 T0286 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 Skipped atom 150, because occupancy 1.000 <= existing 1.000 in servers/gtg_AL1.pdb.gz Skipped atom 152, because occupancy 1.000 <= existing 1.000 in servers/gtg_AL1.pdb.gz Skipped atom 154, because occupancy 1.000 <= existing 1.000 in servers/gtg_AL1.pdb.gz Skipped atom 156, because occupancy 1.000 <= existing 1.000 in servers/gtg_AL1.pdb.gz WARNING: atom 413 has residue number 7 < previous residue 205 in servers/gtg_AL1.pdb.gz # WARNING: incomplete conformation T0286 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: atom 345 has residue number 7 < previous residue 167 in servers/gtg_AL2.pdb.gz # WARNING: incomplete conformation T0286 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 Skipped atom 122, because occupancy 1.000 <= existing 1.000 in servers/gtg_AL3.pdb.gz Skipped atom 124, because occupancy 1.000 <= existing 1.000 in servers/gtg_AL3.pdb.gz Skipped atom 126, because occupancy 1.000 <= existing 1.000 in servers/gtg_AL3.pdb.gz Skipped atom 128, because occupancy 1.000 <= existing 1.000 in servers/gtg_AL3.pdb.gz WARNING: atom 421 has residue number 7 < previous residue 205 in servers/gtg_AL3.pdb.gz # WARNING: incomplete conformation T0286 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: atom 389 has residue number 7 < previous residue 205 in servers/gtg_AL4.pdb.gz # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation gtg_AL4 # ReadConformPDB reading from PDB file servers/gtg_AL5.pdb.gz looking for model 1 WARNING: atom 209 has residue number 7 < previous residue 204 in servers/gtg_AL5.pdb.gz # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation gtg_AL5 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS1.pdb.gz looking for model 1 # Found a chain break before 203 # 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 64 # 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 132 # 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 59 # 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 142 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS5 # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS1.pdb.gz looking for model 1 # Found a chain break before 202 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS1 # ReadConformPDB reading from PDB file servers/karypis.srv_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS1 # ReadConformPDB reading from PDB file servers/karypis.srv_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS2 # ReadConformPDB reading from PDB file servers/karypis.srv_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS3 # ReadConformPDB reading from PDB file servers/karypis.srv_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS4 # ReadConformPDB reading from PDB file servers/karypis.srv_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS5 # ReadConformPDB reading from PDB file servers/keasar-server_TS1.pdb.gz looking for model 1 # Found a chain break before 172 # 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 169 # 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 168 # 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 172 # 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 # Found a chain break before 168 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS5 # ReadConformPDB reading from PDB file servers/mGen-3D_TS1.pdb.gz looking for model 1 WARNING: atom 898 has residue number 1 < previous residue 205 in servers/mGen-3D_TS1.pdb.gz # WARNING: incomplete conformation T0286 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 T0286 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: incomplete conformation T0286 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: incomplete conformation T0286 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 T0286 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: incomplete conformation T0286 can't currently be optimized by undertaker # naming current conformation nFOLD_TS5 # ReadConformPDB reading from PDB file servers/shub_TS1.pdb.gz looking for model 1 # Found a chain break before 204 # copying to AlignedFragments data structure # naming current conformation shub_TS1 # command:Using radius: 8.0000 Using models AND alignments for constraints model score 0.1252 model score 0.1047 model score 0.4728 model score -0.1089 model score 0.4211 model score -0.0718 model score 0.3898 model score 0.3786 model score 0.3465 model score 0.3665 model score 0.1692 model score 0.1691 model score 0.4042 model score 0.1691 model score 0.1408 model score -0.1531 model score 0.5390 model score 0.0545 model score 0.0828 model score -0.2750 model score 0.1429 model score 0.8626 model score 1.2785 model score 1.2510 model score 1.4099 model score 1.2987 model score 1.1048 model score -0.2098 model score 0.1934 model score 0.0065 model score -0.1171 model score 0.0334 model score 0.1991 model score -0.1511 model score -0.1098 model score -0.0512 model score -0.1436 model score -0.0567 model score -0.0234 model score -0.1368 model score -0.1779 model score -0.0772 model score 0.0841 model score 1.2704 model score 1.2814 model score 1.2781 model score 1.2777 model score 1.2776 model score 0.1810 model score 0.1118 model score -0.1424 model score -0.1283 model score -0.0056 model score -0.0955 model score 0.3402 model score 0.1605 model score -0.0963 model score 0.0261 model score -0.1514 model score -0.1296 model score -0.2102 model score 0.2988 model score 0.3652 model score 1.2718 model score 1.2721 model score 1.2718 model score 1.2719 model score 1.2721 model score 1.2721 model score 1.2718 model score 1.2721 model score 1.2753 model score 1.2800 model score 2.3592 model score 0.2583 model score 0.4396 model score 0.4240 model score 0.9902 model score 0.4352 model score 1.2717 model score 1.2721 model score 1.2748 model score 1.2768 model score 1.2747 model score -0.0955 model score 0.3402 model score 0.1605 model score -0.0963 model score 0.0261 model score -0.1659 model score 0.2567 model score 0.1693 model score -0.0524 model score -0.0417 model score -0.0917 model score -0.0524 model score 0.7418 model score 0.3876 model score 1.0081 model score 1.4514 model score 1.0065 model score 0.4462 model score -0.1109 model score 0.4377 model score -0.0794 model score -0.1158 model score 0.0849 model score -0.0945 model score -0.1474 model score -0.1097 model score -0.1910 model score 0.0786 model score 0.1335 model score 0.1548 model score 0.0797 model score 0.1085 model score -0.0553 model score 1.8848 model score 1.9835 model score 1.6221 model score 1.9024 model score 1.8951 model score -0.0929 model score -0.0797 model score -0.0804 model score -0.1050 model score -0.0962 model score 0.1356 model score 0.1735 model score 0.2358 model score 0.2104 model score 0.2276 model score -0.2037 model score 0.3309 model score 0.1770 model score -0.1306 model score -0.0246 model score -0.0619 model score -0.0002 model score -0.0002 model score -0.0002 model score -0.0002 model score -0.0034 model score -0.0853 model score -0.1314 model score -0.1649 model score 0.2155 model score -0.0756 model score -0.0771 model score 0.0424 model score -0.0071 model score 0.1164 model score -0.0553 model score -0.0272 model score 0.0332 model score 0.0579 model score 0.0219 model score 0.1181 model score -0.0694 model score -0.0436 model score -0.0205 model score 0.0047 model score -0.0672 model score -0.1306 model score -0.1314 model score -0.0853 model score 0.1231 model score 0.0815 model score 0.3685 model score 0.3312 model score 0.3642 model score 0.1249 model score 0.1295 model score 1.2717 model score 1.2718 model score 1.2718 model score 1.2718 model score 1.2717 model score 1.2703 model score 1.2701 model score 1.2702 model score 1.2702 model score 1.2699 model score 0.3457 model score -0.2524 model score 0.0506 model score 0.1071 model score -0.0882 model score -0.0553 model score -0.0801 model score 0.3700 model score 0.0424 model score 0.0369 model score -0.1117 model score -0.1067 model score 0.1114 model score -0.0648 model score 0.1101 model score -0.1631 model score -0.1733 model score 0.2955 model score -0.0513 model score 0.0431 model score 1.2717 model score 1.2718 model score 1.2719 model score 1.2720 model score 1.2718 model score -0.1336 model score 1.2717 model score 1.2718 model score 1.2719 model score 1.2720 model score 1.2718 model score -0.2847 model score -0.2026 model score -0.1257 model score -0.1433 model score -0.2226 model score -0.2207 model score -0.2054 model score 1.2702 model score 1.2703 model score 1.2721 model score 1.2701 model score 1.2695 model score 1.2771 model score 1.2771 model score 1.2771 model score 1.2771 model score 1.2771 model score 0.1237 model score -0.1744 model score 0.1474 model score 0.2363 model score -0.1484 model score 1.7927 model score 0.0241 model score 0.0001 model score -0.0174 model score -0.0273 model score 0.0101 model score 0.0052 model score 0.1296 model score 0.1540 model score -0.0016 model score 0.1542 model score -0.1697 model score -0.1737 model score -0.1600 model score -0.1607 model score -0.0709 model score -0.0212 model score -0.1455 USE_META, weight: 0.8605 cost: 0.1252 min: -0.2847 max: 2.3592 USE_META, weight: 0.8675 cost: 0.1047 min: -0.2847 max: 2.3592 USE_META, weight: 0.7421 cost: 0.4728 min: -0.2847 max: 2.3592 USE_META, weight: 0.9402 cost: -0.1089 min: -0.2847 max: 2.3592 USE_META, weight: 0.7597 cost: 0.4211 min: -0.2847 max: 2.3592 USE_META, weight: 0.9275 cost: -0.0718 min: -0.2847 max: 2.3592 USE_META, weight: 0.7704 cost: 0.3898 min: -0.2847 max: 2.3592 USE_META, weight: 0.7742 cost: 0.3786 min: -0.2847 max: 2.3592 USE_META, weight: 0.7851 cost: 0.3465 min: -0.2847 max: 2.3592 USE_META, weight: 0.7783 cost: 0.3665 min: -0.2847 max: 2.3592 USE_META, weight: 0.8455 cost: 0.1692 min: -0.2847 max: 2.3592 USE_META, weight: 0.8455 cost: 0.1691 min: -0.2847 max: 2.3592 USE_META, weight: 0.7655 cost: 0.4042 min: -0.2847 max: 2.3592 USE_META, weight: 0.8455 cost: 0.1691 min: -0.2847 max: 2.3592 USE_META, weight: 0.8552 cost: 0.1408 min: -0.2847 max: 2.3592 USE_META, weight: 0.9552 cost: -0.1531 min: -0.2847 max: 2.3592 USE_META, weight: 0.7196 cost: 0.5390 min: -0.2847 max: 2.3592 USE_META, weight: 0.8845 cost: 0.0545 min: -0.2847 max: 2.3592 USE_META, weight: 0.8749 cost: 0.0828 min: -0.2847 max: 2.3592 USE_META, weight: 0.9967 cost: -0.2750 min: -0.2847 max: 2.3592 USE_META, weight: 0.8544 cost: 0.1429 min: -0.2847 max: 2.3592 USE_META, weight: 0.6095 cost: 0.8626 min: -0.2847 max: 2.3592 USE_META, weight: 0.4679 cost: 1.2785 min: -0.2847 max: 2.3592 USE_META, weight: 0.4772 cost: 1.2510 min: -0.2847 max: 2.3592 USE_META, weight: 0.4231 cost: 1.4099 min: -0.2847 max: 2.3592 USE_META, weight: 0.4610 cost: 1.2987 min: -0.2847 max: 2.3592 USE_META, weight: 0.5270 cost: 1.1048 min: -0.2847 max: 2.3592 USE_META, weight: 0.9745 cost: -0.2098 min: -0.2847 max: 2.3592 USE_META, weight: 0.8373 cost: 0.1934 min: -0.2847 max: 2.3592 USE_META, weight: 0.9009 cost: 0.0065 min: -0.2847 max: 2.3592 USE_META, weight: 0.9430 cost: -0.1171 min: -0.2847 max: 2.3592 USE_META, weight: 0.8917 cost: 0.0334 min: -0.2847 max: 2.3592 USE_META, weight: 0.8353 cost: 0.1991 min: -0.2847 max: 2.3592 USE_META, weight: 0.9545 cost: -0.1511 min: -0.2847 max: 2.3592 USE_META, weight: 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USE_META, weight: 0.9516 cost: -0.1424 min: -0.2847 max: 2.3592 USE_META, weight: 0.9468 cost: -0.1283 min: -0.2847 max: 2.3592 USE_META, weight: 0.9050 cost: -0.0056 min: -0.2847 max: 2.3592 USE_META, weight: 0.9356 cost: -0.0955 min: -0.2847 max: 2.3592 USE_META, weight: 0.7873 cost: 0.3402 min: -0.2847 max: 2.3592 USE_META, weight: 0.8485 cost: 0.1605 min: -0.2847 max: 2.3592 USE_META, weight: 0.9359 cost: -0.0963 min: -0.2847 max: 2.3592 USE_META, weight: 0.8942 cost: 0.0261 min: -0.2847 max: 2.3592 USE_META, weight: 0.9546 cost: -0.1514 min: -0.2847 max: 2.3592 USE_META, weight: 0.9472 cost: -0.1296 min: -0.2847 max: 2.3592 USE_META, weight: 0.9746 cost: -0.2102 min: -0.2847 max: 2.3592 USE_META, weight: 0.8014 cost: 0.2988 min: -0.2847 max: 2.3592 USE_META, weight: 0.7788 cost: 0.3652 min: -0.2847 max: 2.3592 USE_META, weight: 0.4702 cost: 1.2718 min: -0.2847 max: 2.3592 USE_META, weight: 0.4701 cost: 1.2721 min: -0.2847 max: 2.3592 USE_META, weight: 0.4702 cost: 1.2718 min: 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1.2748 min: -0.2847 max: 2.3592 USE_META, weight: 0.4685 cost: 1.2768 min: -0.2847 max: 2.3592 USE_META, weight: 0.4692 cost: 1.2747 min: -0.2847 max: 2.3592 USE_META, weight: 0.9356 cost: -0.0955 min: -0.2847 max: 2.3592 USE_META, weight: 0.7873 cost: 0.3402 min: -0.2847 max: 2.3592 USE_META, weight: 0.8485 cost: 0.1605 min: -0.2847 max: 2.3592 USE_META, weight: 0.9359 cost: -0.0963 min: -0.2847 max: 2.3592 USE_META, weight: 0.8942 cost: 0.0261 min: -0.2847 max: 2.3592 USE_META, weight: 0.9596 cost: -0.1659 min: -0.2847 max: 2.3592 USE_META, weight: 0.8157 cost: 0.2567 min: -0.2847 max: 2.3592 USE_META, weight: 0.8455 cost: 0.1693 min: -0.2847 max: 2.3592 USE_META, weight: 0.9209 cost: -0.0524 min: -0.2847 max: 2.3592 USE_META, weight: 0.9173 cost: -0.0417 min: -0.2847 max: 2.3592 USE_META, weight: 0.9343 cost: -0.0917 min: -0.2847 max: 2.3592 USE_META, weight: 0.9209 cost: -0.0524 min: -0.2847 max: 2.3592 USE_META, weight: 0.6506 cost: 0.7418 min: -0.2847 max: 2.3592 USE_META, weight: 0.7711 cost: 0.3876 min: -0.2847 max: 2.3592 USE_META, weight: 0.5599 cost: 1.0081 min: -0.2847 max: 2.3592 USE_META, weight: 0.4090 cost: 1.4514 min: -0.2847 max: 2.3592 USE_META, weight: 0.5605 cost: 1.0065 min: -0.2847 max: 2.3592 USE_META, weight: 0.7512 cost: 0.4462 min: -0.2847 max: 2.3592 USE_META, weight: 0.9409 cost: -0.1109 min: -0.2847 max: 2.3592 USE_META, weight: 0.7541 cost: 0.4377 min: -0.2847 max: 2.3592 USE_META, weight: 0.9301 cost: -0.0794 min: -0.2847 max: 2.3592 USE_META, weight: 0.9425 cost: -0.1158 min: -0.2847 max: 2.3592 USE_META, weight: 0.8742 cost: 0.0849 min: -0.2847 max: 2.3592 USE_META, weight: 0.9353 cost: -0.0945 min: -0.2847 max: 2.3592 USE_META, weight: 0.9533 cost: -0.1474 min: -0.2847 max: 2.3592 USE_META, weight: 0.9404 cost: -0.1097 min: -0.2847 max: 2.3592 USE_META, weight: 0.9681 cost: -0.1910 min: -0.2847 max: 2.3592 USE_META, weight: 0.8763 cost: 0.0786 min: -0.2847 max: 2.3592 USE_META, weight: 0.8576 cost: 0.1335 min: -0.2847 max: 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USE_META, weight: 0.9101 cost: -0.0205 min: -0.2847 max: 2.3592 USE_META, weight: 0.9015 cost: 0.0047 min: -0.2847 max: 2.3592 USE_META, weight: 0.9260 cost: -0.0672 min: -0.2847 max: 2.3592 USE_META, weight: 0.9475 cost: -0.1306 min: -0.2847 max: 2.3592 USE_META, weight: 0.9478 cost: -0.1314 min: -0.2847 max: 2.3592 USE_META, weight: 0.9321 cost: -0.0853 min: -0.2847 max: 2.3592 USE_META, weight: 0.8612 cost: 0.1231 min: -0.2847 max: 2.3592 USE_META, weight: 0.8753 cost: 0.0815 min: -0.2847 max: 2.3592 USE_META, weight: 0.7777 cost: 0.3685 min: -0.2847 max: 2.3592 USE_META, weight: 0.7904 cost: 0.3312 min: -0.2847 max: 2.3592 USE_META, weight: 0.7791 cost: 0.3642 min: -0.2847 max: 2.3592 USE_META, weight: 0.8606 cost: 0.1249 min: -0.2847 max: 2.3592 USE_META, weight: 0.8590 cost: 0.1295 min: -0.2847 max: 2.3592 USE_META, weight: 0.4702 cost: 1.2717 min: -0.2847 max: 2.3592 USE_META, weight: 0.4702 cost: 1.2718 min: -0.2847 max: 2.3592 USE_META, weight: 0.4702 cost: 1.2718 min: -0.2847 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min: -0.2847 max: 2.3592 USE_META, weight: 0.8905 cost: 0.0369 min: -0.2847 max: 2.3592 USE_META, weight: 0.9411 cost: -0.1117 min: -0.2847 max: 2.3592 USE_META, weight: 0.9394 cost: -0.1067 min: -0.2847 max: 2.3592 USE_META, weight: 0.8652 cost: 0.1114 min: -0.2847 max: 2.3592 USE_META, weight: 0.9251 cost: -0.0648 min: -0.2847 max: 2.3592 USE_META, weight: 0.8656 cost: 0.1101 min: -0.2847 max: 2.3592 USE_META, weight: 0.9586 cost: -0.1631 min: -0.2847 max: 2.3592 USE_META, weight: 0.9621 cost: -0.1733 min: -0.2847 max: 2.3592 USE_META, weight: 0.8025 cost: 0.2955 min: -0.2847 max: 2.3592 USE_META, weight: 0.9205 cost: -0.0513 min: -0.2847 max: 2.3592 USE_META, weight: 0.8884 cost: 0.0431 min: -0.2847 max: 2.3592 USE_META, weight: 0.4702 cost: 1.2717 min: -0.2847 max: 2.3592 USE_META, weight: 0.4702 cost: 1.2718 min: -0.2847 max: 2.3592 USE_META, weight: 0.4701 cost: 1.2719 min: -0.2847 max: 2.3592 USE_META, weight: 0.4701 cost: 1.2720 min: -0.2847 max: 2.3592 USE_META, weight: 0.4702 cost: 1.2718 min: -0.2847 max: 2.3592 USE_META, weight: 0.9486 cost: -0.1336 min: -0.2847 max: 2.3592 USE_META, weight: 0.4702 cost: 1.2717 min: -0.2847 max: 2.3592 USE_META, weight: 0.4702 cost: 1.2718 min: -0.2847 max: 2.3592 USE_META, weight: 0.4701 cost: 1.2719 min: -0.2847 max: 2.3592 USE_META, weight: 0.4701 cost: 1.2720 min: -0.2847 max: 2.3592 USE_META, weight: 0.4702 cost: 1.2718 min: -0.2847 max: 2.3592 USE_META, weight: 1.0000 cost: -0.2847 min: -0.2847 max: 2.3592 USE_META, weight: 0.9721 cost: -0.2026 min: -0.2847 max: 2.3592 USE_META, weight: 0.9459 cost: -0.1257 min: -0.2847 max: 2.3592 USE_META, weight: 0.9519 cost: -0.1433 min: -0.2847 max: 2.3592 USE_META, weight: 0.9789 cost: -0.2226 min: -0.2847 max: 2.3592 USE_META, weight: 0.9782 cost: -0.2207 min: -0.2847 max: 2.3592 USE_META, weight: 0.9730 cost: -0.2054 min: -0.2847 max: 2.3592 USE_META, weight: 0.4707 cost: 1.2702 min: -0.2847 max: 2.3592 USE_META, weight: 0.4707 cost: 1.2703 min: -0.2847 max: 2.3592 USE_META, weight: 0.4701 cost: 1.2721 min: -0.2847 max: 2.3592 USE_META, weight: 0.4707 cost: 1.2701 min: -0.2847 max: 2.3592 USE_META, weight: 0.4709 cost: 1.2695 min: -0.2847 max: 2.3592 USE_META, weight: 0.4684 cost: 1.2771 min: -0.2847 max: 2.3592 USE_META, weight: 0.4684 cost: 1.2771 min: -0.2847 max: 2.3592 USE_META, weight: 0.4684 cost: 1.2771 min: -0.2847 max: 2.3592 USE_META, weight: 0.4684 cost: 1.2771 min: -0.2847 max: 2.3592 USE_META, weight: 0.4684 cost: 1.2771 min: -0.2847 max: 2.3592 USE_META, weight: 0.8610 cost: 0.1237 min: -0.2847 max: 2.3592 USE_META, weight: 0.9625 cost: -0.1744 min: -0.2847 max: 2.3592 USE_META, weight: 0.8529 cost: 0.1474 min: -0.2847 max: 2.3592 USE_META, weight: 0.8227 cost: 0.2363 min: -0.2847 max: 2.3592 USE_META, weight: 0.9536 cost: -0.1484 min: -0.2847 max: 2.3592 USE_META, weight: 0.2928 cost: 1.7927 min: -0.2847 max: 2.3592 USE_META, weight: 0.8949 cost: 0.0241 min: -0.2847 max: 2.3592 USE_META, weight: 0.9030 cost: 0.0001 min: -0.2847 max: 2.3592 USE_META, weight: 0.9090 cost: -0.0174 min: -0.2847 max: 2.3592 USE_META, weight: 0.9124 cost: -0.0273 min: -0.2847 max: 2.3592 USE_META, weight: 0.8997 cost: 0.0101 min: -0.2847 max: 2.3592 USE_META, weight: 0.9013 cost: 0.0052 min: -0.2847 max: 2.3592 USE_META, weight: 0.8590 cost: 0.1296 min: -0.2847 max: 2.3592 USE_META, weight: 0.8507 cost: 0.1540 min: -0.2847 max: 2.3592 USE_META, weight: 0.9036 cost: -0.0016 min: -0.2847 max: 2.3592 USE_META, weight: 0.8506 cost: 0.1542 min: -0.2847 max: 2.3592 USE_META, weight: 0.9609 cost: -0.1697 min: -0.2847 max: 2.3592 USE_META, weight: 0.9622 cost: -0.1737 min: -0.2847 max: 2.3592 USE_META, weight: 0.9576 cost: -0.1600 min: -0.2847 max: 2.3592 USE_META, weight: 0.9578 cost: -0.1607 min: -0.2847 max: 2.3592 USE_META, weight: 0.9272 cost: -0.0709 min: -0.2847 max: 2.3592 USE_META, weight: 0.9103 cost: -0.0212 min: -0.2847 max: 2.3592 USE_META, weight: 0.9526 cost: -0.1455 min: -0.2847 max: 2.3592 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9029 eval: 3.5726 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9029 eval: 3.5726 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9029 eval: 3.5726 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9679 eval: 1.1819 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9679 eval: 1.1819 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9679 eval: 1.1819 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9735 eval: 0.9737 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9735 eval: 0.9737 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9735 eval: 0.9737 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9726 eval: 1.0088 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9726 eval: 1.0088 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9726 eval: 1.0088 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.7690 eval: 8.4941 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.7690 eval: 8.4941 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.7690 eval: 8.4941 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.8792 eval: 4.4420 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.8792 eval: 4.4420 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.8792 eval: 4.4420 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9797 eval: 0.7483 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9797 eval: 0.7483 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9797 eval: 0.7483 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.1952 eval: 29.6000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.1952 eval: 29.6000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.1952 eval: 29.6000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9984 eval: 0.0601 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9984 eval: 0.0601 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9984 eval: 0.0601 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9134 eval: 3.1840 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9134 eval: 3.1840 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9134 eval: 3.1840 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9967 eval: 0.1196 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9967 eval: 0.1196 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9967 eval: 0.1196 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9973 eval: 0.0978 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9973 eval: 0.0978 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9973 eval: 0.0978 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9596 eval: 1.4866 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9596 eval: 1.4866 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9596 eval: 1.4866 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9046 eval: 3.5085 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9046 eval: 3.5085 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9046 eval: 3.5085 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9987 eval: 0.0495 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9987 eval: 0.0495 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9987 eval: 0.0495 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.8844 eval: 4.2517 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.8844 eval: 4.2517 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.8844 eval: 4.2517 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9999 eval: 0.0025 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9999 eval: 0.0025 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9999 eval: 0.0025 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.1000 eval: 33.1000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.1000 eval: 33.1000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.1000 eval: 33.1000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9970 eval: 0.1100 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9970 eval: 0.1100 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9970 eval: 0.1100 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9851 eval: 0.5491 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9851 eval: 0.5491 min: 0.0000 max: 33.1000 USE_EVALUE, weight: 0.9851 eval: 0.5491 min: 0.0000 max: 33.1000 Number of contacts in models: 254 Number of contacts in alignments: 84 NUMB_ALIGNS: 84 Adding 8298 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: -350.0348, CN propb: -350.0348 weights: 0.3431 constraints: 628 # command:Found ConstraintSet # PrintContacts align.constraints_meta03 Number of constraints in align3.constraints 628 # command:Found ConstraintSet # PrintContacts align_bonus.constraints_meta03 Number of constraints in align3.constraints.bonus 628 # command:Found ConstraintSet # PrintContacts rejected.constraints_meta03 Number of constraints in rejected3.constraints 7670 # command:Found ConstraintSet # PrintContacts rejected_bonus.constraints_meta03 Number of constraints in rejected3.constraints.bonus 7670 # 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 8298 # command: