# 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/T0376/ # command:# Making conformation for sequence T0376 numbered 1 through 321 Created new target T0376 from T0376.a2m # command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0376/ # command:Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0376//projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0376/manyalignments-good-all.under or /projects/compbio/experiments/protein-predict/casp7/T0376//projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0376/manyalignments-good-all.under.gz for input Trying /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0376/manyalignments-good-all.under # reading script from file /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0376/manyalignments-good-all.under # Reading fragments from alignment file # Attempting to read fragment alignments from file 1mzhA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1mzhA expands to /projects/compbio/data/pdb/1mzh.pdb.gz 1mzhA:# T0376 read from 1mzhA/merged-good-all-a2m # 1mzhA read from 1mzhA/merged-good-all-a2m # adding 1mzhA to template set # found chain 1mzhA in template set T0376 9 :VIPALM 1mzhA 108 :IDNAAL # choosing archetypes in rotamer library T0376 20 :DRTPDFDALVRKGKELIADGMSAVVYCG 1mzhA 114 :KPHLSEKEIEEFVLKSEELGIYAVCVNP T0376 64 :VERLVK 1mzhA 144 :VKLASS T0376 70 :AGIPVIVGTG 1mzhA 152 :KKVKVCCVIG T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRV 1mzhA 167 :NKTSVKVKEAVEAVRDGAQELDIVWNL T0376 109 :SRGSVIAAQKAHFKAILSAAPEIPAVIYNSPY 1mzhA 196 :FKSEKYDFVVEELKEIFRETPSAVHKVIVETP T0376 144 :ATRADLFFALR 1mzhA 228 :YLNEEEIKKAV T0376 155 :AEH 1mzhA 242 :IEA T0376 159 :NLVGFKEFGGP 1mzhA 245 :GADFIKTSTGF T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1mzhA 260 :TTLEEVRLIKSSAKGRIKVKASGG T0376 194 :TAVVHGFVNCGATGAIT 1mzhA 287 :LETAISMIEAGADRIGT T0376 220 :VIHLCKLSQAA 1mzhA 306 :GISIAEEFLKR Number of specific fragments extracted= 12 number of extra gaps= 0 total=12 Number of alignments=1 # 1mzhA read from 1mzhA/merged-good-all-a2m # found chain 1mzhA in template set T0376 9 :VIPALM 1mzhA 108 :IDNAAL T0376 20 :DRTPDFDALVRKGKELIADGMSAVVYCG 1mzhA 114 :KPHLSEKEIEEFVLKSEELGIYAVCVNP T0376 64 :VERLVK 1mzhA 144 :VKLASS T0376 70 :AGIPVIVGTGAV 1mzhA 152 :KKVKVCCVIGFP T0376 82 :NTASAVAHAVHAQKVGAKGLMVIPRV 1mzhA 168 :KTSVKVKEAVEAVRDGAQELDIVWNL T0376 108 :LSRGSVIAAQKAHFKAILSAAPEIPAVIYNSPY 1mzhA 195 :AFKSEKYDFVVEELKEIFRETPSAVHKVIVETP T0376 144 :ATRADLFFALRA 1mzhA 228 :YLNEEEIKKAVE T0376 159 :NLVGFKEFGGPAD 1mzhA 245 :GADFIKTSTGFAP T0376 172 :MRYAAENITSRDDEVTLMIGVD 1mzhA 262 :LEEVRLIKSSAKGRIKVKASGG T0376 194 :TAVVHGFVNCGATGAITGI 1mzhA 287 :LETAISMIEAGADRIGTSS T0376 220 :VIHLCKLSQA 1mzhA 306 :GISIAEEFLK Number of specific fragments extracted= 11 number of extra gaps= 0 total=23 Number of alignments=2 # 1mzhA read from 1mzhA/merged-good-all-a2m # found chain 1mzhA in template set T0376 6 :FSGVIPALM 1mzhA 105 :RKYIDNAAL T0376 20 :DRTPDFDALVRKGKELIADGMSAVVY 1mzhA 114 :KPHLSEKEIEEFVLKSEELGIYAVCV T0376 64 :VERLVK 1mzhA 144 :VKLASS T0376 70 :AGIPVIVGTGA 1mzhA 152 :KKVKVCCVIGF T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPR 1mzhA 167 :NKTSVKVKEAVEAVRDGAQELDIVWN T0376 110 :RG 1mzhA 198 :SE T0376 113 :VIAAQKAHFKAILSAAPEIPAVIYNSPYY 1mzhA 200 :KYDFVVEELKEIFRETPSAVHKVIVETPY T0376 146 :RADLFFALRAE 1mzhA 229 :LNEEEIKKAVE T0376 159 :NLVGFKEFGG 1mzhA 245 :GADFIKTSTG T0376 169 :PADMRYAAENITS 1mzhA 261 :TLEEVRLIKSSAK T0376 184 :DEVTLMIGVD 1mzhA 274 :GRIKVKASGG T0376 194 :TAVVHGFVNCGATGAITGIG 1mzhA 287 :LETAISMIEAGADRIGTSSG T0376 221 :IHLCKLSQAA 1mzhA 307 :ISIAEEFLKR Number of specific fragments extracted= 13 number of extra gaps= 0 total=36 Number of alignments=3 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1w3iA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0376 read from 1w3iA/merged-good-all-a2m # 1w3iA read from 1w3iA/merged-good-all-a2m # found chain 1w3iA in training set Warning: unaligning (T0376)V74 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)I70 Warning: unaligning (T0376)I75 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)I70 Warning: unaligning (T0376)V103 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)Y99 Warning: unaligning (T0376)I104 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)Y99 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE in next template residue (1w3iA)A197 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE at template residue (1w3iA)A197 T0376 9 :VIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVKAGIP 1w3iA 4 :IITPIITPFTKDNRIDKEKLKIHAENLIRKGIDKLFVNGTTGLGPSLSPEEKLENLKAVYDVTNK T0376 76 :VGTGAVNTASAVAHAVHAQKVGAKGLM 1w3iA 71 :FQVGGLNLDDAIRLAKLSKDFDIVGIA T0376 105 :PRVLSR 1w3iA 100 :APYYYP T0376 111 :GS 1w3iA 107 :MS T0376 114 :IAAQKAHFKAILSAAP 1w3iA 109 :EKHLVKYFKTLCEVSP T0376 131 :IPAVIYNSPYY 1w3iA 125 :HPVYLYNYPTA T0376 142 :GFATRADLFFAL 1w3iA 137 :GKDIDAKVAKEI T0376 158 :KNLVGFKEFGG 1w3iA 149 :GCFTGVKDTIE T0376 171 :DMRYAAENITSR 1w3iA 160 :NIIHTLDYKRLN T0376 184 :DEVTLMIG 1w3iA 172 :PNMLVYSG T0376 193 :DTAVVHGFVNCGATGA 1w3iA 180 :SDMLIATVASTGLDGN T0376 211 :GIGNVLPKEVIHLCKLSQA 1w3iA 198 :AGSNYLPEVTVTIKKLAME T0376 233 :GD 1w3iA 217 :RK T0376 235 :ADARARALELEQALAVLSSFD 1w3iA 220 :DEALKLQFLHDEVIEASRIFG T0376 260 :LVLYFKYMMVLK 1w3iA 241 :SLSSNYVLTKYF T0376 272 :GDKEYTLHFNETD 1w3iA 254 :GYDLGYPRPPIFP T0376 286 :LTDSQRGYVEAQFKLFNSWYADWSKL 1w3iA 267 :LDDEEERQLIKKVEGIRAKLVELKIL Number of specific fragments extracted= 17 number of extra gaps= 3 total=53 Number of alignments=4 # 1w3iA read from 1w3iA/merged-good-all-a2m # found chain 1w3iA in training set Warning: unaligning (T0376)V74 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)I70 Warning: unaligning (T0376)I75 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)I70 Warning: unaligning (T0376)V103 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)Y99 Warning: unaligning (T0376)I104 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)Y99 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE in next template residue (1w3iA)A197 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE at template residue (1w3iA)A197 T0376 9 :VIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVKAGIP 1w3iA 4 :IITPIITPFTKDNRIDKEKLKIHAENLIRKGIDKLFVNGTTGLGPSLSPEEKLENLKAVYDVTNK T0376 76 :VGTGAVNTASAVAHAVHAQKVGAKGLM 1w3iA 71 :FQVGGLNLDDAIRLAKLSKDFDIVGIA T0376 105 :PRVLSRGSVIAAQKAHFKAILSAA 1w3iA 100 :APYYYPRMSEKHLVKYFKTLCEVS T0376 130 :EIPAVIYNSPYY 1w3iA 124 :PHPVYLYNYPTA T0376 142 :GFATRADLFFAL 1w3iA 137 :GKDIDAKVAKEI T0376 158 :KNLVGFKEFGG 1w3iA 149 :GCFTGVKDTIE T0376 171 :DMRYAAENITSRD 1w3iA 160 :NIIHTLDYKRLNP T0376 185 :EVTLMIG 1w3iA 173 :NMLVYSG T0376 193 :DTAVVHGFVNCGATGA 1w3iA 180 :SDMLIATVASTGLDGN T0376 211 :GIGNVLPKEVIHLCKLSQA 1w3iA 198 :AGSNYLPEVTVTIKKLAME T0376 233 :GDAD 1w3iA 217 :RKID T0376 238 :RARAL 1w3iA 221 :EALKL T0376 244 :LEQALAVLSSFDEGPD 1w3iA 226 :QFLHDEVIEASRIFGS T0376 261 :VLYFKYMMVLK 1w3iA 242 :LSSNYVLTKYF T0376 272 :GDKEYTLHFNET 1w3iA 254 :GYDLGYPRPPIF T0376 285 :ALTDSQRGYVEAQFKLFNSWYADWSKL 1w3iA 266 :PLDDEEERQLIKKVEGIRAKLVELKIL Number of specific fragments extracted= 16 number of extra gaps= 3 total=69 Number of alignments=5 # 1w3iA read from 1w3iA/merged-good-all-a2m # found chain 1w3iA in training set Warning: unaligning (T0376)V74 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)I70 Warning: unaligning (T0376)I75 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)I70 Warning: unaligning (T0376)V103 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)Y99 Warning: unaligning (T0376)I104 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)Y99 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE in next template residue (1w3iA)A197 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE at template residue (1w3iA)A197 T0376 9 :VIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVKAGIP 1w3iA 4 :IITPIITPFTKDNRIDKEKLKIHAENLIRKGIDKLFVNGTTGLGPSLSPEEKLENLKAVYDVTNK T0376 76 :VGTGAVNTASAVAHAVHAQKVGAKGLM 1w3iA 71 :FQVGGLNLDDAIRLAKLSKDFDIVGIA T0376 105 :PRVLSRGSVIAAQKAHFKAILSA 1w3iA 100 :APYYYPRMSEKHLVKYFKTLCEV T0376 129 :PEIPAVIYNSPYYGFATRADLFFALR 1w3iA 123 :SPHPVYLYNYPTATGKDIDAKVAKEI T0376 158 :KNLVGFKEFGGPADMRYAAENIT 1w3iA 149 :GCFTGVKDTIENIIHTLDYKRLN T0376 185 :EVTLMIGVDTAVVHGFVNCGATGA 1w3iA 172 :PNMLVYSGSDMLIATVASTGLDGN T0376 211 :GIGNVLPKEVIHLCKLSQAAAKGDADARARALELEQALAVLSSFDEGPDLVLYFKYMM 1w3iA 198 :AGSNYLPEVTVTIKKLAMERKIDEALKLQFLHDEVIEASRIFGSLSSNYVLTKYFQGY T0376 269 :VLKGDKEYTLHFNE 1w3iA 257 :LGYPRPPIFPLDDE T0376 286 :LTDSQRGYVEAQFKLFNSW 1w3iA 271 :EERQLIKKVEGIRAKLVEL Number of specific fragments extracted= 9 number of extra gaps= 3 total=78 Number of alignments=6 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1w8sA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1w8sA expands to /projects/compbio/data/pdb/1w8s.pdb.gz 1w8sA:Skipped atom 267, because occupancy 0.35 <= existing 0.650 in 1w8sA Skipped atom 269, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 271, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 273, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 790, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 792, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 1672, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 1674, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 1676, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 1678, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 1680, because occupancy 0.350 <= existing 0.650 in 1w8sA # T0376 read from 1w8sA/merged-good-all-a2m # 1w8sA read from 1w8sA/merged-good-all-a2m # adding 1w8sA to template set # found chain 1w8sA in template set Warning: unaligning (T0376)Q228 because last residue in template chain is (1w8sA)Y252 T0376 9 :VIPALMT 1w8sA 18 :SIILAYD T0376 17 :CRQD 1w8sA 34 :FMDN T0376 24 :DFDALVRKGK 1w8sA 42 :DPEYILRLAR T0376 37 :ADGMSAVVYC 1w8sA 52 :DAGFDGVVFQ T0376 66 :RLVK 1w8sA 64 :IAEK T0376 70 :AGIPVIVGTG 1w8sA 71 :GSVPLILKLN T0376 80 :AVNTASA 1w8sA 95 :NCSVEEA T0376 94 :QKVGAKGLMVIPRVLSR 1w8sA 102 :VSLGASAVGYTIYPGSG T0376 111 :GSVIAAQKAHFKAILSA 1w8sA 121 :WKMFEELARIKRDAVKF T0376 130 :EIPAVIYNSPYY 1w8sA 138 :DLPLVVESFPRG T0376 142 :GFAT 1w8sA 151 :KVVN T0376 147 :ADLFF 1w8sA 158 :PEIVA T0376 152 :ALRAEHK 1w8sA 166 :RIALELG T0376 160 :LVGFK 1w8sA 173 :ADAMK T0376 165 :EFGG 1w8sA 179 :KYTG T0376 171 :DMRYAAENITSR 1w8sA 183 :DPKTFSWAVKVA T0376 184 :DEVTLMIGVD 1w8sA 195 :GKVPVLMSGG T0376 196 :VVHGFVNCGATGAITGIGNV 1w8sA 216 :QVEGVLEAGALGIAVGRNVW T0376 216 :LPKEVIHLCKLS 1w8sA 240 :ALKFARALAELV Number of specific fragments extracted= 19 number of extra gaps= 0 total=97 Number of alignments=7 # 1w8sA read from 1w8sA/merged-good-all-a2m # found chain 1w8sA in template set Warning: unaligning (T0376)Q228 because last residue in template chain is (1w8sA)Y252 T0376 24 :DFDALVRKGK 1w8sA 42 :DPEYILRLAR T0376 37 :ADGMSAVVYC 1w8sA 52 :DAGFDGVVFQ T0376 57 :DE 1w8sA 62 :RG T0376 66 :RLVK 1w8sA 64 :IAEK T0376 70 :AGIPVIVGT 1w8sA 71 :GSVPLILKL T0376 79 :GAVNTAS 1w8sA 94 :ANCSVEE T0376 93 :AQKVGAKGLMVIPRVLSRGS 1w8sA 101 :AVSLGASAVGYTIYPGSGFE T0376 115 :AAQKAHFKAILSAA 1w8sA 121 :WKMFEELARIKRDA T0376 130 :EIPAVIYNSPYY 1w8sA 138 :DLPLVVESFPRG T0376 142 :GFA 1w8sA 151 :KVV T0376 145 :TRADLFF 1w8sA 156 :TAPEIVA T0376 152 :ALRAEHK 1w8sA 166 :RIALELG T0376 159 :NLVGFKEFG 1w8sA 174 :DAMKIKYTG T0376 171 :DMRYAAENITSRDDEVTLMIG 1w8sA 183 :DPKTFSWAVKVAGKVPVLMSG T0376 193 :D 1w8sA 204 :G T0376 194 :TAV 1w8sA 212 :DFL T0376 197 :VHGFVNCGATGAITGIGNV 1w8sA 217 :VEGVLEAGALGIAVGRNVW T0376 216 :LPKEVIHLCKLS 1w8sA 240 :ALKFARALAELV Number of specific fragments extracted= 18 number of extra gaps= 0 total=115 Number of alignments=8 # 1w8sA read from 1w8sA/merged-good-all-a2m # found chain 1w8sA in template set Warning: unaligning (T0376)Q228 because last residue in template chain is (1w8sA)Y252 T0376 24 :DFDALVRKGKEL 1w8sA 42 :DPEYILRLARDA T0376 39 :GMSAVVYC 1w8sA 54 :GFDGVVFQ T0376 61 :MEGVER 1w8sA 62 :RGIAEK T0376 70 :AGIPVIVGT 1w8sA 71 :GSVPLILKL T0376 80 :AVNTA 1w8sA 95 :NCSVE T0376 92 :HAQKVGAKGLMVIPRVLSRG 1w8sA 100 :EAVSLGASAVGYTIYPGSGF T0376 114 :IAAQKAHFKAILSAA 1w8sA 120 :EWKMFEELARIKRDA T0376 129 :PEIPAVIYNSPYYGFAT 1w8sA 137 :FDLPLVVESFPRGGKVV T0376 146 :RADLFFALRAE 1w8sA 156 :TAPEIVAYAAR T0376 159 :NL 1w8sA 172 :GA T0376 161 :VGFKEFGGPADMRYAAENIT 1w8sA 175 :AMKIKYTGDPKTFSWAVKVA T0376 184 :DEVTLMIGVD 1w8sA 195 :GKVPVLMSGG T0376 194 :TAVVHGFVNCGATGAITGIGNV 1w8sA 214 :LKQVEGVLEAGALGIAVGRNVW T0376 216 :LPKEVIHLCKLS 1w8sA 240 :ALKFARALAELV Number of specific fragments extracted= 14 number of extra gaps= 0 total=129 Number of alignments=9 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1gteA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0376 read from 1gteA/merged-good-all-a2m # 1gteA read from 1gteA/merged-good-all-a2m # found chain 1gteA in training set Warning: unaligning (T0376)R110 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1gteA)M680 Warning: unaligning (T0376)G111 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1gteA)M680 Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1gteA)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1gteA)T735 T0376 9 :VIPALMTPCR 1gteA 546 :FGLASAAPTT T0376 24 :DFDA 1gteA 556 :SSSM T0376 32 :GKELIADGMSAVVYC 1gteA 560 :IRRAFEAGWGFALTK T0376 48 :SM 1gteA 575 :TF T0376 50 :GDWP 1gteA 601 :GPGQ T0376 56 :TDEQRMEGVERLVK 1gteA 617 :TAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1gteA 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLS 1gteA 645 :YNKNDWMELSRKAEASGADALELNLSCPH T0376 112 :S 1gteA 681 :G T0376 113 :VIAAQKAHFKAILSAA 1gteA 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1gteA 703 :QIPFFAKLTPNV T0376 145 :TRADLFFALRAE 1gteA 716 :DIVSIARAAKEG T0376 159 :NLVGFK 1gteA 728 :GADGVT T0376 167 :GG 1gteA 736 :NT T0376 171 :DMRYAAENITSR 1gteA 774 :ALRAVTTIARAL T0376 184 :DEVTLMIGVD 1gteA 786 :PGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1gteA 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1gteA 819 :VQN T0376 233 :GD 1gteA 822 :QD T0376 246 :QALAV 1gteA 825 :TVIQD T0376 260 :LVLYFKYMMVLKGDKE 1gteA 830 :YCTGLKALLYLKSIEE T0376 276 :Y 1gteA 848 :G T0376 279 :HFNETDA 1gteA 864 :PVPRIAE T0376 289 :SQRGYVEAQFKLFNSWY 1gteA 881 :PYLEQRKKIIAEEKMRL Number of specific fragments extracted= 24 number of extra gaps= 2 total=153 Number of alignments=10 # 1gteA read from 1gteA/merged-good-all-a2m # found chain 1gteA in training set Warning: unaligning (T0376)R110 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1gteA)M680 Warning: unaligning (T0376)G111 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1gteA)M680 Warning: unaligning (T0376)G162 because of BadResidue code BAD_PEPTIDE in next template residue (1gteA)T735 Warning: unaligning (T0376)F163 because of BadResidue code BAD_PEPTIDE at template residue (1gteA)T735 T0376 6 :FSG 1gteA 542 :FIN T0376 9 :VIPALMTPCR 1gteA 546 :FGLASAAPTT T0376 24 :DFDALVR 1gteA 556 :SSSMIRR T0376 35 :LIADGMSAVVYCGSM 1gteA 563 :AFEAGWGFALTKTFS T0376 50 :GDWPLL 1gteA 601 :GPGQSS T0376 56 :TDEQRMEGVERLVK 1gteA 617 :TAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1gteA 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLS 1gteA 645 :YNKNDWMELSRKAEASGADALELNLSCPH T0376 112 :S 1gteA 681 :G T0376 113 :VIAAQKAHFKAILSAA 1gteA 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1gteA 703 :QIPFFAKLTPNV T0376 142 :G 1gteA 716 :D T0376 147 :ADLFFALRAE 1gteA 718 :VSIARAAKEG T0376 157 :HKNLV 1gteA 729 :ADGVT T0376 172 :MRYAAENITSRD 1gteA 775 :LRAVTTIARALP T0376 185 :EVTLMIGVD 1gteA 787 :GFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1gteA 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1gteA 819 :VQN T0376 233 :GDADA 1gteA 822 :QDFTV T0376 239 :ARAL 1gteA 827 :IQDY T0376 261 :VLYFKYMMVLKGDK 1gteA 831 :CTGLKALLYLKSIE T0376 275 :EY 1gteA 847 :QG T0376 278 :LHFNET 1gteA 874 :KKLPNF T0376 288 :DSQRGYVEAQFKLFNSW 1gteA 880 :GPYLEQRKKIIAEEKMR Number of specific fragments extracted= 24 number of extra gaps= 2 total=177 Number of alignments=11 # 1gteA read from 1gteA/merged-good-all-a2m # found chain 1gteA in training set Warning: unaligning (T0376)R110 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1gteA)M680 Warning: unaligning (T0376)G111 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1gteA)M680 Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1gteA)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1gteA)T735 T0376 30 :RKGKELIADGMS 1gteA 558 :SMIRRAFEAGWG T0376 43 :VVYCGSMG 1gteA 570 :FALTKTFS T0376 52 :WPLLTDEQRMEGVERLVK 1gteA 613 :ISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1gteA 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLS 1gteA 645 :YNKNDWMELSRKAEASGADALELNLSCPH T0376 112 :SVIAAQKAHFKAILSA 1gteA 686 :QDPELVRNICRWVRQA T0376 129 :PEIPAVIYNSPYYG 1gteA 702 :VQIPFFAKLTPNVT T0376 147 :ADLFFALRAEHKNLVGFK 1gteA 716 :DIVSIARAAKEGGADGVT T0376 167 :GG 1gteA 736 :NT T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1gteA 772 :PIALRAVTTIARALPGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1gteA 799 :AESGLQFLHSGASVLQVCSAVQN T0376 248 :LAVLSSFDEGPDLVLYFKYMM 1gteA 824 :FTVIQDYCTGLKALLYLKSIE T0376 269 :VLKGDKE 1gteA 849 :WDGQSPG T0376 276 :YTLHFNETDALTDSQR 1gteA 875 :KLPNFGPYLEQRKKII T0376 298 :FKLFNSWYA 1gteA 891 :AEEKMRLKE Number of specific fragments extracted= 15 number of extra gaps= 2 total=192 Number of alignments=12 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1dhpA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1dhpA expands to /projects/compbio/data/pdb/1dhp.pdb.gz 1dhpA:# T0376 read from 1dhpA/merged-good-all-a2m # 1dhpA read from 1dhpA/merged-good-all-a2m # adding 1dhpA to template set # found chain 1dhpA in template set T0376 1 :M 1dhpA 1 :M T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1dhpA 2 :FTGSIVAIVTPMDEKGNVCRASLKKLIDYHVASGTSAIVSVGTTGESATLNHDEHADVVMMTLD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1dhpA 69 :GRIPVIAGTGANATAEAISLTQRFNDSGIVGCLTVTPYYNRPS T0376 114 :IAAQKAHFKAILSAA 1dhpA 112 :QEGLYQHFKAIAEHT T0376 130 :EIPAVIYNSPYY 1dhpA 127 :DLPQILYNVPSR T0376 142 :GFATRADLFFAL 1dhpA 140 :GCDLLPETVGRL T0376 155 :AEHKNLVGFKEFGG 1dhpA 152 :AKVKNIIGIKEATG T0376 171 :DMRYAAENITSRDDEVTLMIG 1dhpA 166 :NLTRVNQIKELVSDDFVLLSG T0376 193 :DTAVVHGFVNCGATGAITGIGNVLPKEVIHLCKLSQA 1dhpA 187 :DDASALDFMQLGGHGVISVTANVAARDMAQMCKLAAE T0376 233 :GD 1dhpA 224 :GH T0376 235 :ADARARALELEQALAVLS 1dhpA 227 :AEARVINQRLMPLHNKLF T0376 254 :FDEGPDLV 1dhpA 245 :VEPNPIPV T0376 265 :KYMMVLKGDKE 1dhpA 253 :KWACKELGLVA T0376 276 :YTLHFNETD 1dhpA 265 :DTLRLPMTP T0376 286 :LTDSQRGYVEAQFKLFN 1dhpA 274 :ITDSGRETVRAALKHAG Number of specific fragments extracted= 15 number of extra gaps= 0 total=207 Number of alignments=13 # 1dhpA read from 1dhpA/merged-good-all-a2m # found chain 1dhpA in template set Warning: unaligning (T0376)I5 because first residue in template chain is (1dhpA)M1 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1dhpA 2 :FTGSIVAIVTPMDEKGNVCRASLKKLIDYHVASGTSAIVSVGTTGESATLNHDEHADVVMMTLD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGSV 1dhpA 69 :GRIPVIAGTGANATAEAISLTQRFNDSGIVGCLTVTPYYNRPSQ T0376 115 :AAQKAHFKAILSAA 1dhpA 113 :EGLYQHFKAIAEHT T0376 130 :EIPAVIYNSPYY 1dhpA 127 :DLPQILYNVPSR T0376 142 :GFATRADLFFAL 1dhpA 140 :GCDLLPETVGRL T0376 155 :AEHKNLVGFKEFGG 1dhpA 152 :AKVKNIIGIKEATG T0376 171 :DMRYAAENITSRDDEVTLMIG 1dhpA 166 :NLTRVNQIKELVSDDFVLLSG T0376 193 :DTAVVHGFVNCGATGAITGIGNVLPKEVIHLCKLSQA 1dhpA 187 :DDASALDFMQLGGHGVISVTANVAARDMAQMCKLAAE T0376 233 :GDA 1dhpA 224 :GHF T0376 237 :ARARAL 1dhpA 227 :AEARVI T0376 244 :LEQALAVLSSFDEGPD 1dhpA 233 :NQRLMPLHNKLFVEPN T0376 261 :VLYFKYMMVLKGDK 1dhpA 249 :PIPVKWACKELGLV T0376 275 :EYTLHFNET 1dhpA 264 :TDTLRLPMT T0376 285 :ALTDSQRGYVEAQFKLFNS 1dhpA 273 :PITDSGRETVRAALKHAGL Number of specific fragments extracted= 14 number of extra gaps= 0 total=221 Number of alignments=14 # 1dhpA read from 1dhpA/merged-good-all-a2m # found chain 1dhpA in template set Warning: unaligning (T0376)I5 because first residue in template chain is (1dhpA)M1 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1dhpA 2 :FTGSIVAIVTPMDEKGNVCRASLKKLIDYHVASGTSAIVSVGTTGESATLNHDEHADVVMMTLD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1dhpA 69 :GRIPVIAGTGANATAEAISLTQRFNDSGIVGCLTVTPYYNRP T0376 113 :VIAAQKAHFKAILSA 1dhpA 111 :SQEGLYQHFKAIAEH T0376 129 :PEIPAVIYNSPYYGFATRADLFFALRAEHKNLVGFKEFGGPADMRYAAENIT 1dhpA 126 :TDLPQILYNVPSRTGCDLLPETVGRLAKVKNIIGIKEATGNLTRVNQIKELV T0376 184 :DEVTLMIGVDTAVVHGFVNCGATGAITGIGNVLPKEVIHLCKLSQAAAKGDADARARALELEQALAVLSSFDEGPDLVLYFKYMM 1dhpA 178 :SDDFVLLSGDDASALDFMQLGGHGVISVTANVAARDMAQMCKLAAEGHFAEARVINQRLMPLHNKLFVEPNPIPVKWACKELGLV T0376 269 :VLKGDKEYTLHFNETDALTDSQRGYV 1dhpA 264 :TDTLRLPMTPITDSGRETVRAALKHA Number of specific fragments extracted= 6 number of extra gaps= 0 total=227 Number of alignments=15 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1xxxA/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/T0376/1xxxA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0376/1xxxA/merged-good-all-a2m.gz for input Trying 1xxxA/merged-good-all-a2m Error: Couldn't open file 1xxxA/merged-good-all-a2m or 1xxxA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1o5kA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0376 read from 1o5kA/merged-good-all-a2m # 1o5kA read from 1o5kA/merged-good-all-a2m # found chain 1o5kA in training set Warning: unaligning (T0376)F163 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1o5kA)E162 Warning: unaligning (T0376)E165 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1o5kA)E162 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1o5kA)S207 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1o5kA)S207 T0376 5 :IFSGVIPALMTPCR 1o5kA 1 :MFRGVGTAIVTPFK T0376 20 :DRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1o5kA 15 :NGELDLESYERLVRYQLENGVNALIVLGTTGESPTVNEDEREKLVSRTLE T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1o5kA 68 :GKIPVIVGAGTNSTEKTLKLVKQAEKLGANGVLVVTPYYNKPT T0376 114 :IAAQKAHFKAILSAA 1o5kA 111 :QEGLYQHYKYISERT T0376 130 :EIPAVIYNSPYY 1o5kA 126 :DLGIVVYNVPGR T0376 142 :GFATRADLFFALRAEHKNLVG 1o5kA 139 :GVNVLPETAARIAADLKNVVG T0376 166 :FGG 1o5kA 163 :ANP T0376 171 :DMRYAAENITSR 1o5kA 166 :DIDQIDRTVSLT T0376 183 :DDEVTLMIGVDTA 1o5kA 181 :RSDFMVWSGNDDR T0376 197 :VHGFVNCGATGA 1o5kA 194 :TFYLLCAGGDGV T0376 211 :GIGNVLPKEVIHLCKLSQA 1o5kA 208 :VVSNVAPKQMVELCAEYFS T0376 233 :GD 1o5kA 227 :GN T0376 235 :ADARARALELEQALAVLS 1o5kA 230 :EKSREVHRKLRPLMKALF T0376 254 :FDEGPDLV 1o5kA 248 :VETNPIPV T0376 265 :KYMMVLKGDKEYTLHFNETD 1o5kA 256 :KAALNLMGFIENELRLPLVP T0376 286 :LTDSQRGYVEAQFKLFN 1o5kA 276 :ASEKTVELLRNVLKESG Number of specific fragments extracted= 16 number of extra gaps= 1 total=243 Number of alignments=16 # 1o5kA read from 1o5kA/merged-good-all-a2m # found chain 1o5kA in training set Warning: unaligning (T0376)S4 because first residue in template chain is (1o5kA)H0 Warning: unaligning (T0376)F163 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1o5kA)E162 Warning: unaligning (T0376)E165 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1o5kA)E162 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1o5kA)S207 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1o5kA)S207 T0376 5 :IFSGVIPALMTPCR 1o5kA 1 :MFRGVGTAIVTPFK T0376 20 :DRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1o5kA 15 :NGELDLESYERLVRYQLENGVNALIVLGTTGESPTVNEDEREKLVSRTLE T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGSV 1o5kA 68 :GKIPVIVGAGTNSTEKTLKLVKQAEKLGANGVLVVTPYYNKPTQ T0376 115 :AAQKAHFKAILSAA 1o5kA 112 :EGLYQHYKYISERT T0376 130 :EIPAVIYNSPYY 1o5kA 126 :DLGIVVYNVPGR T0376 142 :GFATRADLFFALRAEHKNLVG 1o5kA 139 :GVNVLPETAARIAADLKNVVG T0376 166 :FGG 1o5kA 163 :ANP T0376 171 :DMRYAAENITSR 1o5kA 166 :DIDQIDRTVSLT T0376 183 :DDEVTLMIGVDTAV 1o5kA 181 :RSDFMVWSGNDDRT T0376 198 :HGFVNCGATGA 1o5kA 195 :FYLLCAGGDGV T0376 211 :GIGNVLPKEVIHLCKLSQA 1o5kA 208 :VVSNVAPKQMVELCAEYFS T0376 233 :GDAD 1o5kA 227 :GNLE T0376 238 :RARAL 1o5kA 231 :KSREV T0376 244 :LEQALAVLSSFDEGPD 1o5kA 236 :HRKLRPLMKALFVETN T0376 261 :VLYFKYMMVLKGDKEYTLHFNET 1o5kA 252 :PIPVKAALNLMGFIENELRLPLV T0376 285 :ALTDSQRGYVEAQFKLFN 1o5kA 275 :PASEKTVELLRNVLKESG Number of specific fragments extracted= 16 number of extra gaps= 1 total=259 Number of alignments=17 # 1o5kA read from 1o5kA/merged-good-all-a2m # found chain 1o5kA in training set Warning: unaligning (T0376)S4 because first residue in template chain is (1o5kA)H0 Warning: unaligning (T0376)F163 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1o5kA)E162 Warning: unaligning (T0376)E165 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1o5kA)E162 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1o5kA)S207 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1o5kA)S207 T0376 5 :IFSGVIPALMTPCR 1o5kA 1 :MFRGVGTAIVTPFK T0376 20 :DRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1o5kA 15 :NGELDLESYERLVRYQLENGVNALIVLGTTGESPTVNEDEREKLVSRTLE T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1o5kA 68 :GKIPVIVGAGTNSTEKTLKLVKQAEKLGANGVLVVTPYYNKP T0376 113 :VIAAQKAHFKAILSA 1o5kA 110 :TQEGLYQHYKYISER T0376 129 :PEIPAVIYNSPYYGFATRADLFFALRAE 1o5kA 125 :TDLGIVVYNVPGRTGVNVLPETAARIAA T0376 157 :HKNLVG 1o5kA 154 :LKNVVG T0376 166 :FGGPADMRYAAENITSRDDEVTLMIGVDTAVVHGFVNCGATGA 1o5kA 163 :ANPDIDQIDRTVSLTKQARSDFMVWSGNDDRTFYLLCAGGDGV T0376 211 :GIGNVLPKEVIHLCKLSQAAAKGDADARARALELEQALAVLSSFDEGPDLVLYFKYMMVLKGDKEYTLHFNETDALTDSQRGY 1o5kA 208 :VVSNVAPKQMVELCAEYFSGNLEKSREVHRKLRPLMKALFVETNPIPVKAALNLMGFIENELRLPLVPASEKTVELLRNVLKE Number of specific fragments extracted= 8 number of extra gaps= 1 total=267 Number of alignments=18 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2b4gA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2b4gA expands to /projects/compbio/data/pdb/2b4g.pdb.gz 2b4gA:Skipped atom 1643, because occupancy 0.500 <= existing 0.500 in 2b4gA Skipped atom 1647, because occupancy 0.500 <= existing 0.500 in 2b4gA Skipped atom 1649, because occupancy 0.500 <= existing 0.500 in 2b4gA Skipped atom 1651, because occupancy 0.500 <= existing 0.500 in 2b4gA Skipped atom 1653, because occupancy 0.500 <= existing 0.500 in 2b4gA Skipped atom 1655, because occupancy 0.500 <= existing 0.500 in 2b4gA Skipped atom 1718, because occupancy 0.500 <= existing 0.500 in 2b4gA Skipped atom 1722, because occupancy 0.500 <= existing 0.500 in 2b4gA Skipped atom 1724, because occupancy 0.500 <= existing 0.500 in 2b4gA Skipped atom 1726, because occupancy 0.500 <= existing 0.500 in 2b4gA Skipped atom 1854, because occupancy 0.200 <= existing 0.400 in 2b4gA Skipped atom 1855, because occupancy 0.400 <= existing 0.400 in 2b4gA Skipped atom 1859, because occupancy 0.200 <= existing 0.400 in 2b4gA Skipped atom 1860, because occupancy 0.400 <= existing 0.400 in 2b4gA Skipped atom 1862, because occupancy 0.200 <= existing 0.400 in 2b4gA Skipped atom 1863, because occupancy 0.400 <= existing 0.400 in 2b4gA Skipped atom 1865, because occupancy 0.200 <= existing 0.400 in 2b4gA Skipped atom 1866, because occupancy 0.400 <= existing 0.400 in 2b4gA Skipped atom 1868, because occupancy 0.200 <= existing 0.400 in 2b4gA Skipped atom 1869, because occupancy 0.400 <= existing 0.400 in 2b4gA Skipped atom 1954, because occupancy 0.500 <= existing 0.500 in 2b4gA Skipped atom 1958, because occupancy 0.500 <= existing 0.500 in 2b4gA Skipped atom 1960, because occupancy 0.500 <= existing 0.500 in 2b4gA Skipped atom 1962, because occupancy 0.500 <= existing 0.500 in 2b4gA Skipped atom 1964, because occupancy 0.500 <= existing 0.500 in 2b4gA Skipped atom 1966, because occupancy 0.500 <= existing 0.500 in 2b4gA # T0376 read from 2b4gA/merged-good-all-a2m # 2b4gA read from 2b4gA/merged-good-all-a2m # adding 2b4gA to template set # found chain 2b4gA in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (2b4gA)V194 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (2b4gA)V194 Warning: unaligning (T0376)Q228 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2b4gA)E278 Warning: unaligning (T0376)A229 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2b4gA)E278 T0376 7 :SG 2b4gA 13 :SN T0376 9 :VIPALMTPCR 2b4gA 16 :FMNAAGVLCT T0376 24 :DFD 2b4gA 26 :TEE T0376 31 :KGKELIADGMSAVVYCGSM 2b4gA 29 :DLRRMTESESGSLIGKSCT T0376 52 :WPLLTDE 2b4gA 72 :LPNLGVD T0376 62 :EGVERLVK 2b4gA 79 :FYLSYAAQ T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQ 2b4gA 91 :SRKPLFLSMSGLSVEESVEMVKKLV T0376 95 :KVGAKGLMVIPRVLSRG 2b4gA 120 :EKGTILELNLSCPNVPG T0376 112 :S 2b4gA 138 :P T0376 113 :VIAAQKAHFKAILSAA 2b4gA 143 :DFDTTRTYLQKVSEAY T0376 130 :EIPAVIYNSPYYGFA 2b4gA 159 :GLPFGVKMPPYFDIA T0376 146 :RADLFFALRAEHKNLVGFK 2b4gA 174 :HFDMAAAVLNDFPLVKFIT T0376 167 :GG 2b4gA 195 :NS T0376 170 :AD 2b4gA 206 :AN T0376 172 :MRYAAENITSR 2b4gA 231 :LANVNAFFRRC T0376 184 :DEVTLMIGVD 2b4gA 242 :PDKLVFGCGG T0376 194 :TAVVHGFVNCGATGAITGIG 2b4gA 255 :GEEAFLHILAGASMVQVGTA T0376 226 :LS 2b4gA 275 :LH T0376 233 :GDADARARALELEQALAV 2b4gA 279 :GPIIFARLNKELQEIMTN T0376 255 :DE 2b4gA 297 :KG Number of specific fragments extracted= 20 number of extra gaps= 2 total=287 Number of alignments=19 # 2b4gA read from 2b4gA/merged-good-all-a2m # found chain 2b4gA in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (2b4gA)V194 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (2b4gA)V194 Warning: unaligning (T0376)Q228 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2b4gA)E278 Warning: unaligning (T0376)A229 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2b4gA)E278 T0376 6 :FSG 2b4gA 12 :FSN T0376 9 :VIPALMTPCR 2b4gA 16 :FMNAAGVLCT T0376 24 :DFDALVRKG 2b4gA 26 :TEEDLRRMT T0376 37 :ADGMSAVVYCGSM 2b4gA 35 :ESESGSLIGKSCT T0376 52 :WPLLTDE 2b4gA 72 :LPNLGVD T0376 62 :EGVERLVK 2b4gA 79 :FYLSYAAQ T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQ 2b4gA 91 :SRKPLFLSMSGLSVEESVEMVKKLV T0376 95 :KVGAKGLMVIPRVLSRGS 2b4gA 120 :EKGTILELNLSCPNVPGK T0376 113 :VIAAQKAHFKAILSAA 2b4gA 143 :DFDTTRTYLQKVSEAY T0376 130 :EIPAVIYNSPYY 2b4gA 159 :GLPFGVKMPPYF T0376 146 :R 2b4gA 171 :D T0376 147 :ADLFFALRAEHKNLVGFK 2b4gA 175 :FDMAAAVLNDFPLVKFIT T0376 167 :GG 2b4gA 195 :NS T0376 169 :PAD 2b4gA 205 :PAN T0376 172 :MRYAAENITSRD 2b4gA 231 :LANVNAFFRRCP T0376 185 :EVTLMIGVD 2b4gA 243 :DKLVFGCGG T0376 194 :TAVVHGFVNCGATGAITGIG 2b4gA 255 :GEEAFLHILAGASMVQVGTA T0376 226 :LS 2b4gA 275 :LH T0376 233 :GDA 2b4gA 279 :GPI T0376 237 :A 2b4gA 282 :I T0376 239 :ARAL 2b4gA 283 :FARL T0376 244 :LEQALAVLSSFD 2b4gA 287 :NKELQEIMTNKG Number of specific fragments extracted= 22 number of extra gaps= 2 total=309 Number of alignments=20 # 2b4gA read from 2b4gA/merged-good-all-a2m # found chain 2b4gA in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (2b4gA)V194 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (2b4gA)V194 Warning: unaligning (T0376)L216 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2b4gA)E278 T0376 8 :GVIPALMTPCR 2b4gA 65 :GSINSMGLPNL T0376 24 :DFDA 2b4gA 76 :GVDF T0376 63 :GVERLVK 2b4gA 80 :YLSYAAQ T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQ 2b4gA 91 :SRKPLFLSMSGLSVEESVEMVKKLV T0376 95 :KVGAKGLMVIPRVLSRG 2b4gA 120 :EKGTILELNLSCPNVPG T0376 112 :SVIAAQKAHFKAILSA 2b4gA 142 :YDFDTTRTYLQKVSEA T0376 129 :PEIPAVIYNSPYYG 2b4gA 158 :YGLPFGVKMPPYFD T0376 148 :DLFFALRAE 2b4gA 175 :FDMAAAVLN T0376 157 :HKNLVGFK 2b4gA 185 :FPLVKFIT T0376 167 :GG 2b4gA 195 :NS T0376 170 :ADMRYAAENIT 2b4gA 231 :LANVNAFFRRC T0376 184 :DEVTLMIGVD 2b4gA 242 :PDKLVFGCGG T0376 194 :TAVVHGFVNCGATGAITGIGNV 2b4gA 255 :GEEAFLHILAGASMVQVGTALH T0376 217 :PKEVIHLCK 2b4gA 280 :PIIFARLNK T0376 234 :DADARARAL 2b4gA 289 :ELQEIMTNK Number of specific fragments extracted= 15 number of extra gaps= 2 total=324 Number of alignments=21 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1xkyA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1xkyA expands to /projects/compbio/data/pdb/1xky.pdb.gz 1xkyA:# T0376 read from 1xkyA/merged-good-all-a2m # 1xkyA read from 1xkyA/merged-good-all-a2m # adding 1xkyA to template set # found chain 1xkyA in template set Warning: unaligning (T0376)A144 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xkyA)I145 Warning: unaligning (T0376)T145 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xkyA)I145 Warning: unaligning (T0376)A208 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xkyA)V205 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xkyA)V205 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xkyA)S206 Warning: unaligning (T0376)G257 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xkyA)P251 Warning: unaligning (T0376)P258 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xkyA)P251 T0376 4 :SIFSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1xkyA 2 :IDFGTIATAMVTPFDINGNIDFAKTTKLVNYLIDNGTTAIVVGGTTGESPTLTSEEKVALYRHVVS T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1xkyA 71 :KRVPVIAGTGSNNTHASIDLTKKATEVGVDAVMLVAPYYNKPS T0376 114 :IAAQKAHFKAILSAA 1xkyA 114 :QEGMYQHFKAIAEST T0376 130 :EIPAVIYNSPYY 1xkyA 129 :PLPVMLYNVPGR T0376 142 :GF 1xkyA 142 :IV T0376 146 :RADLFFAL 1xkyA 146 :SVDTVVRL T0376 155 :AEHKNLVGFKEFGG 1xkyA 154 :SEIENIVAIKDAGG T0376 171 :DMRYAAENITSRDDEVTLMIG 1xkyA 168 :DVLTMTEIIEKTADDFAVYSG T0376 193 :DTAVVHGFVNCGATG 1xkyA 189 :DDGLTLPAMAVGAKG T0376 211 :GIGNVLPKEVIHLCKLSQA 1xkyA 207 :VASHVIGNEMQEMIAAFQA T0376 233 :GD 1xkyA 226 :GE T0376 235 :ADARARALELEQALAVLS 1xkyA 229 :KKAQKLHQLLVRVTDSLF T0376 254 :FDE 1xkyA 247 :MAP T0376 259 :DLV 1xkyA 252 :TPV T0376 265 :KYMMVLKGDKEYTLHFNETD 1xkyA 255 :KTALQMVGLDVGSVRLPLLP T0376 286 :LTDSQRGYVEAQFKLF 1xkyA 275 :LTEEERVTLQSVMQSI Number of specific fragments extracted= 16 number of extra gaps= 3 total=340 Number of alignments=22 # 1xkyA read from 1xkyA/merged-good-all-a2m # found chain 1xkyA in template set Warning: unaligning (T0376)A3 because first residue in template chain is (1xkyA)M1 Warning: unaligning (T0376)A144 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xkyA)I145 Warning: unaligning (T0376)T145 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xkyA)I145 Warning: unaligning (T0376)A208 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xkyA)V205 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xkyA)V205 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xkyA)S206 Warning: unaligning (T0376)D259 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xkyA)P251 Warning: unaligning (T0376)V261 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xkyA)P251 T0376 4 :SIFSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1xkyA 2 :IDFGTIATAMVTPFDINGNIDFAKTTKLVNYLIDNGTTAIVVGGTTGESPTLTSEEKVALYRHVVS T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGSV 1xkyA 71 :KRVPVIAGTGSNNTHASIDLTKKATEVGVDAVMLVAPYYNKPSQ T0376 115 :AAQKAHFKAILSAA 1xkyA 115 :EGMYQHFKAIAEST T0376 130 :EIPAVIYNSPYY 1xkyA 129 :PLPVMLYNVPGR T0376 142 :GF 1xkyA 142 :IV T0376 146 :RADLFFAL 1xkyA 146 :SVDTVVRL T0376 155 :AEHKNLVGFKEFGG 1xkyA 154 :SEIENIVAIKDAGG T0376 171 :DMRYAAENITSRDDEVTLMIG 1xkyA 168 :DVLTMTEIIEKTADDFAVYSG T0376 193 :DTAVVHGFVNCGATG 1xkyA 189 :DDGLTLPAMAVGAKG T0376 211 :GIGNVLPKEVIHLCKLSQA 1xkyA 207 :VASHVIGNEMQEMIAAFQA T0376 233 :GDAD 1xkyA 226 :GEFK T0376 238 :RARAL 1xkyA 230 :KAQKL T0376 244 :LEQALAVLSSFDEGP 1xkyA 235 :HQLLVRVTDSLFMAP T0376 262 :LYFKYMMVLKGDKEYTLHFNET 1xkyA 252 :TPVKTALQMVGLDVGSVRLPLL T0376 285 :ALTDSQRGYVEAQFKLF 1xkyA 274 :PLTEEERVTLQSVMQSI Number of specific fragments extracted= 15 number of extra gaps= 3 total=355 Number of alignments=23 # 1xkyA read from 1xkyA/merged-good-all-a2m # found chain 1xkyA in template set Warning: unaligning (T0376)A3 because first residue in template chain is (1xkyA)M1 Warning: unaligning (T0376)T145 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xkyA)I145 Warning: unaligning (T0376)R146 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xkyA)I145 Warning: unaligning (T0376)A208 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xkyA)V205 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xkyA)V205 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xkyA)S206 Warning: unaligning (T0376)F254 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xkyA)P251 Warning: unaligning (T0376)D255 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xkyA)P251 T0376 4 :SIFSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1xkyA 2 :IDFGTIATAMVTPFDINGNIDFAKTTKLVNYLIDNGTTAIVVGGTTGESPTLTSEEKVALYRHVVS T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1xkyA 71 :KRVPVIAGTGSNNTHASIDLTKKATEVGVDAVMLVAPYYNKP T0376 113 :VIAAQKAHFKAILSA 1xkyA 113 :SQEGMYQHFKAIAES T0376 129 :PEIPAVIYNSPYYGFA 1xkyA 128 :TPLPVMLYNVPGRSIV T0376 147 :ADLFFALRAEHKNLVGFKEFGGPADMRYAAENIT 1xkyA 146 :SVDTVVRLSEIENIVAIKDAGGDVLTMTEIIEKT T0376 184 :DEVTLMIGVDTAVVHGFVNCGATG 1xkyA 180 :ADDFAVYSGDDGLTLPAMAVGAKG T0376 211 :GIGNVLPKEVIHLCKLSQAAAKGDADARARALELEQALAVLSS 1xkyA 207 :VASHVIGNEMQEMIAAFQAGEFKKAQKLHQLLVRVTDSLFMAP T0376 256 :EGPDLVLYFKYMMVLKGDKEYTLHFNETDALTDSQRG 1xkyA 252 :TPVKTALQMVGLDVGSVRLPLLPLTEEERVTLQSVMQ Number of specific fragments extracted= 8 number of extra gaps= 3 total=363 Number of alignments=24 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1h7xA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1h7xA expands to /projects/compbio/data/pdb/1h7x.pdb.gz 1h7xA:# T0376 read from 1h7xA/merged-good-all-a2m # 1h7xA read from 1h7xA/merged-good-all-a2m # adding 1h7xA to template set # found chain 1h7xA in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1h7xA)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1h7xA)T735 T0376 6 :FSGVIPALMTPCRQ 1h7xA 542 :FINPFGLASAAPTT T0376 24 :DFDA 1h7xA 556 :SSSM T0376 32 :GKELIADGMSAVVYC 1h7xA 560 :IRRAFEAGWGFALTK T0376 47 :GSM 1h7xA 593 :GTT T0376 50 :GDWPL 1h7xA 601 :GPGQS T0376 56 :TDEQRMEGVERLVK 1h7xA 617 :TAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1h7xA 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1h7xA 645 :YNKNDWMELSRKAEASGADALELNLSAPHGMG T0376 113 :VIAAQKAHFKAILSAA 1h7xA 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1h7xA 703 :QIPFFAKLTPNV T0376 145 :T 1h7xA 716 :D T0376 147 :ADLFFALRAE 1h7xA 718 :VSIARAAKEG T0376 159 :NLVGFK 1h7xA 728 :GADGVT T0376 167 :GG 1h7xA 736 :NT T0376 172 :MRYAAENITSR 1h7xA 775 :LRAVTTIARAL T0376 184 :DEVTLMIGVD 1h7xA 786 :PGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1h7xA 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1h7xA 819 :VQN T0376 233 :GD 1h7xA 822 :QD T0376 246 :QALAV 1h7xA 825 :TVIQD T0376 260 :LVLYFKYMMVLKGDKE 1h7xA 830 :YCTGLKALLYLKSIEE T0376 276 :Y 1h7xA 848 :G T0376 279 :HFNETDA 1h7xA 864 :PVPRIAE T0376 289 :SQRGYVEAQFKLFNSWYA 1h7xA 881 :PYLEQRKKIIAEEKMRLK Number of specific fragments extracted= 24 number of extra gaps= 1 total=387 Number of alignments=25 # 1h7xA read from 1h7xA/merged-good-all-a2m # found chain 1h7xA in template set Warning: unaligning (T0376)G162 because of BadResidue code BAD_PEPTIDE in next template residue (1h7xA)T735 Warning: unaligning (T0376)F163 because of BadResidue code BAD_PEPTIDE at template residue (1h7xA)T735 T0376 6 :FSGVIPALMTPCRQ 1h7xA 542 :FINPFGLASAAPTT T0376 24 :DFDALVR 1h7xA 556 :SSSMIRR T0376 35 :LIADGMSAVVY 1h7xA 563 :AFEAGWGFALT T0376 47 :GSM 1h7xA 593 :GTT T0376 50 :GDWPLL 1h7xA 601 :GPGQSS T0376 56 :TDEQRMEGVERLVK 1h7xA 617 :TAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1h7xA 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1h7xA 645 :YNKNDWMELSRKAEASGADALELNLSAPHGMG T0376 113 :VIAAQKAHFKAILSAA 1h7xA 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1h7xA 703 :QIPFFAKLTPNV T0376 142 :G 1h7xA 716 :D T0376 147 :ADLFFALRA 1h7xA 718 :VSIARAAKE T0376 156 :EHKNLV 1h7xA 728 :GADGVT T0376 172 :MRYAAENITSRD 1h7xA 775 :LRAVTTIARALP T0376 185 :EVTLMIGVD 1h7xA 787 :GFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1h7xA 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1h7xA 819 :VQN T0376 233 :GDADA 1h7xA 822 :QDFTV T0376 239 :ARAL 1h7xA 827 :IQDY T0376 261 :VLYFKYMMVLKGDK 1h7xA 831 :CTGLKALLYLKSIE T0376 275 :EY 1h7xA 847 :QG T0376 278 :LHFNET 1h7xA 874 :KKLPNF T0376 288 :DSQRGYVEAQFKLFNSW 1h7xA 880 :GPYLEQRKKIIAEEKMR Number of specific fragments extracted= 23 number of extra gaps= 1 total=410 Number of alignments=26 # 1h7xA read from 1h7xA/merged-good-all-a2m # found chain 1h7xA in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1h7xA)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1h7xA)T735 T0376 30 :RKGKELIADGMSA 1h7xA 558 :SMIRRAFEAGWGF T0376 44 :VYCGSMG 1h7xA 571 :ALTKTFS T0376 52 :WPLLTDEQRMEGVERLVK 1h7xA 613 :ISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1h7xA 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1h7xA 645 :YNKNDWMELSRKAEASGADALELNLSAPHGM T0376 113 :VIAAQKAHFKAILSA 1h7xA 687 :DPELVRNICRWVRQA T0376 129 :PEIPAVIYNSPYYG 1h7xA 702 :VQIPFFAKLTPNVT T0376 147 :ADLFFALRAEHKNLVGFK 1h7xA 716 :DIVSIARAAKEGGADGVT T0376 167 :GG 1h7xA 736 :NT T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1h7xA 772 :PIALRAVTTIARALPGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1h7xA 799 :AESGLQFLHSGASVLQVCSAVQN T0376 248 :LAVLSSFDEGPDLVLYFKYMM 1h7xA 824 :FTVIQDYCTGLKALLYLKSIE T0376 269 :VLKGDKEYT 1h7xA 849 :WDGQSPGTE T0376 278 :LHFNETDALTDSQRG 1h7xA 877 :PNFGPYLEQRKKIIA T0376 299 :KLFNSWYA 1h7xA 892 :EEKMRLKE Number of specific fragments extracted= 15 number of extra gaps= 1 total=425 Number of alignments=27 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1h7xC/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1h7xC expands to /projects/compbio/data/pdb/1h7x.pdb.gz 1h7xC:# T0376 read from 1h7xC/merged-good-all-a2m # 1h7xC read from 1h7xC/merged-good-all-a2m # adding 1h7xC to template set # found chain 1h7xC in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1h7xC)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1h7xC)T735 T0376 6 :FSGVIPALMTPCRQ 1h7xC 542 :FINPFGLASAAPTT T0376 24 :DFDA 1h7xC 556 :SSSM T0376 32 :GKELIADGMSAVVYC 1h7xC 560 :IRRAFEAGWGFALTK T0376 47 :GSM 1h7xC 593 :GTT T0376 50 :GDWPL 1h7xC 601 :GPGQS T0376 56 :TDEQRMEGVERLVK 1h7xC 617 :TAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1h7xC 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1h7xC 645 :YNKNDWMELSRKAEASGADALELNLSAPHGMG T0376 113 :VIAAQKAHFKAILSAA 1h7xC 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1h7xC 703 :QIPFFAKLTPNV T0376 142 :G 1h7xC 716 :D T0376 147 :ADLFFALRAE 1h7xC 718 :VSIARAAKEG T0376 159 :NLVGFK 1h7xC 728 :GADGVT T0376 167 :GG 1h7xC 736 :NT T0376 171 :DMRYAAENITSR 1h7xC 774 :ALRAVTTIARAL T0376 184 :DEVTLMIGVD 1h7xC 786 :PGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1h7xC 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1h7xC 819 :VQN T0376 233 :GD 1h7xC 822 :QD T0376 246 :QALAV 1h7xC 825 :TVIQD T0376 260 :LVLYFKYMMVLKGDKE 1h7xC 830 :YCTGLKALLYLKSIEE T0376 276 :Y 1h7xC 848 :G T0376 280 :FNETD 1h7xC 865 :VPRIA T0376 289 :SQRGYVEAQFKLFNSWYADWS 1h7xC 881 :PYLEQRKKIIAEEKMRLKEQN Number of specific fragments extracted= 24 number of extra gaps= 1 total=449 Number of alignments=28 # 1h7xC read from 1h7xC/merged-good-all-a2m # found chain 1h7xC in template set Warning: unaligning (T0376)G162 because of BadResidue code BAD_PEPTIDE in next template residue (1h7xC)T735 Warning: unaligning (T0376)F163 because of BadResidue code BAD_PEPTIDE at template residue (1h7xC)T735 T0376 6 :FSGVIPALMTPCRQ 1h7xC 542 :FINPFGLASAAPTT T0376 24 :DFDALVR 1h7xC 556 :SSSMIRR T0376 35 :LIADGMSAVVY 1h7xC 563 :AFEAGWGFALT T0376 47 :GSM 1h7xC 593 :GTT T0376 50 :GDWPLL 1h7xC 601 :GPGQSS T0376 56 :TDEQRMEGVERLVK 1h7xC 617 :TAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1h7xC 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1h7xC 645 :YNKNDWMELSRKAEASGADALELNLSAPHGMG T0376 113 :VIAAQKAHFKAILSAA 1h7xC 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1h7xC 703 :QIPFFAKLTPNV T0376 142 :G 1h7xC 716 :D T0376 147 :ADLFFALRAE 1h7xC 718 :VSIARAAKEG T0376 157 :HKNLV 1h7xC 729 :ADGVT T0376 172 :MRYAAENITSRD 1h7xC 775 :LRAVTTIARALP T0376 185 :EVTLMIGVD 1h7xC 787 :GFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1h7xC 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1h7xC 819 :VQN T0376 233 :GDADA 1h7xC 822 :QDFTV T0376 239 :ARAL 1h7xC 827 :IQDY T0376 261 :VLYFKYMMVLKGDK 1h7xC 831 :CTGLKALLYLKSIE T0376 275 :EY 1h7xC 847 :QG T0376 278 :LHFNET 1h7xC 874 :KKLPNF T0376 288 :DSQRGYVEAQFKLFNSWYAD 1h7xC 880 :GPYLEQRKKIIAEEKMRLKE Number of specific fragments extracted= 23 number of extra gaps= 1 total=472 Number of alignments=29 # 1h7xC read from 1h7xC/merged-good-all-a2m # found chain 1h7xC in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1h7xC)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1h7xC)T735 T0376 8 :GVIPALMTP 1h7xC 547 :GLASAAPTT T0376 24 :DF 1h7xC 556 :SS T0376 30 :RKGKELIADGMSA 1h7xC 558 :SMIRRAFEAGWGF T0376 44 :VYCGSMG 1h7xC 571 :ALTKTFS T0376 52 :WPLLTDEQRMEGVERLVK 1h7xC 613 :ISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1h7xC 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1h7xC 645 :YNKNDWMELSRKAEASGADALELNLSAPHGM T0376 113 :VIAAQKAHFKAILSA 1h7xC 687 :DPELVRNICRWVRQA T0376 129 :PEIPAVIYNSPYYG 1h7xC 702 :VQIPFFAKLTPNVT T0376 147 :ADLFFALRAEHKNLVGFK 1h7xC 716 :DIVSIARAAKEGGADGVT T0376 167 :GG 1h7xC 736 :NT T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1h7xC 772 :PIALRAVTTIARALPGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIGNV 1h7xC 799 :AESGLQFLHSGASVLQVCSAVQ T0376 229 :AAA 1h7xC 821 :NQD T0376 248 :LAVLSSFDEGPDLVLYFKYMM 1h7xC 824 :FTVIQDYCTGLKALLYLKSIE T0376 269 :VLKGDKEYT 1h7xC 849 :WDGQSPGTE T0376 278 :LHFNETDA 1h7xC 877 :PNFGPYLE T0376 296 :AQFKLFNSWYADWSKLPG 1h7xC 885 :QRKKIIAEEKMRLKEQNA Number of specific fragments extracted= 18 number of extra gaps= 1 total=490 Number of alignments=30 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1yxcA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1yxcA expands to /projects/compbio/data/pdb/1yxc.pdb.gz 1yxcA:# T0376 read from 1yxcA/merged-good-all-a2m # 1yxcA read from 1yxcA/merged-good-all-a2m # adding 1yxcA to template set # found chain 1yxcA in template set Warning: unaligning (T0376)C46 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1yxcA)G43 Warning: unaligning (T0376)G47 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1yxcA)G43 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1yxcA)S204 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1yxcA)S204 T0376 1 :M 1yxcA 1 :M T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVY 1yxcA 2 :FTGSIVAIVTPMDEKGNVCRASLKKLIDYHVASGTSAIVS T0376 48 :SMGDWPLLTDEQRMEGVERLVK 1yxcA 44 :TTGESATLNHDEHADVVMMTLD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1yxcA 69 :GRIPVIAGTGANATAEAISLTQRFNDSGIVGCLTVTPYYNRPS T0376 114 :IAAQKAHFKAILSAA 1yxcA 112 :QEGLYQHFKAIAEHT T0376 130 :EIPAVIYNSPYY 1yxcA 127 :DLPQILYNVPSR T0376 142 :GFATRADLFFAL 1yxcA 140 :GCDLLPETVGRL T0376 155 :AEHKNLVGFKEFGG 1yxcA 152 :AKVKNIIGIKEATG T0376 171 :DMRYAAENITSRDDEVTLMIG 1yxcA 166 :NLTRVNQIKELVSDDFVLLSG T0376 193 :DTAVVHGFVNCGATGA 1yxcA 187 :DDASALDFMQLGGHGV T0376 211 :GIGNVLPKEVIHLCKLSQA 1yxcA 205 :VTANVAARDMAQMCKLAAE T0376 233 :GD 1yxcA 224 :GH T0376 235 :ADARARALELEQALAVLS 1yxcA 227 :AEARVINQRLMPLHNKLF T0376 254 :FDEGPDLV 1yxcA 245 :VEPNPIPV T0376 265 :KYMMVLKGDKE 1yxcA 253 :KWACKELGLVA T0376 276 :YTLHFNETD 1yxcA 265 :DTLRLPMTP T0376 286 :LTDSQRGYVEAQFKLFN 1yxcA 274 :ITDSGRETVRAALKHAG Number of specific fragments extracted= 17 number of extra gaps= 2 total=507 Number of alignments=31 # 1yxcA read from 1yxcA/merged-good-all-a2m # found chain 1yxcA in template set Warning: unaligning (T0376)I5 because first residue in template chain is (1yxcA)M1 Warning: unaligning (T0376)C46 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1yxcA)G43 Warning: unaligning (T0376)G47 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1yxcA)G43 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1yxcA)S204 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1yxcA)S204 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVY 1yxcA 2 :FTGSIVAIVTPMDEKGNVCRASLKKLIDYHVASGTSAIVS T0376 48 :SMGDWPLLTDEQRMEGVERLVK 1yxcA 44 :TTGESATLNHDEHADVVMMTLD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGSV 1yxcA 69 :GRIPVIAGTGANATAEAISLTQRFNDSGIVGCLTVTPYYNRPSQ T0376 115 :AAQKAHFKAILSAA 1yxcA 113 :EGLYQHFKAIAEHT T0376 130 :EIPAVIYNSPYY 1yxcA 127 :DLPQILYNVPSR T0376 142 :GFATRADLFFAL 1yxcA 140 :GCDLLPETVGRL T0376 155 :AEHKNLVGFKEFGG 1yxcA 152 :AKVKNIIGIKEATG T0376 171 :DMRYAAENITSRDDEVTLMIG 1yxcA 166 :NLTRVNQIKELVSDDFVLLSG T0376 193 :DTAVVHGFVNCGATGA 1yxcA 187 :DDASALDFMQLGGHGV T0376 211 :GIGNVLPKEVIHLCKLSQA 1yxcA 205 :VTANVAARDMAQMCKLAAE T0376 233 :GDA 1yxcA 224 :GHF T0376 237 :ARARAL 1yxcA 227 :AEARVI T0376 244 :LEQALAVLSSFDEGPD 1yxcA 233 :NQRLMPLHNKLFVEPN T0376 261 :VLYFKYMMVLKGDK 1yxcA 249 :PIPVKWACKELGLV T0376 275 :EYTLHFNET 1yxcA 264 :TDTLRLPMT T0376 285 :ALTDSQRGYVEAQFKLFN 1yxcA 273 :PITDSGRETVRAALKHAG Number of specific fragments extracted= 16 number of extra gaps= 2 total=523 Number of alignments=32 # 1yxcA read from 1yxcA/merged-good-all-a2m # found chain 1yxcA in template set Warning: unaligning (T0376)I5 because first residue in template chain is (1yxcA)M1 Warning: unaligning (T0376)C46 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1yxcA)G43 Warning: unaligning (T0376)G47 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1yxcA)G43 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1yxcA)S204 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1yxcA)S204 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVY 1yxcA 2 :FTGSIVAIVTPMDEKGNVCRASLKKLIDYHVASGTSAIVS T0376 48 :SMGDWPLLTDEQRMEGVERLVK 1yxcA 44 :TTGESATLNHDEHADVVMMTLD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1yxcA 69 :GRIPVIAGTGANATAEAISLTQRFNDSGIVGCLTVTPYYNRP T0376 113 :VIAAQKAHFKAILSA 1yxcA 111 :SQEGLYQHFKAIAEH T0376 129 :PEIPAVIYNSPYYGFATRADLFFALRAEHKNLVGFKEFGGPADMRYAAENIT 1yxcA 126 :TDLPQILYNVPSRTGCDLLPETVGRLAKVKNIIGIKEATGNLTRVNQIKELV T0376 184 :DEVTLMIGVDTAVVHGFVNCGATGA 1yxcA 178 :SDDFVLLSGDDASALDFMQLGGHGV T0376 211 :GIGNVLPKEVIHLCKLSQAAAKGDADARARALELEQALAVLSSFDEGPDLVLYFKYMM 1yxcA 205 :VTANVAARDMAQMCKLAAEGHFAEARVINQRLMPLHNKLFVEPNPIPVKWACKELGLV T0376 269 :VLKGDKEYTLHFNETDALTDSQRGY 1yxcA 264 :TDTLRLPMTPITDSGRETVRAALKH Number of specific fragments extracted= 8 number of extra gaps= 2 total=531 Number of alignments=33 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1thfD/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0376 read from 1thfD/merged-good-all-a2m # 1thfD read from 1thfD/merged-good-all-a2m # found chain 1thfD in training set T0376 7 :SGVIPAL 1thfD 4 :KRIIACL T0376 19 :QD 1thfD 14 :DG T0376 21 :RT 1thfD 27 :RD T0376 28 :LVRKGKELIADGMSAVVYCGSMG 1thfD 32 :PVELGKFYSEIGIDELVFLDITA T0376 57 :DEQRMEGVERLVK 1thfD 59 :RKTMLELVEKVAE T0376 71 :GIPVIVGTGAVNTASA 1thfD 74 :DIPFTVGGGIHDFETA T0376 91 :VHAQKVGAKGLMVIPRVLSRGSVIAA 1thfD 90 :SELILRGADKVSINTAAVENPSLITQ T0376 117 :QKAHFKAILSA 1thfD 153 :LRDWVVEVEKR T0376 130 :EIPAVIYNSPYY 1thfD 164 :GAGEILLTSIDR T0376 142 :GFATRADLFFAL 1thfD 179 :KSGYDTEMIRFV T0376 179 :ITSRDDEVTLMIGVD 1thfD 191 :RPLTTLPIIASGGAG T0376 195 :A 1thfD 207 :M T0376 196 :VVHGFVNCGATGAITG 1thfD 209 :HFLEAFLAGADAALAA T0376 225 :KLSQA 1thfD 225 :SVFHF T0376 233 :GD 1thfD 230 :RE T0376 236 :DARARALELEQ 1thfD 233 :DVRELKEYLKK Number of specific fragments extracted= 16 number of extra gaps= 0 total=547 Number of alignments=34 # 1thfD read from 1thfD/merged-good-all-a2m # found chain 1thfD in training set T0376 6 :FS 1thfD 4 :KR T0376 9 :VIPAL 1thfD 6 :IIACL T0376 14 :M 1thfD 12 :V T0376 21 :RT 1thfD 27 :RD T0376 28 :LVRKGKELIADGMSAVVYCGSMGDW 1thfD 32 :PVELGKFYSEIGIDELVFLDITASV T0376 55 :LTDEQRMEGVERLVK 1thfD 57 :EKRKTMLELVEKVAE T0376 71 :GIPVIVGTGAVNTA 1thfD 74 :DIPFTVGGGIHDFE T0376 89 :HAVHAQKVGAKGLMVIPRVLSRGSVIAA 1thfD 88 :TASELILRGADKVSINTAAVENPSLITQ T0376 117 :QKAHFKAILSAAP 1thfD 153 :LRDWVVEVEKRGA T0376 131 :IPAVIYNSPYY 1thfD 166 :GEILLTSIDRD T0376 142 :GFATRADLFFALR 1thfD 179 :KSGYDTEMIRFVR T0376 180 :TSRDDE 1thfD 192 :PLTTLP T0376 187 :TLMIGV 1thfD 198 :IIASGG T0376 194 :TA 1thfD 208 :EH T0376 197 :VHGFVNCGATGAITG 1thfD 210 :FLEAFLAGADAALAA T0376 225 :KLSQA 1thfD 225 :SVFHF T0376 233 :GDAD 1thfD 230 :REID T0376 239 :ARAL 1thfD 234 :VREL T0376 244 :LEQALA 1thfD 238 :KEYLKK Number of specific fragments extracted= 19 number of extra gaps= 0 total=566 Number of alignments=35 # 1thfD read from 1thfD/merged-good-all-a2m # found chain 1thfD in training set T0376 8 :GVIPAL 1thfD 5 :RIIACL T0376 17 :CRQD 1thfD 12 :VKDG T0376 21 :RT 1thfD 27 :RD T0376 28 :LVRKGKELIADGMSAVVYCGSMGDW 1thfD 32 :PVELGKFYSEIGIDELVFLDITASV T0376 55 :LTDEQRMEGVERLVK 1thfD 57 :EKRKTMLELVEKVAE T0376 70 :AGIPVIVGTGAVNTAS 1thfD 73 :IDIPFTVGGGIHDFET T0376 90 :AVHAQKVGAKGLM 1thfD 89 :ASELILRGADKVS T0376 103 :VIP 1thfD 126 :VVA T0376 117 :QKAHFKAILSA 1thfD 153 :LRDWVVEVEKR T0376 130 :EIPAVIYNSPYYG 1thfD 164 :GAGEILLTSIDRD T0376 143 :FATRADLFFALR 1thfD 179 :KSGYDTEMIRFV T0376 177 :E 1thfD 191 :R T0376 182 :RDDEVTLMIGVD 1thfD 192 :PLTTLPIIASGG T0376 194 :TAVVHGFVNCGATGAITGIGNV 1thfD 207 :MEHFLEAFLAGADAALAASVFH T0376 220 :VIHLCKLSQAA 1thfD 234 :VRELKEYLKKH Number of specific fragments extracted= 15 number of extra gaps= 0 total=581 Number of alignments=36 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2a6lA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2a6lA expands to /projects/compbio/data/pdb/2a6l.pdb.gz 2a6lA:# T0376 read from 2a6lA/merged-good-all-a2m # 2a6lA read from 2a6lA/merged-good-all-a2m # adding 2a6lA to template set # found chain 2a6lA in template set Warning: unaligning (T0376)I5 because first residue in template chain is (2a6lA)M1 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2a6lA)S204 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2a6lA)S204 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 2a6lA 2 :FTGSIVAIVTPMDEKGNVCRASLKKLIDYHVASGTSAIVSVGTTGESATLNHDEHADVVMMTLD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 2a6lA 69 :GRIPVIAGTGANATAEAISLTQRFNDSGIVGCLTVTPYYNRPS T0376 114 :IAAQKAHFKAILSAA 2a6lA 112 :QEGLYQHFKAIAEHT T0376 130 :EIPAVIYNSPYY 2a6lA 127 :DLPQILYNVPSH T0376 142 :GFATRADLFFAL 2a6lA 140 :GCDLLPETVGRL T0376 155 :AEHKNLVGFKEFGG 2a6lA 152 :AKVKNIIGIKEATG T0376 171 :DMRYAAENITSRDDEVTLMIG 2a6lA 166 :NLTRVNQIKELVSDDFVLLSG T0376 193 :DTAVVHGFVNCGATGA 2a6lA 187 :DDASALDFMQLGGHGV T0376 211 :GIGNVLPKEVIHLCKLSQA 2a6lA 205 :VTANVAARDMAQMCKLAAE T0376 233 :GD 2a6lA 224 :GH T0376 235 :ADARARALELEQALAVLS 2a6lA 227 :AEARVINQRLMPLHNKLF T0376 254 :FDEGPDLV 2a6lA 245 :VEPNPIPV T0376 265 :KYMMVLKGDKE 2a6lA 253 :KWACKELGLVA T0376 276 :YTLHFNETD 2a6lA 265 :DTLRLPMTP T0376 286 :LTDSQRGYVEAQFKLFN 2a6lA 274 :ITDSGRETVRAALKHAG Number of specific fragments extracted= 15 number of extra gaps= 1 total=596 Number of alignments=37 # 2a6lA read from 2a6lA/merged-good-all-a2m # found chain 2a6lA in template set Warning: unaligning (T0376)I5 because first residue in template chain is (2a6lA)M1 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2a6lA)S204 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2a6lA)S204 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 2a6lA 2 :FTGSIVAIVTPMDEKGNVCRASLKKLIDYHVASGTSAIVSVGTTGESATLNHDEHADVVMMTLD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGSV 2a6lA 69 :GRIPVIAGTGANATAEAISLTQRFNDSGIVGCLTVTPYYNRPSQ T0376 115 :AAQKAHFKAILSAA 2a6lA 113 :EGLYQHFKAIAEHT T0376 130 :EIPAVIYNSPYY 2a6lA 127 :DLPQILYNVPSH T0376 142 :GFATRADLFFAL 2a6lA 140 :GCDLLPETVGRL T0376 155 :AEHKNLVGFKEFGG 2a6lA 152 :AKVKNIIGIKEATG T0376 171 :DMRYAAENITSRDDEVTLMIG 2a6lA 166 :NLTRVNQIKELVSDDFVLLSG T0376 193 :DTAVVHGFVNCGATGA 2a6lA 187 :DDASALDFMQLGGHGV T0376 211 :GIGNVLPKEVIHLCKLSQA 2a6lA 205 :VTANVAARDMAQMCKLAAE T0376 233 :GDA 2a6lA 224 :GHF T0376 237 :ARARAL 2a6lA 227 :AEARVI T0376 244 :LEQALAVLSSFDEGPD 2a6lA 233 :NQRLMPLHNKLFVEPN T0376 261 :VLYFKYMMVLKGDK 2a6lA 249 :PIPVKWACKELGLV T0376 275 :EYTLHFNET 2a6lA 264 :TDTLRLPMT T0376 285 :ALTDSQRGYVEAQFKLFN 2a6lA 273 :PITDSGRETVRAALKHAG Number of specific fragments extracted= 15 number of extra gaps= 1 total=611 Number of alignments=38 # 2a6lA read from 2a6lA/merged-good-all-a2m # found chain 2a6lA in template set Warning: unaligning (T0376)I5 because first residue in template chain is (2a6lA)M1 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2a6lA)S204 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2a6lA)S204 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 2a6lA 2 :FTGSIVAIVTPMDEKGNVCRASLKKLIDYHVASGTSAIVSVGTTGESATLNHDEHADVVMMTLD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 2a6lA 69 :GRIPVIAGTGANATAEAISLTQRFNDSGIVGCLTVTPYYNRP T0376 113 :VIAAQKAHFKAILSA 2a6lA 111 :SQEGLYQHFKAIAEH T0376 129 :PEIPAVIYNSPYYGFATRADLFFALRAEHKNLVGFKEFGGPADMRYAAENIT 2a6lA 126 :TDLPQILYNVPSHTGCDLLPETVGRLAKVKNIIGIKEATGNLTRVNQIKELV T0376 184 :DEVTLMIGVDTAVVHGFVNCGATGA 2a6lA 178 :SDDFVLLSGDDASALDFMQLGGHGV T0376 211 :GIGNVLPKEVIHLCKLSQAAAKGDADARARALELEQALAVLSSFDEGPDLVLYFKYMM 2a6lA 205 :VTANVAARDMAQMCKLAAEGHFAEARVINQRLMPLHNKLFVEPNPIPVKWACKELGLV T0376 269 :VLKGDKEYTLHFNETDALTDSQRGY 2a6lA 264 :TDTLRLPMTPITDSGRETVRAALKH Number of specific fragments extracted= 7 number of extra gaps= 1 total=618 Number of alignments=39 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1s2wA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0376 read from 1s2wA/merged-good-all-a2m # 1s2wA read from 1s2wA/merged-good-all-a2m # found chain 1s2wA in training set T0376 9 :VIPALMTPCR 1s2wA 82 :ILLDADTGYG T0376 24 :DFDALVRKGKELIADGMSAVVYCG 1s2wA 92 :NFNNARRLVRKLEDRGVAGACLED T0376 51 :DWPLLTDEQRMEGVERLVK 1s2wA 129 :AQPLADIEEFALKIKACKD T0376 70 :AGIPVIVGTGAV 1s2wA 152 :PDFCIVARVEAF T0376 82 :NTASAVAHAVHAQKVGAKGLMVIP 1s2wA 168 :GLDEALKRAEAYRNAGADAILMHS T0376 109 :SRGS 1s2wA 192 :KKAD T0376 114 :IAAQKAHFKA 1s2wA 196 :PSDIEAFMKA T0376 128 :APE 1s2wA 206 :WNN T0376 131 :IPAVI 1s2wA 210 :GPVVI T0376 138 :SPYYGFATRADLFFAL 1s2wA 215 :VPTKYYKTPTDHFRDM T0376 159 :NLVGFKEFGG 1s2wA 231 :GVSMVIWANH T0376 171 :DMRYAAENITSR 1s2wA 241 :NLRASVSAIQQT Number of specific fragments extracted= 12 number of extra gaps= 0 total=630 Number of alignments=40 # 1s2wA read from 1s2wA/merged-good-all-a2m # found chain 1s2wA in training set T0376 9 :VIPALMTPCR 1s2wA 82 :ILLDADTGYG T0376 24 :DFDALVRKGKELIADGMSAVVYCGSM 1s2wA 92 :NFNNARRLVRKLEDRGVAGACLEDKL T0376 51 :DWPLLTDEQRMEGVERLVK 1s2wA 129 :AQPLADIEEFALKIKACKD T0376 70 :AGIPVIVGTGAV 1s2wA 152 :PDFCIVARVEAF T0376 83 :TASAVAHAVHAQKVGAKGLMVIP 1s2wA 169 :LDEALKRAEAYRNAGADAILMHS T0376 109 :SRGSV 1s2wA 192 :KKADP T0376 115 :AAQKAHFKAI 1s2wA 197 :SDIEAFMKAW T0376 130 :E 1s2wA 207 :N T0376 131 :IPAVI 1s2wA 210 :GPVVI T0376 138 :SPYYGFATRADLFFAL 1s2wA 215 :VPTKYYKTPTDHFRDM T0376 185 :EVTLMIGVDTAV 1s2wA 231 :GVSMVIWANHNL T0376 238 :RARALELEQALAVLSSFDEGPDL 1s2wA 243 :RASVSAIQQTTKQIYDDQSLVNV T0376 282 :ETDALTDSQRGY 1s2wA 266 :EDKIVSVKEIFR Number of specific fragments extracted= 13 number of extra gaps= 0 total=643 Number of alignments=41 # 1s2wA read from 1s2wA/merged-good-all-a2m # found chain 1s2wA in training set Warning: unaligning (T0376)D57 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1s2wA)W64 Warning: unaligning (T0376)L108 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1s2wA)G127 T0376 29 :VRKGKELIADGMSAVVYCG 1s2wA 29 :GLSARIVQEAGFKGIWGSG T0376 58 :EQRMEGVERLVK 1s2wA 65 :TQVVEVLEFMSD T0376 70 :AGIPVIVGT 1s2wA 78 :SDVPILLDA T0376 79 :GAVNTASAVAHAVHAQKVGAKGLMVIPRV 1s2wA 89 :GYGNFNNARRLVRKLEDRGVAGACLEDKL T0376 112 :SVIAAQKAHFKAILSAA 1s2wA 133 :ADIEEFALKIKACKDSQ T0376 129 :PEIPAVIYN 1s2wA 152 :PDFCIVARV T0376 139 :P 1s2wA 161 :E T0376 141 :YGFATRADLFFALRAE 1s2wA 162 :AFIAGWGLDEALKRAE T0376 157 :HKNLVGFKEFG 1s2wA 181 :NAGADAILMHS T0376 168 :GPADMRYAAENIT 1s2wA 194 :ADPSDIEAFMKAW T0376 184 :DEVTLMIGVDTAV 1s2wA 207 :NNQGPVVIVPTKY T0376 197 :VHGFVNCGATGAITGIG 1s2wA 224 :TDHFRDMGVSMVIWANH T0376 234 :DADARARALELEQALAVLSS 1s2wA 241 :NLRASVSAIQQTTKQIYDDQ T0376 270 :LKGDKEYTLHFNETDAL 1s2wA 261 :SLVNVEDKIVSVKEIFR Number of specific fragments extracted= 14 number of extra gaps= 0 total=657 Number of alignments=42 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1rvkA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0376 read from 1rvkA/merged-good-all-a2m # 1rvkA read from 1rvkA/merged-good-all-a2m # found chain 1rvkA in training set Warning: unaligning (T0376)G211 because of BadResidue code BAD_PEPTIDE in next template residue (1rvkA)L332 Warning: unaligning (T0376)I212 because of BadResidue code BAD_PEPTIDE at template residue (1rvkA)L332 T0376 8 :GVIPALMTPCRQDR 1rvkA 133 :AYGSIMCGDELEGG T0376 23 :PDFDALVRKGKELIADGMSAVVYCGSMG 1rvkA 148 :ATPEDYGRFAETLVKRGYKGIKLHTWMP T0376 51 :DWPLLTDEQRMEGVERLVK 1rvkA 177 :VSWAPDVKMDLKACAAVRE T0376 70 :AGIPVIVGTGA 1rvkA 199 :PDIRLMIDAFH T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIP 1rvkA 211 :YSRTDALALGRGLEKLGFDWIEEPM T0376 110 :RGSVIAA 1rvkA 236 :DEQSLSS T0376 121 :FKAILSAA 1rvkA 243 :YKWLSDNL T0376 130 :EIPAVI 1rvkA 251 :DIPVVG T0376 141 :Y 1rvkA 257 :P T0376 142 :GFATRADLFFALRAE 1rvkA 259 :SAAGKHWHRAEWIKA T0376 158 :KNLVGFK 1rvkA 274 :GACDILR T0376 165 :EFGGPADMRYAAENITSR 1rvkA 285 :DVGGITPALKTMHLAEAF T0376 185 :EVTLMIGVDTAVVHGFVNCG 1rvkA 303 :GMECEVHGNTAMNLHVVAAT T0376 205 :ATGAIT 1rvkA 325 :CRWYER T0376 213 :GN 1rvkA 333 :LH Number of specific fragments extracted= 15 number of extra gaps= 1 total=672 Number of alignments=43 # 1rvkA read from 1rvkA/merged-good-all-a2m # found chain 1rvkA in training set Warning: unaligning (T0376)G211 because of BadResidue code BAD_PEPTIDE in next template residue (1rvkA)L332 Warning: unaligning (T0376)I212 because of BadResidue code BAD_PEPTIDE at template residue (1rvkA)L332 T0376 3 :ASIFSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLL 1rvkA 128 :RDKVLAYGSIMCGDELEGGLATPEDYGRFAETLVKRGYKGIKLHTWMPPVSWA T0376 56 :TDEQRMEGVERLVK 1rvkA 182 :DVKMDLKACAAVRE T0376 70 :AGIPVIVGTGA 1rvkA 199 :PDIRLMIDAFH T0376 81 :VNTASAVAHAVHAQKVGAKGLMVI 1rvkA 211 :YSRTDALALGRGLEKLGFDWIEEP T0376 109 :SRGSVIAA 1rvkA 235 :MDEQSLSS T0376 121 :FKAILSAA 1rvkA 243 :YKWLSDNL T0376 130 :EIPAVI 1rvkA 251 :DIPVVG T0376 139 :PY 1rvkA 257 :PE T0376 142 :GFATRADLFFALRAE 1rvkA 259 :SAAGKHWHRAEWIKA T0376 158 :KNLVGFKEFGG 1rvkA 274 :GACDILRTGVN T0376 171 :DM 1rvkA 285 :DV T0376 173 :RYAAENITSRDDEVTL 1rvkA 293 :LKTMHLAEAFGMECEV T0376 190 :IG 1rvkA 309 :HG T0376 193 :DTAVVHGFVNC 1rvkA 311 :NTAMNLHVVAA T0376 204 :GATGAIT 1rvkA 324 :NCRWYER T0376 213 :GN 1rvkA 333 :LH Number of specific fragments extracted= 16 number of extra gaps= 1 total=688 Number of alignments=44 # 1rvkA read from 1rvkA/merged-good-all-a2m # found chain 1rvkA in training set Warning: unaligning (T0376)G211 because of BadResidue code BAD_PEPTIDE in next template residue (1rvkA)L332 Warning: unaligning (T0376)I212 because of BadResidue code BAD_PEPTIDE at template residue (1rvkA)L332 T0376 4 :SIFSGVIPALMTPCRQD 1rvkA 129 :DKVLAYGSIMCGDELEG T0376 23 :PDFDALVRKGKELIADGMSAVVYCGSMGDW 1rvkA 148 :ATPEDYGRFAETLVKRGYKGIKLHTWMPPV T0376 53 :PLLTDEQRMEGVERLVK 1rvkA 179 :WAPDVKMDLKACAAVRE T0376 70 :AGIPVIVGTGA 1rvkA 199 :PDIRLMIDAFH T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPR 1rvkA 211 :YSRTDALALGRGLEKLGFDWIEEPMD T0376 110 :RG 1rvkA 237 :EQ T0376 113 :VIAAQKA 1rvkA 239 :SLSSYKW T0376 124 :ILSA 1rvkA 246 :LSDN T0376 129 :PEIPAV 1rvkA 250 :LDIPVV T0376 140 :YYGFATRADLFFALRAEHKNLVGFKEFG 1rvkA 256 :GPESAAGKHWHRAEWIKAGACDILRTGV T0376 168 :GPADMRYAAENITSRDDEVTLMIGVDTAVVHGFVN 1rvkA 287 :GGITPALKTMHLAEAFGMECEVHGNTAMNLHVVAA T0376 205 :ATGAIT 1rvkA 325 :CRWYER T0376 213 :GN 1rvkA 333 :LH Number of specific fragments extracted= 13 number of extra gaps= 1 total=701 Number of alignments=45 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2a6nA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2a6nA expands to /projects/compbio/data/pdb/2a6n.pdb.gz 2a6nA:# T0376 read from 2a6nA/merged-good-all-a2m # 2a6nA read from 2a6nA/merged-good-all-a2m # adding 2a6nA to template set # found chain 2a6nA in template set Warning: unaligning (T0376)C46 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2a6nA)G43 Warning: unaligning (T0376)G47 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2a6nA)G43 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2a6nA)S204 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2a6nA)S204 T0376 1 :M 2a6nA 1 :M T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVY 2a6nA 2 :FTGSIVAIVTPMDEKGNVCRASLKKLIDYHVASGTSAIVS T0376 48 :SMGDWPLLTDEQRMEGVERLVK 2a6nA 44 :TTGESATLNHDEHADVVMMTLD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 2a6nA 69 :GRIPVIAGTGANATAEAISLTQRFNDSGIVGCLTVTPYYNRPS T0376 114 :IAAQKAHFKAILSAA 2a6nA 112 :QEGLYQHFKAIAEHT T0376 130 :EIPAVIYNSPYY 2a6nA 127 :DLPQILYNVPSA T0376 142 :GFATRADLFFAL 2a6nA 140 :GCDLLPETVGRL T0376 155 :AEHKNLVGFKEFGG 2a6nA 152 :AKVKNIIGIKEATG T0376 171 :DMRYAAENITSRDDEVTLMIG 2a6nA 166 :NLTRVNQIKELVSDDFVLLSG T0376 193 :DTAVVHGFVNCGATGA 2a6nA 187 :DDASALDFMQLGGHGV T0376 211 :GIGNVLPKEVIHLCKLSQA 2a6nA 205 :VTANVAARDMAQMCKLAAE T0376 233 :GD 2a6nA 224 :GH T0376 235 :ADARARALELEQALAVLS 2a6nA 227 :AEARVINQRLMPLHNKLF T0376 254 :FDEGPDLV 2a6nA 245 :VEPNPIPV T0376 265 :KYMMVLKGDKE 2a6nA 253 :KWACKELGLVA T0376 276 :YTLHFNETD 2a6nA 265 :DTLRLPMTP T0376 286 :LTDSQRGYVEAQFKLFN 2a6nA 274 :ITDSGRETVRAALKHAG Number of specific fragments extracted= 17 number of extra gaps= 2 total=718 Number of alignments=46 # 2a6nA read from 2a6nA/merged-good-all-a2m # found chain 2a6nA in template set Warning: unaligning (T0376)I5 because first residue in template chain is (2a6nA)M1 Warning: unaligning (T0376)C46 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2a6nA)G43 Warning: unaligning (T0376)G47 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2a6nA)G43 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2a6nA)S204 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2a6nA)S204 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVY 2a6nA 2 :FTGSIVAIVTPMDEKGNVCRASLKKLIDYHVASGTSAIVS T0376 48 :SMGDWPLLTDEQRMEGVERLVK 2a6nA 44 :TTGESATLNHDEHADVVMMTLD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGSV 2a6nA 69 :GRIPVIAGTGANATAEAISLTQRFNDSGIVGCLTVTPYYNRPSQ T0376 115 :AAQKAHFKAILSAA 2a6nA 113 :EGLYQHFKAIAEHT T0376 130 :EIPAVIYNSPYY 2a6nA 127 :DLPQILYNVPSA T0376 142 :GFATRADLFFAL 2a6nA 140 :GCDLLPETVGRL T0376 155 :AEHKNLVGFKEFGG 2a6nA 152 :AKVKNIIGIKEATG T0376 171 :DMRYAAENITSRDDEVTLMIG 2a6nA 166 :NLTRVNQIKELVSDDFVLLSG T0376 193 :DTAVVHGFVNCGATGA 2a6nA 187 :DDASALDFMQLGGHGV T0376 211 :GIGNVLPKEVIHLCKLSQA 2a6nA 205 :VTANVAARDMAQMCKLAAE T0376 233 :GDA 2a6nA 224 :GHF T0376 237 :ARARAL 2a6nA 227 :AEARVI T0376 244 :LEQALAVLSSFDEGPD 2a6nA 233 :NQRLMPLHNKLFVEPN T0376 261 :VLYFKYMMVLKGDK 2a6nA 249 :PIPVKWACKELGLV T0376 275 :EYTLHFNET 2a6nA 264 :TDTLRLPMT T0376 285 :ALTDSQRGYVEAQFKLFN 2a6nA 273 :PITDSGRETVRAALKHAG Number of specific fragments extracted= 16 number of extra gaps= 2 total=734 Number of alignments=47 # 2a6nA read from 2a6nA/merged-good-all-a2m # found chain 2a6nA in template set Warning: unaligning (T0376)I5 because first residue in template chain is (2a6nA)M1 Warning: unaligning (T0376)C46 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2a6nA)G43 Warning: unaligning (T0376)G47 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2a6nA)G43 Warning: unaligning (T0376)I209 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2a6nA)S204 Warning: unaligning (T0376)T210 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2a6nA)S204 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVY 2a6nA 2 :FTGSIVAIVTPMDEKGNVCRASLKKLIDYHVASGTSAIVS T0376 48 :SMGDWPLLTDEQRMEGVERLVK 2a6nA 44 :TTGESATLNHDEHADVVMMTLD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 2a6nA 69 :GRIPVIAGTGANATAEAISLTQRFNDSGIVGCLTVTPYYNRP T0376 113 :VIAAQKAHFKAILSA 2a6nA 111 :SQEGLYQHFKAIAEH T0376 129 :PEIPAVIYNSPYYGFATRADLFFALRAEHKNLVGFKEFGGPADMRYAAENIT 2a6nA 126 :TDLPQILYNVPSATGCDLLPETVGRLAKVKNIIGIKEATGNLTRVNQIKELV T0376 184 :DEVTLMIGVDTAVVHGFVNCGATGA 2a6nA 178 :SDDFVLLSGDDASALDFMQLGGHGV T0376 211 :GIGNVLPKEVIHLCKLSQAAAKGDADARARALELEQALAVLSSFDEGPDLVLYFKYMM 2a6nA 205 :VTANVAARDMAQMCKLAAEGHFAEARVINQRLMPLHNKLFVEPNPIPVKWACKELGLV T0376 269 :VLKGDKEYTLHFNETDALTDSQRGY 2a6nA 264 :TDTLRLPMTPITDSGRETVRAALKH Number of specific fragments extracted= 8 number of extra gaps= 2 total=742 Number of alignments=48 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1s5wA/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/T0376/1s5wA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0376/1s5wA/merged-good-all-a2m.gz for input Trying 1s5wA/merged-good-all-a2m Error: Couldn't open file 1s5wA/merged-good-all-a2m or 1s5wA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1qwgA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0376 read from 1qwgA/merged-good-all-a2m # 1qwgA read from 1qwgA/merged-good-all-a2m # found chain 1qwgA in training set Warning: unaligning (T0376)A98 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1qwgA)M129 Warning: unaligning (T0376)K99 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1qwgA)M129 T0376 3 :ASIFSGVIPALM 1qwgA 9 :EDFQRGLTVVLD T0376 21 :RTPDFDALVRKGKELIAD 1qwgA 21 :KGLPPKFVEDYLKVCGDY T0376 40 :MSAVVY 1qwgA 39 :IDFVKF T0376 48 :SMGDWPLLTDEQRMEGVERLVKAGIPVIV 1qwgA 45 :GWGTSAVIDRDVVKEKINYYKDWGIKVYP T0376 79 :GAVNTASAV 1qwgA 74 :GGTLFEYAY T0376 88 :AHAVHAQKVG 1qwgA 118 :NAIKRAKDNG T0376 100 :GLMVIPRVLSR 1qwgA 130 :VLTEVGKKMPD T0376 111 :GS 1qwgA 145 :LT T0376 114 :IAAQKAHFKAILSA 1qwgA 147 :IDDRIKLINFDLDA T0376 130 :EIPAVIYNS 1qwgA 161 :GADYVIIEG T0376 139 :PYY 1qwgA 177 :GLF T0376 142 :GFATRADLFFALRAEHK 1qwgA 182 :EGKVKENELDVLAKNVD T0376 159 :NLVG 1qwgA 201 :KVIF T0376 164 :K 1qwgA 205 :E T0376 167 :GG 1qwgA 206 :AP T0376 171 :DMRYAAENITSRDDEVTLM 1qwgA 208 :QKSQQVAFILKFGSSVNLA T0376 190 :IGVDTAVVHGFVNCGAT 1qwgA 228 :IAFDEVISLETLRRGLR Number of specific fragments extracted= 17 number of extra gaps= 1 total=759 Number of alignments=49 # 1qwgA read from 1qwgA/merged-good-all-a2m # found chain 1qwgA in training set Warning: unaligning (T0376)A98 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1qwgA)M129 Warning: unaligning (T0376)K99 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1qwgA)M129 T0376 3 :ASIFSGVIPALM 1qwgA 9 :EDFQRGLTVVLD T0376 21 :RTPDFDALVRKGKELIAD 1qwgA 21 :KGLPPKFVEDYLKVCGDY T0376 40 :MSAVVY 1qwgA 39 :IDFVKF T0376 48 :SMGDWPLLTDEQRMEGVERLVKAGIPVI 1qwgA 45 :GWGTSAVIDRDVVKEKINYYKDWGIKVY T0376 76 :VGTGAV 1qwgA 102 :VEISDG T0376 82 :NTASAVAHAVHAQKVG 1qwgA 112 :SLEERNNAIKRAKDNG T0376 100 :GLMVIPRVL 1qwgA 130 :VLTEVGKKM T0376 109 :SRGSVIAAQKAHFKAILSA 1qwgA 142 :DKQLTIDDRIKLINFDLDA T0376 130 :EIPAVIYNS 1qwgA 161 :GADYVIIEG T0376 139 :PYY 1qwgA 177 :GLF T0376 142 :GFATRADLFFALRAEHK 1qwgA 182 :EGKVKENELDVLAKNVD T0376 159 :NLVGF 1qwgA 201 :KVIFE T0376 167 :GG 1qwgA 206 :AP T0376 171 :DMRYAAENITSRDDEVTLM 1qwgA 208 :QKSQQVAFILKFGSSVNLA T0376 190 :IGVDTAVVHGFVNCGAT 1qwgA 228 :IAFDEVISLETLRRGLR Number of specific fragments extracted= 15 number of extra gaps= 1 total=774 Number of alignments=50 # 1qwgA read from 1qwgA/merged-good-all-a2m # found chain 1qwgA in training set Warning: unaligning (T0376)A98 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1qwgA)M129 Warning: unaligning (T0376)K99 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1qwgA)M129 T0376 2 :TASIFSGVIPALM 1qwgA 8 :YEDFQRGLTVVLD T0376 21 :RTPDFDALVRKGKELIA 1qwgA 21 :KGLPPKFVEDYLKVCGD T0376 40 :MSAVVY 1qwgA 39 :IDFVKF T0376 48 :SMGDWPLLTDEQRMEGVERLVKAGIPVI 1qwgA 45 :GWGTSAVIDRDVVKEKINYYKDWGIKVY T0376 76 :VGTGAVN 1qwgA 102 :VEISDGS T0376 83 :TASAVAHAVHAQKVG 1qwgA 113 :LEERNNAIKRAKDNG T0376 100 :GLMVIPRVL 1qwgA 130 :VLTEVGKKM T0376 112 :SVIAAQKAHFKAILSA 1qwgA 145 :LTIDDRIKLINFDLDA T0376 130 :EIPAVIYNSPYYG 1qwgA 161 :GADYVIIEGRESG T0376 143 :FATRADLFFALRAE 1qwgA 182 :EGKVKENELDVLAK T0376 157 :HKNLVGF 1qwgA 199 :INKVIFE T0376 167 :GGPADMRYAAENIT 1qwgA 206 :APQKSQQVAFILKF T0376 184 :DEVTLMIGVDTAVVHGF 1qwgA 220 :GSSVNLANIAFDEVISL T0376 201 :VNCG 1qwgA 239 :LRRG Number of specific fragments extracted= 14 number of extra gaps= 1 total=788 Number of alignments=51 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1tx2A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1tx2A expands to /projects/compbio/data/pdb/1tx2.pdb.gz 1tx2A:# T0376 read from 1tx2A/merged-good-all-a2m # 1tx2A read from 1tx2A/merged-good-all-a2m # adding 1tx2A to template set # found chain 1tx2A in template set Warning: unaligning (T0376)M14 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1tx2A)V28 Warning: unaligning (T0376)T15 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1tx2A)V28 Warning: unaligning (T0376)R21 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1tx2A)G36 Warning: unaligning (T0376)T22 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1tx2A)G36 Warning: unaligning (T0376)W52 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1tx2A)F71 T0376 6 :FS 1tx2A 20 :TL T0376 9 :VIPAL 1tx2A 22 :IMGIL T0376 16 :PCRQD 1tx2A 29 :TPDSF T0376 25 :FDALVRKGKELIADGMSAVVYCG 1tx2A 42 :VDAAVRHAKEMRDEGAHIIDIGG T0376 53 :PLLTDEQRME 1tx2A 72 :AKVSVEEEIK T0376 63 :GVERLVK 1tx2A 86 :MIQAVSK T0376 70 :AGIPVIVGTGA 1tx2A 94 :VKLPISIDTYK T0376 87 :VAHAVHAQKVGAKGLMVIPRVLSRGS 1tx2A 105 :AEVAKQAIEAGAHIINDIWGAKAEPK T0376 120 :HFKAILSA 1tx2A 131 :IAEVAAHY T0376 130 :EIPAVIYNSPYY 1tx2A 139 :DVPIILMHNRDN T0376 142 :GFAT 1tx2A 152 :NYRN T0376 147 :ADLFFALR 1tx2A 158 :ADMIADLY T0376 155 :AEHK 1tx2A 172 :KDAG T0376 159 :NLVGFKEFGGPADMRYAAENITSRDD 1tx2A 180 :NIILDPGIGFAKTPEQNLEAMRNLEQ T0376 185 :EVTLMIGVD 1tx2A 210 :GYPVLLGTS T0376 194 :TAVVHGFV 1tx2A 220 :KSFIGHVL T0376 202 :NCGATGAIT 1tx2A 247 :EKGCEFVRV T0376 220 :VIHLCKLSQAAA 1tx2A 258 :VKEMSRMAKMMD T0376 246 :Q 1tx2A 270 :A Number of specific fragments extracted= 19 number of extra gaps= 2 total=807 Number of alignments=52 # 1tx2A read from 1tx2A/merged-good-all-a2m # found chain 1tx2A in template set Warning: unaligning (T0376)M14 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1tx2A)V28 Warning: unaligning (T0376)T15 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1tx2A)V28 Warning: unaligning (T0376)T22 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1tx2A)G36 Warning: unaligning (T0376)W52 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1tx2A)F71 T0376 7 :S 1tx2A 21 :L T0376 9 :VIPAL 1tx2A 22 :IMGIL T0376 16 :PCRQDR 1tx2A 29 :TPDSFS T0376 25 :FDALVRKGKELIADGMSAVVYCG 1tx2A 42 :VDAAVRHAKEMRDEGAHIIDIGG T0376 53 :PLLTDEQRME 1tx2A 72 :AKVSVEEEIK T0376 63 :GVERLVK 1tx2A 86 :MIQAVSK T0376 70 :AGIPVIVGTGA 1tx2A 94 :VKLPISIDTYK T0376 87 :VAHAVHAQKVGAKGLMVIPRVLSRGS 1tx2A 105 :AEVAKQAIEAGAHIINDIWGAKAEPK T0376 120 :HFKAILSA 1tx2A 131 :IAEVAAHY T0376 130 :EIPAVIYNSPYY 1tx2A 139 :DVPIILMHNRDN T0376 142 :GFATRADLFFA 1tx2A 152 :NYRNLMADMIA T0376 153 :LRA 1tx2A 164 :LYD T0376 156 :EHK 1tx2A 173 :DAG T0376 159 :NLVGFKEFGGPADMRYAAENITSRDD 1tx2A 180 :NIILDPGIGFAKTPEQNLEAMRNLEQ T0376 185 :EVTLMIGVD 1tx2A 210 :GYPVLLGTS T0376 194 :TAVVHGFVNCGATGAIT 1tx2A 239 :GATVCLGIEKGCEFVRV T0376 220 :VIHLCKLSQAAA 1tx2A 258 :VKEMSRMAKMMD T0376 239 :A 1tx2A 270 :A Number of specific fragments extracted= 18 number of extra gaps= 2 total=825 Number of alignments=53 # 1tx2A read from 1tx2A/merged-good-all-a2m # found chain 1tx2A in template set Warning: unaligning (T0376)M14 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1tx2A)V28 Warning: unaligning (T0376)T15 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1tx2A)V28 Warning: unaligning (T0376)W52 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1tx2A)F71 T0376 9 :VIPAL 1tx2A 22 :IMGIL T0376 16 :PCRQD 1tx2A 29 :TPDSF T0376 25 :FDALVRKGKELIADGMSAVVYCG 1tx2A 42 :VDAAVRHAKEMRDEGAHIIDIGG T0376 53 :PLLTDEQRME 1tx2A 72 :AKVSVEEEIK T0376 63 :GVERLVK 1tx2A 86 :MIQAVSK T0376 70 :AGIPVIVGTGA 1tx2A 94 :VKLPISIDTYK T0376 87 :VAHAVHAQKVGAKGLMVIPRVLSRG 1tx2A 105 :AEVAKQAIEAGAHIINDIWGAKAEP T0376 119 :AHFKAILSA 1tx2A 130 :KIAEVAAHY T0376 130 :EIPAVIYNSPYYGFATRADLFFALRA 1tx2A 139 :DVPIILMHNRDNMNYRNLMADMIADL T0376 156 :E 1tx2A 172 :K T0376 157 :HKNLVGFKEFGG 1tx2A 178 :DENIILDPGIGF T0376 169 :PADMRYAAENITS 1tx2A 192 :TPEQNLEAMRNLE T0376 182 :RDDEVTLMIGVD 1tx2A 207 :NVLGYPVLLGTS T0376 194 :TAVVHGFVNCGATGAITGIG 1tx2A 239 :GATVCLGIEKGCEFVRVHDV T0376 218 :KEVIHLCK 1tx2A 259 :KEMSRMAK T0376 237 :ARARA 1tx2A 267 :MMDAM Number of specific fragments extracted= 16 number of extra gaps= 1 total=841 Number of alignments=54 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1xg4A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0376 read from 1xg4A/merged-good-all-a2m # 1xg4A read from 1xg4A/merged-good-all-a2m # found chain 1xg4A in training set T0376 29 :VRKGKELIADGMSAVVYC 1xg4A 28 :ANHALLAQRAGYQAIYLS T0376 47 :GSMG 1xg4A 52 :GSLG T0376 51 :DWPLLTDEQRMEGVERLVK 1xg4A 58 :DLGISTLDDVLTDIRRITD T0376 70 :AGIPVIVGTG 1xg4A 78 :CSLPLLVDAD T0376 80 :AVNTASAVAHAVHAQKVGAKGLMVIP 1xg4A 91 :GSSAFNVARTVKSMIKAGAAGLHIED T0376 106 :RVLSRGS 1xg4A 122 :RSGHRPN T0376 113 :VIAAQKAHFKAILSAA 1xg4A 133 :SKEEMVDRIRAAVDAK T0376 129 :PEIPAVIYNSPYY 1xg4A 151 :PDFVIMARTDALA T0376 142 :GFATRADLFFALRAE 1xg4A 166 :GLDAAIERAQAYVEA T0376 159 :NL 1xg4A 181 :GA T0376 161 :VGFKEFGG 1xg4A 184 :MLFPEAIT T0376 171 :DMRYAAENITSRDDE 1xg4A 192 :ELAMYRQFADAVQVP T0376 188 :LMIGVDT 1xg4A 207 :ILANITE T0376 195 :AVVHGFVNCGATGAITGIG 1xg4A 220 :FTTDELRSAHVAMALYPLS T0376 226 :LSQAAAK 1xg4A 239 :AFRAMNR T0376 237 :ARARALE 1xg4A 246 :AAEHVYN T0376 250 :VLSSFDEGPDL 1xg4A 253 :VLRQEGTQKSV T0376 282 :ETDALTDSQR 1xg4A 264 :IDTMQTRNEL Number of specific fragments extracted= 18 number of extra gaps= 0 total=859 Number of alignments=55 # 1xg4A read from 1xg4A/merged-good-all-a2m # found chain 1xg4A in training set T0376 9 :VIPALMTPCRQ 1xg4A 82 :LLVDADIGFGS T0376 24 :DFDALVRKGKELIADGMSAVVYCGSMG 1xg4A 93 :SAFNVARTVKSMIKAGAAGLHIEDQVG T0376 51 :DWPLLTDEQRMEGVERLVK 1xg4A 128 :NKAIVSKEEMVDRIRAAVD T0376 70 :AGIPVIVGTGAVNTA 1xg4A 151 :PDFVIMARTDALAVE T0376 85 :SAVAHAVHAQKVGAKGLMVI 1xg4A 169 :AAIERAQAYVEAGAEMLFPE T0376 110 :RGSVIA 1xg4A 189 :AITELA T0376 120 :HFKAILSAA 1xg4A 195 :MYRQFADAV T0376 130 :EIPAVIYNSPYY 1xg4A 204 :QVPILANITEFG T0376 142 :GFATRADLFFAL 1xg4A 217 :TPLFTTDELRSA T0376 185 :EVTLMIGVDTAV 1xg4A 229 :HVAMALYPLSAF T0376 228 :QA 1xg4A 241 :RA T0376 239 :ARAL 1xg4A 243 :MNRA T0376 244 :LEQALAVLSSFDEGPDL 1xg4A 247 :AEHVYNVLRQEGTQKSV T0376 282 :ETDALTDSQR 1xg4A 264 :IDTMQTRNEL Number of specific fragments extracted= 14 number of extra gaps= 0 total=873 Number of alignments=56 # 1xg4A read from 1xg4A/merged-good-all-a2m # found chain 1xg4A in training set T0376 29 :VRKGKELIADGMSAVVYC 1xg4A 28 :ANHALLAQRAGYQAIYLS T0376 47 :GSMG 1xg4A 52 :GSLG T0376 51 :DWPLLTDEQRMEGVERLVK 1xg4A 58 :DLGISTLDDVLTDIRRITD T0376 70 :AGIPVIVGT 1xg4A 78 :CSLPLLVDA T0376 79 :GAVNTASAVAHAVHAQKVGAKGLMVI 1xg4A 90 :FGSSAFNVARTVKSMIKAGAAGLHIE T0376 105 :PRVLSRG 1xg4A 121 :KRSGHRP T0376 112 :SVIAAQKAHFKAILSAA 1xg4A 132 :VSKEEMVDRIRAAVDAK T0376 129 :PEIPAVIYNSPY 1xg4A 151 :PDFVIMARTDAL T0376 147 :ADLFFALRAE 1xg4A 166 :GLDAAIERAQ T0376 161 :VGFKEFGGPADMRYAAENIT 1xg4A 184 :MLFPEAITELAMYRQFADAV T0376 184 :DEVTLMIGVD 1xg4A 204 :QVPILANITE T0376 197 :VHGFVNCGATGAITGIG 1xg4A 222 :TDELRSAHVAMALYPLS T0376 234 :DADARARALELEQALAVLSS 1xg4A 239 :AFRAMNRAAEHVYNVLRQEG T0376 269 :VLKGDKEYTLHFNETDAL 1xg4A 259 :TQKSVIDTMQTRNELYES Number of specific fragments extracted= 14 number of extra gaps= 0 total=887 Number of alignments=57 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ojxA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ojxA expands to /projects/compbio/data/pdb/1ojx.pdb.gz 1ojxA:# T0376 read from 1ojxA/merged-good-all-a2m # 1ojxA read from 1ojxA/merged-good-all-a2m # adding 1ojxA to template set # found chain 1ojxA in template set Warning: unaligning (T0376)Q228 because of BadResidue code TOO_FEW_ATOMS+NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1ojxA)G253 Warning: unaligning (T0376)A229 because of BadResidue code TOO_FEW_ATOMS+NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1ojxA)G253 T0376 9 :VIPALMT 1ojxA 18 :SIILAYD T0376 24 :DFDALVRKGK 1ojxA 42 :DPEYILRLAR T0376 37 :ADGMSAVVYC 1ojxA 52 :DAGFDGVVFQ T0376 65 :ERLVK 1ojxA 63 :GIAEK T0376 70 :AGIPVIVGTG 1ojxA 71 :GSVPLILKLN T0376 80 :AVNTASA 1ojxA 95 :NCSVEEA T0376 94 :QKVGAKGLMVIPRVLSR 1ojxA 102 :VSLGASAVGYTIYPGSG T0376 111 :GSVIAAQKAHFKAILSA 1ojxA 121 :WKMFEELARIKRDAVKF T0376 130 :EIPAVIYNSPYY 1ojxA 138 :DLPLVVWSYPRG T0376 142 :GFAT 1ojxA 151 :KVVN T0376 147 :ADLFFALRAEH 1ojxA 161 :VAYAARIALEL T0376 159 :NLVGFK 1ojxA 172 :GADAMK T0376 165 :EFGG 1ojxA 179 :KYTG T0376 171 :DMRYAAENITSRDDEVTLMIGVD 1ojxA 183 :DPKTFSWAVKVAGKVPVLMSGGP T0376 196 :VVHGFVNCGATGAITGIGNV 1ojxA 216 :QVEGVLEAGALGIAVGRNVW T0376 216 :LPKEVIHLCKLS 1ojxA 240 :ALKFARALAELV Number of specific fragments extracted= 16 number of extra gaps= 1 total=903 Number of alignments=58 # 1ojxA read from 1ojxA/merged-good-all-a2m # found chain 1ojxA in template set Warning: unaligning (T0376)Q228 because of BadResidue code TOO_FEW_ATOMS+NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1ojxA)G253 Warning: unaligning (T0376)A229 because of BadResidue code TOO_FEW_ATOMS+NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1ojxA)G253 T0376 24 :DFDALVRKGK 1ojxA 42 :DPEYILRLAR T0376 37 :ADGMSAVVYC 1ojxA 52 :DAGFDGVVFQ T0376 65 :ERLVK 1ojxA 63 :GIAEK T0376 70 :AGIPVIVGT 1ojxA 71 :GSVPLILKL T0376 79 :GAVNTAS 1ojxA 94 :ANCSVEE T0376 93 :AQKVGAKGLMVIPRVLSRGS 1ojxA 101 :AVSLGASAVGYTIYPGSGFE T0376 115 :AAQKAHFKAILSAA 1ojxA 121 :WKMFEELARIKRDA T0376 130 :EIPAVIYNSPYY 1ojxA 138 :DLPLVVWSYPRG T0376 142 :GFA 1ojxA 151 :KVV T0376 145 :TRADLFF 1ojxA 156 :TAPEIVA T0376 152 :ALRAEHK 1ojxA 166 :RIALELG T0376 159 :NLVGFKEF 1ojxA 174 :DAMKIKYT T0376 168 :G 1ojxA 182 :G T0376 171 :DMRYAAENITSRDDEVTLMIG 1ojxA 183 :DPKTFSWAVKVAGKVPVLMSG T0376 193 :D 1ojxA 204 :G T0376 194 :TAV 1ojxA 212 :DFL T0376 197 :VHGFVNCGATGAITGIGNV 1ojxA 217 :VEGVLEAGALGIAVGRNVW T0376 216 :LPKEVIHLCKLS 1ojxA 240 :ALKFARALAELV Number of specific fragments extracted= 18 number of extra gaps= 1 total=921 Number of alignments=59 # 1ojxA read from 1ojxA/merged-good-all-a2m # found chain 1ojxA in template set Warning: unaligning (T0376)Q228 because of BadResidue code TOO_FEW_ATOMS+NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1ojxA)G253 Warning: unaligning (T0376)A229 because of BadResidue code TOO_FEW_ATOMS+NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1ojxA)G253 T0376 24 :DFDALVRKGKEL 1ojxA 42 :DPEYILRLARDA T0376 39 :GMSAVVYC 1ojxA 54 :GFDGVVFQ T0376 61 :MEGVER 1ojxA 62 :RGIAEK T0376 70 :AGIPVIVGT 1ojxA 71 :GSVPLILKL T0376 80 :AVNTA 1ojxA 95 :NCSVE T0376 92 :HAQKVGAKGLMVIPRVLSRG 1ojxA 100 :EAVSLGASAVGYTIYPGSGF T0376 114 :IAAQKAHFKAILSAA 1ojxA 120 :EWKMFEELARIKRDA T0376 129 :PEIPAVIYNSPYYGFAT 1ojxA 137 :FDLPLVVWSYPRGGKVV T0376 146 :RADLFFALRAE 1ojxA 156 :TAPEIVAYAAR T0376 159 :NLVGFKE 1ojxA 172 :GADAMKI T0376 166 :FGGPADMRYAAENIT 1ojxA 180 :YTGDPKTFSWAVKVA T0376 184 :DEVTLMIGVD 1ojxA 195 :GKVPVLMSGG T0376 194 :TAVVHGFVNCGATGAITGIGNV 1ojxA 214 :LKQVEGVLEAGALGIAVGRNVW T0376 216 :LPKEVIHLCKLS 1ojxA 240 :ALKFARALAELV Number of specific fragments extracted= 14 number of extra gaps= 1 total=935 Number of alignments=60 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1y0eA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1y0eA expands to /projects/compbio/data/pdb/1y0e.pdb.gz 1y0eA: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 # T0376 read from 1y0eA/merged-good-all-a2m # 1y0eA read from 1y0eA/merged-good-all-a2m # adding 1y0eA to template set # found chain 1y0eA in template set Warning: unaligning (T0376)P105 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1y0eA)T96 Warning: unaligning (T0376)R106 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1y0eA)T96 Warning: unaligning (T0376)A128 because of BadResidue code CHAIN_BREAK_BEFORE in next template residue (1y0eA)P117 Warning: unaligning (T0376)P129 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (1y0eA)P117 T0376 7 :SGVIPALMT 1y0eA 4 :HGLIVSCQA T0376 18 :RQDRT 1y0eA 13 :LPDEP T0376 23 :PDFDALVRKGKELIADGMSAVVYC 1y0eA 19 :HSSFIMSKMALAAYEGGAVGIRAN T0376 56 :TDEQRMEGVER 1y0eA 43 :TKEDILAIKET T0376 70 :AGIPVIVGTG 1y0eA 54 :VDLPVIGIVK T0376 80 :AVNTASA 1y0eA 74 :TATSKEV T0376 91 :VHAQKVGAKGLMVI 1y0eA 81 :DELIESQCEVIALD T0376 107 :VL 1y0eA 97 :LQ T0376 109 :SRGS 1y0eA 101 :PKET T0376 114 :IAAQKAHFK 1y0eA 105 :LDELVSYIR T0376 126 :SA 1y0eA 114 :TH T0376 130 :EIPAVIYN 1y0eA 118 :NVEIMADI T0376 145 :TRADLFFAL 1y0eA 126 :ATVEEAKNA T0376 155 :AEHK 1y0eA 135 :ARLG T0376 160 :LVGFK 1y0eA 139 :FDYIG T0376 170 :ADMRYAAENITSRDD 1y0eA 161 :NDFQFLKDVLQSVDA T0376 187 :TLMIGVD 1y0eA 176 :KVIAEGN T0376 194 :TAVVHGFVNCGATGAITG 1y0eA 186 :PDMYKRVMDLGVHCSVVG T0376 225 :KLSQ 1y0eA 204 :GAIT T0376 234 :DADARARALE 1y0eA 208 :RPKEITKRFV Number of specific fragments extracted= 20 number of extra gaps= 2 total=955 Number of alignments=61 # 1y0eA read from 1y0eA/merged-good-all-a2m # found chain 1y0eA in template set Warning: unaligning (T0376)P105 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1y0eA)T96 Warning: unaligning (T0376)R106 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1y0eA)T96 Warning: unaligning (T0376)A128 because of BadResidue code CHAIN_BREAK_BEFORE in next template residue (1y0eA)P117 Warning: unaligning (T0376)P129 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (1y0eA)P117 T0376 7 :SGVIPALM 1y0eA 4 :HGLIVSCQ T0376 17 :CRQDRTP 1y0eA 12 :ALPDEPL T0376 24 :DFDALVRKGKELIADGMSAVVYCG 1y0eA 20 :SSFIMSKMALAAYEGGAVGIRANT T0376 57 :DEQ 1y0eA 44 :KED T0376 64 :VERLVK 1y0eA 47 :ILAIKE T0376 70 :AGIPVIVGT 1y0eA 54 :VDLPVIGIV T0376 79 :GAVNTA 1y0eA 73 :ITATSK T0376 89 :HAVHAQKVGAKGLMVI 1y0eA 79 :EVDELIESQCEVIALD T0376 107 :VLSRG 1y0eA 97 :LQQRP T0376 112 :SVIAAQKAHFK 1y0eA 103 :ETLDELVSYIR T0376 126 :SA 1y0eA 114 :TH T0376 130 :EIPAVIYN 1y0eA 118 :NVEIMADI T0376 145 :TRADLFFAL 1y0eA 126 :ATVEEAKNA T0376 155 :AEHK 1y0eA 135 :ARLG T0376 159 :NLVGF 1y0eA 140 :DYIGT T0376 166 :FGGPADMRYAAENITSRDDEV 1y0eA 157 :LLYQNDFQFLKDVLQSVDAKV T0376 188 :LMIG 1y0eA 178 :IAEG T0376 193 :D 1y0eA 182 :N T0376 194 :TAV 1y0eA 187 :DMY T0376 198 :HGFVNCGATGAITGIGNVLPKE 1y0eA 190 :KRVMDLGVHCSVVGGAITRPKE Number of specific fragments extracted= 20 number of extra gaps= 2 total=975 Number of alignments=62 # 1y0eA read from 1y0eA/merged-good-all-a2m # found chain 1y0eA in template set Warning: unaligning (T0376)P105 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1y0eA)T96 Warning: unaligning (T0376)R106 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1y0eA)T96 Warning: unaligning (T0376)A128 because of BadResidue code CHAIN_BREAK_BEFORE in next template residue (1y0eA)P117 Warning: unaligning (T0376)P129 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (1y0eA)P117 T0376 7 :SGVIPAL 1y0eA 4 :HGLIVSC T0376 16 :PCRQDRTP 1y0eA 11 :QALPDEPL T0376 24 :DFDALVRKGKELIADGMSAVVYC 1y0eA 20 :SSFIMSKMALAAYEGGAVGIRAN T0376 56 :TDEQRMEGVERL 1y0eA 43 :TKEDILAIKETV T0376 71 :GIPVIVGT 1y0eA 55 :DLPVIGIV T0376 79 :GAVNTA 1y0eA 73 :ITATSK T0376 89 :HAVHAQKVGAKGLMVI 1y0eA 79 :EVDELIESQCEVIALD T0376 107 :VLSRG 1y0eA 97 :LQQRP T0376 112 :SVIAAQ 1y0eA 103 :ETLDEL T0376 121 :FKAILSA 1y0eA 109 :VSYIRTH T0376 130 :EIPAVIYN 1y0eA 118 :NVEIMADI T0376 146 :RADLFFALRAEH 1y0eA 126 :ATVEEAKNAARL T0376 159 :NLVGFKEFGG 1y0eA 138 :GFDYIGTTLH T0376 169 :PADMRYAAENIT 1y0eA 162 :DFQFLKDVLQSV T0376 185 :EVTLMIGVD 1y0eA 174 :DAKVIAEGN T0376 194 :TAVVHGFVNCGATGAITGIGNVLPK 1y0eA 186 :PDMYKRVMDLGVHCSVVGGAITRPK T0376 234 :DADARAR 1y0eA 211 :EITKRFV Number of specific fragments extracted= 17 number of extra gaps= 2 total=992 Number of alignments=63 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1gt8B/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1gt8B expands to /projects/compbio/data/pdb/1gt8.pdb.gz 1gt8B:# T0376 read from 1gt8B/merged-good-all-a2m # 1gt8B read from 1gt8B/merged-good-all-a2m # adding 1gt8B to template set # found chain 1gt8B in template set Warning: unaligning (T0376)S112 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1gt8B)M680 Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1gt8B)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1gt8B)T735 T0376 6 :FSGVIPALMTPCRQD 1gt8B 542 :FINPFGLASAAPTTS T0376 25 :F 1gt8B 557 :S T0376 30 :RKGKELIADGMSAVVYC 1gt8B 558 :SMIRRAFEAGWGFALTK T0376 47 :GSM 1gt8B 593 :GTT T0376 50 :GDWP 1gt8B 601 :GPGQ T0376 56 :TDEQRMEGVERLVK 1gt8B 617 :TAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1gt8B 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1gt8B 645 :YNKNDWMELSRKAEASGADALELNLSCPHGM T0376 113 :VIAAQKAHFKAILSAA 1gt8B 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1gt8B 703 :QIPFFAKLTPNV T0376 144 :ATRADLFFALRAE 1gt8B 715 :TDIVSIARAAKEG T0376 159 :NLVGFK 1gt8B 728 :GADGVT T0376 167 :GG 1gt8B 736 :NT T0376 172 :MRYAAENITSR 1gt8B 775 :LRAVTTIARAL T0376 184 :DEVTLMIGVD 1gt8B 786 :PGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1gt8B 799 :AESGLQFLHSGASVLQVCSAVQN T0376 233 :GD 1gt8B 822 :QD T0376 246 :QALAV 1gt8B 825 :TVIQD T0376 260 :LVLYFKYMMVLKGDKE 1gt8B 830 :YCTGLKALLYLKSIEE T0376 276 :Y 1gt8B 848 :G T0376 278 :LHFNETDA 1gt8B 863 :KPVPRIAE T0376 289 :SQRGYVEAQFKLFNSWYA 1gt8B 881 :PYLEQRKKIIAEEKMRLK Number of specific fragments extracted= 22 number of extra gaps= 1 total=1014 Number of alignments=64 # 1gt8B read from 1gt8B/merged-good-all-a2m # found chain 1gt8B in template set Warning: unaligning (T0376)S112 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1gt8B)M680 Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1gt8B)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1gt8B)T735 T0376 6 :FSGVIPALMTPCRQ 1gt8B 542 :FINPFGLASAAPTT T0376 24 :DFDA 1gt8B 556 :SSSM T0376 32 :GKELIADGMSAVVY 1gt8B 560 :IRRAFEAGWGFALT T0376 47 :GSM 1gt8B 593 :GTT T0376 51 :DWPLLTDEQRMEGVERLVK 1gt8B 612 :LISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1gt8B 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1gt8B 645 :YNKNDWMELSRKAEASGADALELNLSCPHGM T0376 113 :VIAAQKAHFKAILSAA 1gt8B 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1gt8B 703 :QIPFFAKLTPNV T0376 142 :G 1gt8B 716 :D T0376 147 :ADLFFALRAE 1gt8B 718 :VSIARAAKEG T0376 159 :NLVGFK 1gt8B 728 :GADGVT T0376 167 :GG 1gt8B 736 :NT T0376 169 :PAD 1gt8B 745 :KAD T0376 172 :MRYAAENITSRD 1gt8B 775 :LRAVTTIARALP T0376 185 :EVTLMIGVD 1gt8B 787 :GFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1gt8B 799 :AESGLQFLHSGASVLQVCSAVQN T0376 233 :GDADA 1gt8B 822 :QDFTV T0376 239 :ARAL 1gt8B 827 :IQDY T0376 261 :VLYFKYMMVLKGDK 1gt8B 831 :CTGLKALLYLKSIE T0376 275 :EY 1gt8B 847 :QG T0376 278 :LHFNET 1gt8B 874 :KKLPNF T0376 288 :DSQRGYVEAQFKLFNSW 1gt8B 880 :GPYLEQRKKIIAEEKMR Number of specific fragments extracted= 23 number of extra gaps= 1 total=1037 Number of alignments=65 # 1gt8B read from 1gt8B/merged-good-all-a2m # found chain 1gt8B in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1gt8B)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1gt8B)T735 T0376 30 :RKGKELIADGMSAV 1gt8B 558 :SMIRRAFEAGWGFA T0376 45 :YC 1gt8B 572 :LT T0376 47 :GSMG 1gt8B 593 :GTTS T0376 52 :WPLLTDEQRMEGVERLVK 1gt8B 613 :ISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1gt8B 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1gt8B 645 :YNKNDWMELSRKAEASGADALELNLSCPHGM T0376 112 :SVIAAQKAHFKAILSA 1gt8B 686 :QDPELVRNICRWVRQA T0376 129 :PEIPAVIYNSPYYG 1gt8B 702 :VQIPFFAKLTPNVT T0376 147 :ADLFFALRAEHKNLVGFK 1gt8B 716 :DIVSIARAAKEGGADGVT T0376 167 :GG 1gt8B 736 :NT T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1gt8B 772 :PIALRAVTTIARALPGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1gt8B 799 :AESGLQFLHSGASVLQVCSAVQN T0376 249 :AVLSSFDEGPDLVLYFKYMM 1gt8B 825 :TVIQDYCTGLKALLYLKSIE T0376 269 :VLKGDKEYT 1gt8B 849 :WDGQSPGTE T0376 278 :LHFNETDALTDSQR 1gt8B 877 :PNFGPYLEQRKKII T0376 298 :FKLFNSWYA 1gt8B 891 :AEEKMRLKE Number of specific fragments extracted= 16 number of extra gaps= 1 total=1053 Number of alignments=66 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1aj2/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1aj2 expands to /projects/compbio/data/pdb/1aj2.pdb.gz 1aj2:Warning: there is no chain 1aj2 will retry with 1aj2A # T0376 read from 1aj2/merged-good-all-a2m # 1aj2 read from 1aj2/merged-good-all-a2m # adding 1aj2 to template set # found chain 1aj2 in template set Warning: unaligning (T0376)A70 because of BadResidue code BAD_PEPTIDE at template residue (1aj2)F89 T0376 9 :VIPALMTPCRQD 1aj2 15 :PHVMGILNVTPD T0376 25 :FDALVRKGKELIADGMSAVVYCG 1aj2 37 :LIDAVKHANLMINAGATIIDVGG T0376 48 :SMGDWPLLTDEQRME 1aj2 62 :TRPGAAEVSVEEELQ T0376 63 :GVERLVK 1aj2 81 :VVEAIAQ T0376 71 :GIPVIVGTGAV 1aj2 90 :EVWISVDTSKP T0376 88 :AHAVHAQKVGAKGL 1aj2 101 :EVIRESAKVGAHII T0376 103 :VIPRVLSRGSVIAAQKAH 1aj2 115 :NDIRSLSEPGALEAAAET T0376 130 :EIPAVIYNS 1aj2 133 :GLPVCLMHM T0376 139 :PYYGFATR 1aj2 145 :PKTMQEAP T0376 147 :ADLFFALRAEH 1aj2 162 :NRYFIEQIARC T0376 158 :KNLVGFKEFGGPADMRYAAENITSRDD 1aj2 180 :EKLLLDPGFGFGKNLSHNYSLLARLAE T0376 185 :EVTLMIGVDTAVVHGFV 1aj2 211 :NLPLLVGMSRKSMIGQL T0376 202 :NCGATGAIT 1aj2 248 :MQGAHIIRV T0376 233 :GD 1aj2 257 :HD T0376 235 :ADARARALELEQALA 1aj2 260 :KETVEAMRVVEATLS T0376 253 :SFDEG 1aj2 275 :AKENK Number of specific fragments extracted= 16 number of extra gaps= 1 total=1069 Number of alignments=67 # 1aj2 read from 1aj2/merged-good-all-a2m # found chain 1aj2 in template set Warning: unaligning (T0376)A70 because of BadResidue code BAD_PEPTIDE at template residue (1aj2)F89 T0376 9 :VIPALMTPCRQD 1aj2 15 :PHVMGILNVTPD T0376 25 :FDALVRKGKELIADGMSAVVYCG 1aj2 37 :LIDAVKHANLMINAGATIIDVGG T0376 48 :SMGDWPLLTDEQRME 1aj2 62 :TRPGAAEVSVEEELQ T0376 63 :GVERLVK 1aj2 81 :VVEAIAQ T0376 71 :GIPVIVGTGAV 1aj2 90 :EVWISVDTSKP T0376 88 :AHAVHAQKVGAKGL 1aj2 101 :EVIRESAKVGAHII T0376 103 :VIPRVLSRGSVIAAQKAH 1aj2 115 :NDIRSLSEPGALEAAAET T0376 130 :EIPAVIYNS 1aj2 133 :GLPVCLMHM T0376 139 :PYYGFATR 1aj2 145 :PKTMQEAP T0376 147 :ADLFFALRAEH 1aj2 162 :NRYFIEQIARC T0376 158 :KNLVGFKEFGGPADMRYAAENITSRDD 1aj2 180 :EKLLLDPGFGFGKNLSHNYSLLARLAE T0376 185 :EVTLMIGVDTAVVHGFVN 1aj2 211 :NLPLLVGMSRKSMIGQLL T0376 203 :CGATGAIT 1aj2 249 :QGAHIIRV T0376 233 :GDAD 1aj2 257 :HDVK T0376 238 :RARAL 1aj2 261 :ETVEA T0376 244 :LEQALA 1aj2 266 :MRVVEA T0376 253 :SFDEGPD 1aj2 272 :TLSAKEN Number of specific fragments extracted= 17 number of extra gaps= 1 total=1086 Number of alignments=68 # 1aj2 read from 1aj2/merged-good-all-a2m # found chain 1aj2 in template set Warning: unaligning (T0376)A70 because of BadResidue code BAD_PEPTIDE at template residue (1aj2)F89 T0376 9 :VIPALMTPCRQD 1aj2 15 :PHVMGILNVTPD T0376 25 :FDALVRKGKELIADGMSAVVYCG 1aj2 37 :LIDAVKHANLMINAGATIIDVGG T0376 48 :SMGDWPLLTDEQRME 1aj2 62 :TRPGAAEVSVEEELQ T0376 63 :GVERLVK 1aj2 81 :VVEAIAQ T0376 71 :GIPVIVGTGAV 1aj2 90 :EVWISVDTSKP T0376 88 :AHAVHAQKVGAKGL 1aj2 101 :EVIRESAKVGAHII T0376 102 :MVIPRVLSRG 1aj2 136 :VCLMHMQGNP T0376 114 :IAAQKAHFKAILSAA 1aj2 158 :FAEVNRYFIEQIARC T0376 129 :PEI 1aj2 179 :KEK T0376 134 :VIYN 1aj2 182 :LLLD T0376 139 :P 1aj2 186 :P T0376 141 :YGFATRADLFFALRAE 1aj2 187 :GFGFGKNLSHNYSLLA T0376 158 :K 1aj2 209 :H T0376 159 :NLVGFKEFGGP 1aj2 211 :NLPLLVGMSRK T0376 174 :YAAENITSRDDEVT 1aj2 222 :SMIGQLLNVGPSER T0376 192 :VDTAVVHGFVNCGATGAIT 1aj2 238 :GSLACAVIAAMQGAHIIRV T0376 230 :AAKGDADARARALELEQA 1aj2 257 :HDVKETVEAMRVVEATLS Number of specific fragments extracted= 17 number of extra gaps= 1 total=1103 Number of alignments=69 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1gt8D/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1gt8D expands to /projects/compbio/data/pdb/1gt8.pdb.gz 1gt8D:# T0376 read from 1gt8D/merged-good-all-a2m # 1gt8D read from 1gt8D/merged-good-all-a2m # adding 1gt8D to template set # found chain 1gt8D in template set Warning: unaligning (T0376)S112 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1gt8D)M680 Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1gt8D)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1gt8D)T735 T0376 6 :FSGVIPALMTPCRQ 1gt8D 542 :FINPFGLASAAPTT T0376 24 :DFDA 1gt8D 556 :SSSM T0376 32 :GKELIADGMSAVVYCGSM 1gt8D 560 :IRRAFEAGWGFALTKTFS T0376 50 :GDWPL 1gt8D 601 :GPGQS T0376 56 :TDEQRMEGVERLVK 1gt8D 617 :TAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1gt8D 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1gt8D 645 :YNKNDWMELSRKAEASGADALELNLSCPHGM T0376 113 :VIAAQKAHFKAILSAA 1gt8D 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1gt8D 703 :QIPFFAKLTPNV T0376 144 :ATRADLFFALRAE 1gt8D 715 :TDIVSIARAAKEG T0376 159 :NLVGFK 1gt8D 728 :GADGVT T0376 167 :GG 1gt8D 736 :NT T0376 172 :MRYAAENITSR 1gt8D 775 :LRAVTTIARAL T0376 184 :DEVTLMIGVD 1gt8D 786 :PGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1gt8D 799 :AESGLQFLHSGASVLQVCSAVQN T0376 233 :GD 1gt8D 822 :QD T0376 246 :QALAV 1gt8D 825 :TVIQD T0376 260 :LVLYFKYMMVLKGDKE 1gt8D 830 :YCTGLKALLYLKSIEE T0376 276 :YT 1gt8D 847 :QG T0376 280 :FNETDA 1gt8D 865 :VPRIAE T0376 289 :SQRGYVEAQFKLFNSWY 1gt8D 881 :PYLEQRKKIIAEEKMRL Number of specific fragments extracted= 21 number of extra gaps= 1 total=1124 Number of alignments=70 # 1gt8D read from 1gt8D/merged-good-all-a2m # found chain 1gt8D in template set Warning: unaligning (T0376)S112 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1gt8D)M680 Warning: unaligning (T0376)G162 because of BadResidue code BAD_PEPTIDE in next template residue (1gt8D)T735 Warning: unaligning (T0376)F163 because of BadResidue code BAD_PEPTIDE at template residue (1gt8D)T735 T0376 6 :FSG 1gt8D 542 :FIN T0376 9 :VIPALMTPCR 1gt8D 546 :FGLASAAPTT T0376 24 :DFDALVR 1gt8D 556 :SSSMIRR T0376 35 :LIADGMSAVVYCGSM 1gt8D 563 :AFEAGWGFALTKTFS T0376 50 :GD 1gt8D 601 :GP T0376 52 :WPLLTDEQRMEGVERLVK 1gt8D 613 :ISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1gt8D 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1gt8D 645 :YNKNDWMELSRKAEASGADALELNLSCPHGM T0376 113 :VIAAQKAHFKAILSAA 1gt8D 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1gt8D 703 :QIPFFAKLTPNV T0376 142 :G 1gt8D 716 :D T0376 147 :ADLFFALRAE 1gt8D 718 :VSIARAAKEG T0376 157 :HKNLV 1gt8D 729 :ADGVT T0376 172 :MRYAAENITSRD 1gt8D 775 :LRAVTTIARALP T0376 185 :EVTLMIGVD 1gt8D 787 :GFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1gt8D 799 :AESGLQFLHSGASVLQVCSAVQN T0376 233 :GDADA 1gt8D 822 :QDFTV T0376 239 :ARAL 1gt8D 827 :IQDY T0376 261 :VLYFKYMMVLKGDK 1gt8D 831 :CTGLKALLYLKSIE T0376 275 :EYT 1gt8D 846 :LQG T0376 278 :LHFNETD 1gt8D 866 :PRIAELM T0376 289 :SQRGYVEAQFKLFNSW 1gt8D 881 :PYLEQRKKIIAEEKMR Number of specific fragments extracted= 22 number of extra gaps= 1 total=1146 Number of alignments=71 # 1gt8D read from 1gt8D/merged-good-all-a2m # found chain 1gt8D in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1gt8D)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1gt8D)T735 T0376 31 :KGKELIADGMSA 1gt8D 559 :MIRRAFEAGWGF T0376 44 :VYCGSMG 1gt8D 571 :ALTKTFS T0376 52 :WPLLTDEQRMEGVERLVK 1gt8D 613 :ISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1gt8D 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1gt8D 645 :YNKNDWMELSRKAEASGADALELNLSCPHGM T0376 112 :SVIAAQKAHFKAILSA 1gt8D 686 :QDPELVRNICRWVRQA T0376 129 :PEIPAVIYNSPYYG 1gt8D 702 :VQIPFFAKLTPNVT T0376 147 :ADLFFALRAEHKNLVGFK 1gt8D 716 :DIVSIARAAKEGGADGVT T0376 167 :GG 1gt8D 736 :NT T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1gt8D 772 :PIALRAVTTIARALPGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1gt8D 799 :AESGLQFLHSGASVLQVCSAVQN T0376 248 :LAVLSSFDEGPDLVLYFKYM 1gt8D 824 :FTVIQDYCTGLKALLYLKSI T0376 268 :M 1gt8D 866 :P T0376 269 :VLKGDKEYTLHFNETDALTDSQR 1gt8D 868 :IAELMGKKLPNFGPYLEQRKKII T0376 298 :FKLFNSWYAD 1gt8D 891 :AEEKMRLKEQ Number of specific fragments extracted= 15 number of extra gaps= 1 total=1161 Number of alignments=72 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1eyeA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0376 read from 1eyeA/merged-good-all-a2m # 1eyeA read from 1eyeA/merged-good-all-a2m # found chain 1eyeA in training set Warning: unaligning (T0376)G47 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1eyeA)E65 Warning: unaligning (T0376)S48 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1eyeA)E65 T0376 6 :FS 1eyeA 6 :VQ T0376 9 :VIPALMTPCRQDRT 1eyeA 8 :VMGVLNVTDDSFSD T0376 23 :PDFDALVRKGKELIADGMSAVVYC 1eyeA 26 :LDLDDAVKHGLAMAAAGAGIVDVG T0376 57 :DEQRMEGVERLVKAGIPVIVGTGA 1eyeA 66 :TSRVIPVVKELAAQGITVSIDTMR T0376 87 :VAHAVHAQKVGAKGLMVIPRVLSRGSVIAAQKAH 1eyeA 90 :ADVARAALQNGAQMVNDVSGGRADPAMGPLLAEA T0376 130 :EIPAVIYNS 1eyeA 124 :DVPWVLMHW T0376 139 :PYYGFATR 1eyeA 140 :PHVPVRYG T0376 147 :ADLFFALRAE 1eyeA 158 :LASVADAVAA T0376 157 :H 1eyeA 169 :V T0376 158 :KNLVGFKEFGGPADMRYAAENITSR 1eyeA 172 :ARLVLDPGLGFAKTAQHNWAILHAL T0376 183 :DDEVTLMIGVDTAVVHGFV 1eyeA 201 :ATGIPVLVGASRKRFLGAL T0376 202 :NCGATGAITG 1eyeA 246 :LHGAWGVRVH T0376 216 :LPKEVIHLCKLSQAAA 1eyeA 256 :DVRASVDAIKVVEAWM Number of specific fragments extracted= 13 number of extra gaps= 1 total=1174 Number of alignments=73 # 1eyeA read from 1eyeA/merged-good-all-a2m # found chain 1eyeA in training set Warning: unaligning (T0376)G47 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1eyeA)E65 Warning: unaligning (T0376)S48 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1eyeA)E65 T0376 6 :FS 1eyeA 6 :VQ T0376 9 :VIPALMTPCRQDRT 1eyeA 8 :VMGVLNVTDDSFSD T0376 23 :PDFDALVRKGKELIADGMSAVVYC 1eyeA 26 :LDLDDAVKHGLAMAAAGAGIVDVG T0376 57 :DEQRMEGVERLVKAGIPVIVGTGA 1eyeA 66 :TSRVIPVVKELAAQGITVSIDTMR T0376 87 :VAHAVHAQKVGAKGLMVIPRVLSRGSVIAAQKAH 1eyeA 90 :ADVARAALQNGAQMVNDVSGGRADPAMGPLLAEA T0376 130 :EIPAVIYNS 1eyeA 124 :DVPWVLMHW T0376 139 :PYYGFATR 1eyeA 140 :PHVPVRYG T0376 147 :ADLFFALRAE 1eyeA 154 :RADLLASVAD T0376 158 :KNLVGFKEFGGPADMRYAAENITSR 1eyeA 172 :ARLVLDPGLGFAKTAQHNWAILHAL T0376 183 :DDEVTLMIGVD 1eyeA 201 :ATGIPVLVGAS T0376 194 :TAVVHGFVNCGATGAITGIG 1eyeA 238 :AVISALAALHGAWGVRVHDV T0376 218 :KEVIHLCKLSQAA 1eyeA 258 :RASVDAIKVVEAW Number of specific fragments extracted= 12 number of extra gaps= 1 total=1186 Number of alignments=74 # 1eyeA read from 1eyeA/merged-good-all-a2m # found chain 1eyeA in training set Warning: unaligning (T0376)G47 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1eyeA)E65 Warning: unaligning (T0376)S48 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1eyeA)E65 T0376 9 :VIPALMTPCRQD 1eyeA 8 :VMGVLNVTDDSF T0376 23 :PDFDALVRKGKELIADGMSAVVYC 1eyeA 26 :LDLDDAVKHGLAMAAAGAGIVDVG T0376 57 :DEQRMEGVERLVKAGIPVIVGTGA 1eyeA 66 :TSRVIPVVKELAAQGITVSIDTMR T0376 87 :VAHAVHAQKVGAKGLMVIPRVLSRG 1eyeA 90 :ADVARAALQNGAQMVNDVSGGRADP T0376 119 :AHFKAILSA 1eyeA 115 :AMGPLLAEA T0376 130 :EIPAVIYNSPYYG 1eyeA 124 :DVPWVLMHWRAVS T0376 143 :FATRA 1eyeA 141 :HVPVR T0376 148 :DLFFALRA 1eyeA 150 :VAEVRADL T0376 157 :HKNLVGFKEFGG 1eyeA 171 :PARLVLDPGLGF T0376 169 :PADMRYAAENITS 1eyeA 185 :TAQHNWAILHALP T0376 182 :RDDEVTLMIGVDTA 1eyeA 201 :ATGIPVLVGASRKR T0376 261 :VLYFKYMMVLKGDKEYTLHFNETDALTDSQRGY 1eyeA 215 :FLGALLAGPDGVMRPTDGRDTATAVISALAALH T0376 294 :VEAQFKLFNSWYADW 1eyeA 257 :VRASVDAIKVVEAWM Number of specific fragments extracted= 13 number of extra gaps= 1 total=1199 Number of alignments=75 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ad4A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ad4A expands to /projects/compbio/data/pdb/1ad4.pdb.gz 1ad4A:# T0376 read from 1ad4A/merged-good-all-a2m # 1ad4A read from 1ad4A/merged-good-all-a2m # adding 1ad4A to template set # found chain 1ad4A in template set Warning: unaligning (T0376)T2 because first residue in template chain is (1ad4A)T2 Warning: unaligning (T0376)A12 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1ad4A)N25 Warning: unaligning (T0376)D24 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1ad4A)N25 Warning: unaligning (T0376)C46 because of BadResidue code BAD_PEPTIDE in next template residue (1ad4A)G48 Warning: unaligning (T0376)G47 because of BadResidue code BAD_PEPTIDE at template residue (1ad4A)G48 T0376 3 :ASIFSGVIP 1ad4A 3 :KTKIMGILN T0376 25 :FDALVRKGKELIADGMSAVVY 1ad4A 26 :VESAVTRVKAMMDEGADIIDV T0376 48 :SMGD 1ad4A 49 :VSTR T0376 52 :WPLLTDEQRMEGVERLVK 1ad4A 55 :HEMITVEEELNRVLPVVE T0376 70 :AGIPVIVGTGA 1ad4A 77 :FDVKISVDTFR T0376 87 :VAHAVHAQKVGAKGLMVIPRVLSRGS 1ad4A 88 :SEVAEACLKLGVDIINDQWAGLYDHR T0376 120 :HFKAILSA 1ad4A 114 :MFQVVAKY T0376 130 :EIPAVIYNSPYYGFATR 1ad4A 122 :DAEIVLMHNGNGNRDEP T0376 147 :ADLFFALR 1ad4A 148 :LAQAHQAK T0376 155 :AEHK 1ad4A 157 :AGIP T0376 159 :NLVGFKEFGGPADMRYAAENITSR 1ad4A 163 :KIWLDPGIGFAKTRNEEAEVMARL T0376 185 :EVTLMIGVD 1ad4A 193 :EYPVLLATS T0376 194 :TAVVHGFV 1ad4A 203 :KRFTKEMM T0376 202 :NCGATGAIT 1ad4A 232 :MKGVRAVRV T0376 220 :VIHLCKLSQA 1ad4A 243 :VELNAKLAKG T0376 240 :RALELEQ 1ad4A 253 :IDFLKEN Number of specific fragments extracted= 16 number of extra gaps= 1 total=1215 Number of alignments=76 # 1ad4A read from 1ad4A/merged-good-all-a2m # found chain 1ad4A in template set Warning: unaligning (T0376)T2 because first residue in template chain is (1ad4A)T2 Warning: unaligning (T0376)A12 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1ad4A)N25 Warning: unaligning (T0376)D24 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1ad4A)N25 Warning: unaligning (T0376)C46 because of BadResidue code BAD_PEPTIDE in next template residue (1ad4A)G48 Warning: unaligning (T0376)G47 because of BadResidue code BAD_PEPTIDE at template residue (1ad4A)G48 T0376 3 :ASIFSGVIP 1ad4A 3 :KTKIMGILN T0376 25 :FDALVRKGKELIADGMSAVVY 1ad4A 26 :VESAVTRVKAMMDEGADIIDV T0376 48 :SMGD 1ad4A 49 :VSTR T0376 52 :WPLLTDEQR 1ad4A 55 :HEMITVEEE T0376 61 :MEGVERLVKAGIPVIVGTGA 1ad4A 68 :LPVVEAIVGFDVKISVDTFR T0376 87 :VAHAVHAQKVGAKGLMVIPRVLSRGS 1ad4A 88 :SEVAEACLKLGVDIINDQWAGLYDHR T0376 120 :HFKAILSA 1ad4A 114 :MFQVVAKY T0376 130 :EIPAVIYNSPYYGFATRA 1ad4A 122 :DAEIVLMHNGNGNRDEPV T0376 148 :DLFFALRAE 1ad4A 142 :EMLTSLLAQ T0376 157 :HK 1ad4A 159 :IP T0376 159 :NLVGFKEFGGPADMRYAAENITSR 1ad4A 163 :KIWLDPGIGFAKTRNEEAEVMARL T0376 184 :DEVTLMIGVD 1ad4A 192 :TEYPVLLATS T0376 194 :TAVVHGFVNCGATGAITGI 1ad4A 224 :AATTAYGIMKGVRAVRVHN T0376 220 :VIHLCKLSQA 1ad4A 243 :VELNAKLAKG T0376 237 :ARARAL 1ad4A 253 :IDFLKE T0376 244 :LE 1ad4A 259 :NE Number of specific fragments extracted= 16 number of extra gaps= 1 total=1231 Number of alignments=77 # 1ad4A read from 1ad4A/merged-good-all-a2m # found chain 1ad4A in template set Warning: unaligning (T0376)S4 because first residue in template chain is (1ad4A)T2 Warning: unaligning (T0376)M14 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1ad4A)N25 Warning: unaligning (T0376)D24 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1ad4A)N25 Warning: unaligning (T0376)C46 because of BadResidue code BAD_PEPTIDE in next template residue (1ad4A)G48 Warning: unaligning (T0376)G47 because of BadResidue code BAD_PEPTIDE at template residue (1ad4A)G48 T0376 5 :IFSGVIPAL 1ad4A 3 :KTKIMGILN T0376 25 :FDALVRKGKELIADGMSAVVY 1ad4A 26 :VESAVTRVKAMMDEGADIIDV T0376 48 :S 1ad4A 49 :V T0376 53 :PLLTDEQRME 1ad4A 56 :EMITVEEELN T0376 63 :GVERLVKAGIPVIVGTGA 1ad4A 70 :VVEAIVGFDVKISVDTFR T0376 87 :VAHAVHAQKVGAKGLMVIPRVLSRG 1ad4A 88 :SEVAEACLKLGVDIINDQWAGLYDH T0376 119 :AHFKAILSA 1ad4A 113 :RMFQVVAKY T0376 130 :EIPAVIYNSPYYGFATRADLFFALRA 1ad4A 122 :DAEIVLMHNGNGNRDEPVVEEMLTSL T0376 156 :E 1ad4A 152 :H T0376 157 :HKNLVGFKEFGG 1ad4A 161 :SNKIWLDPGIGF T0376 169 :PADMRYAAENITS 1ad4A 175 :TRNEEAEVMARLD T0376 183 :DDEVTLMIGVD 1ad4A 191 :ATEYPVLLATS T0376 194 :TAVVHGFVNCGATGAITGIG 1ad4A 224 :AATTAYGIMKGVRAVRVHNV T0376 218 :KEVIHL 1ad4A 244 :ELNAKL T0376 235 :ADARARALELEQA 1ad4A 250 :AKGIDFLKENENA Number of specific fragments extracted= 15 number of extra gaps= 1 total=1246 Number of alignments=78 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ub3A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0376 read from 1ub3A/merged-good-all-a2m # 1ub3A read from 1ub3A/merged-good-all-a2m # found chain 1ub3A in training set T0376 12 :ALMTPCRQD 1ub3A 7 :IDHTLLKPT T0376 23 :PDFDALVRKGKELIADGMSAVVYCGSM 1ub3A 16 :ATLEEVAKAAEEALEYGFYGLCIPPSY T0376 64 :VERLVK 1ub3A 43 :VAWVRA T0376 70 :AG 1ub3A 51 :PH T0376 72 :IPVIVGTGAV 1ub3A 55 :FRLVTVVGFP T0376 82 :NTASAVAHAVHAQKVGAKGLMVIPRV 1ub3A 69 :EKEVKALEAALACARGADEVDMVLHL T0376 108 :LSRGSVIAAQKAHFKAILSAAPEIPAVIYNSPYY 1ub3A 96 :RAKAGDLDYLEAEVRAVREAVPQAVLKVILETGY T0376 145 :TRADLFFAL 1ub3A 130 :FSPEEIARL T0376 155 :AEH 1ub3A 139 :AEA T0376 159 :NLVGFKEFGGP 1ub3A 146 :GADFLKTSTGF T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1ub3A 161 :ASLEDVALLVRVAQGRAQVKAAGG T0376 194 :TAVVHGFVNCGATGAIT 1ub3A 188 :RETALRMLKAGASRLGT Number of specific fragments extracted= 12 number of extra gaps= 0 total=1258 Number of alignments=79 # 1ub3A read from 1ub3A/merged-good-all-a2m # found chain 1ub3A in training set T0376 12 :ALMTPCRQD 1ub3A 7 :IDHTLLKPT T0376 23 :PDFDALVRKGKELIADGMSAVVY 1ub3A 16 :ATLEEVAKAAEEALEYGFYGLCI T0376 64 :VERLVK 1ub3A 43 :VAWVRA T0376 70 :AGI 1ub3A 51 :PHA T0376 73 :PVIVGTGAV 1ub3A 56 :RLVTVVGFP T0376 82 :NTASAVAHAVHAQKVGAKGLMVIPRV 1ub3A 69 :EKEVKALEAALACARGADEVDMVLHL T0376 108 :LSRGSVIAAQKAHFKAILSAAPEIPAVIYNSPYY 1ub3A 96 :RAKAGDLDYLEAEVRAVREAVPQAVLKVILETGY T0376 145 :TRADLFFALRAE 1ub3A 130 :FSPEEIARLAEA T0376 159 :NLVGFKEFGGP 1ub3A 146 :GADFLKTSTGF T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1ub3A 161 :ASLEDVALLVRVAQGRAQVKAAGG T0376 194 :TAVVHGFVNCGATGAIT 1ub3A 188 :RETALRMLKAGASRLGT Number of specific fragments extracted= 11 number of extra gaps= 0 total=1269 Number of alignments=80 # 1ub3A read from 1ub3A/merged-good-all-a2m # found chain 1ub3A in training set T0376 14 :MTPCRQD 1ub3A 9 :HTLLKPT T0376 23 :PDFDALVRKGKELIADGMSAVVY 1ub3A 16 :ATLEEVAKAAEEALEYGFYGLCI T0376 64 :VERLVK 1ub3A 43 :VAWVRA T0376 70 :AGIPVIVGTGAV 1ub3A 53 :APFRLVTVVGFP T0376 82 :NTASAVAHAVHAQKVGAKGLMVIPR 1ub3A 69 :EKEVKALEAALACARGADEVDMVLH T0376 110 :RG 1ub3A 99 :AG T0376 113 :VIAAQKAHFKAILSAAPEIPAVIYNSPYYG 1ub3A 101 :DLDYLEAEVRAVREAVPQAVLKVILETGYF T0376 147 :ADLFFALRAE 1ub3A 131 :SPEEIARLAE T0376 159 :NLVGFKEFGG 1ub3A 146 :GADFLKTSTG T0376 169 :PADMRYAAENIT 1ub3A 162 :SLEDVALLVRVA T0376 184 :DEVTLMIGVD 1ub3A 174 :QGRAQVKAAG T0376 194 :TAVVHGFVNCGATGAIT 1ub3A 188 :RETALRMLKAGASRLGT Number of specific fragments extracted= 12 number of extra gaps= 0 total=1281 Number of alignments=81 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1jubA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0376 read from 1jubA/merged-good-all-a2m # 1jubA read from 1jubA/merged-good-all-a2m # found chain 1jubA in training set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1jubA)V192 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1jubA)V192 T0376 10 :IPALMTPCR 1jubA 66 :INSMGLPNL T0376 24 :DFDALVRKGKELIADGM 1jubA 75 :GFDYYLDYVLKNQKENA T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAK 1jubA 92 :QEGPIFFSIAGMSAAENIAMLKKIQESDFS T0376 100 :GLMVIPRVLSRGS 1jubA 123 :ITELNLSCPNVPG T0376 113 :VIAAQKAHFKAILSAA 1jubA 142 :DFEATEKLLKEVFTFF T0376 130 :EIPAVIYNSPYY 1jubA 158 :TKPLGVKLPPYF T0376 143 :F 1jubA 171 :L T0376 145 :TRADLFFALRAEHK 1jubA 172 :VHFDIMAEILNQFP T0376 160 :LVGFK 1jubA 186 :LTYVN T0376 167 :GG 1jubA 193 :NS T0376 169 :PADMRYAAENITSRDDEVTLMIGVD 1jubA 226 :PTALANVRAFYTRLKPEIQIIGTGG T0376 194 :TAVVHGFVNCGATGAITGI 1jubA 254 :GQDAFEHLLCGATMLQIGT T0376 225 :KLSQA 1jubA 273 :ALHKE T0376 233 :GDADARARALELEQALAV 1jubA 278 :GPAIFDRIIKELEEIMNQ T0376 255 :DEG 1jubA 296 :KGY Number of specific fragments extracted= 15 number of extra gaps= 1 total=1296 Number of alignments=82 # 1jubA read from 1jubA/merged-good-all-a2m # found chain 1jubA in training set Warning: unaligning (T0376)F163 because of BadResidue code BAD_PEPTIDE in next template residue (1jubA)V192 T0376 8 :GVIPALMTPCR 1jubA 64 :GSINSMGLPNL T0376 24 :DFDALVRKGKELIADGM 1jubA 75 :GFDYYLDYVLKNQKENA T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGA 1jubA 92 :QEGPIFFSIAGMSAAENIAMLKKIQESDF T0376 99 :KGLMVIPRVLSRGS 1jubA 122 :GITELNLSCPNVPG T0376 113 :VIAAQKAHFKAILSAA 1jubA 142 :DFEATEKLLKEVFTFF T0376 130 :EIPAVIYNSPYY 1jubA 158 :TKPLGVKLPPYF T0376 146 :RADLFFALRAEHK 1jubA 173 :HFDIMAEILNQFP T0376 159 :NLVG 1jubA 187 :TYVN T0376 168 :GPAD 1jubA 211 :KPKD T0376 172 :MRYAAENITSRDDEVTLMIGVD 1jubA 229 :LANVRAFYTRLKPEIQIIGTGG T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1jubA 254 :GQDAFEHLLCGATMLQIGTALHK T0376 217 :PKEVIHLCKLSQA 1jubA 279 :PAIFDRIIKELEE T0376 250 :VLSS 1jubA 292 :IMNQ Number of specific fragments extracted= 13 number of extra gaps= 1 total=1309 Number of alignments=83 # 1jubA read from 1jubA/merged-good-all-a2m # found chain 1jubA in training set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1jubA)V192 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1jubA)V192 T0376 8 :GVIPALMTPCR 1jubA 64 :GSINSMGLPNL T0376 24 :DFDALVRKGKELIADGM 1jubA 75 :GFDYYLDYVLKNQKENA T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAK 1jubA 92 :QEGPIFFSIAGMSAAENIAMLKKIQESDFS T0376 100 :GLMVIPRVLSRG 1jubA 123 :ITELNLSCPNVP T0376 112 :SVIAAQKAHFKAILSA 1jubA 141 :YDFEATEKLLKEVFTF T0376 129 :PEIPAVIYNSPYYG 1jubA 157 :FTKPLGVKLPPYFD T0376 147 :ADLFFALRAE 1jubA 173 :HFDIMAEILN T0376 157 :HK 1jubA 184 :FP T0376 160 :LVGFK 1jubA 186 :LTYVN T0376 167 :G 1jubA 193 :N T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1jubA 226 :PTALANVRAFYTRLKPEIQIIGTG T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1jubA 254 :GQDAFEHLLCGATMLQIGTALHK T0376 217 :PKEVIHLCK 1jubA 279 :PAIFDRIIK T0376 234 :DADARARA 1jubA 288 :ELEEIMNQ Number of specific fragments extracted= 14 number of extra gaps= 1 total=1323 Number of alignments=84 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1f6kA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1f6kA expands to /projects/compbio/data/pdb/1f6k.pdb.gz 1f6kA:Skipped atom 8, because occupancy 0.500 <= existing 0.500 in 1f6kA Skipped atom 10, because occupancy 0.500 <= existing 0.500 in 1f6kA Skipped atom 1087, because occupancy 0.500 <= existing 0.500 in 1f6kA Skipped atom 1338, because occupancy 0.500 <= existing 0.500 in 1f6kA Skipped atom 1340, because occupancy 0.500 <= existing 0.500 in 1f6kA Skipped atom 1342, because occupancy 0.500 <= existing 0.500 in 1f6kA Skipped atom 1344, because occupancy 0.500 <= existing 0.500 in 1f6kA Skipped atom 1346, because occupancy 0.500 <= existing 0.500 in 1f6kA Skipped atom 1348, because occupancy 0.500 <= existing 0.500 in 1f6kA Skipped atom 1350, because occupancy 0.500 <= existing 0.500 in 1f6kA Skipped atom 2143, because occupancy 0.500 <= existing 0.500 in 1f6kA Skipped atom 2145, because occupancy 0.500 <= existing 0.500 in 1f6kA # T0376 read from 1f6kA/merged-good-all-a2m # 1f6kA read from 1f6kA/merged-good-all-a2m # adding 1f6kA to template set # found chain 1f6kA in template set Warning: unaligning (T0376)F280 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1f6kA)P271 Warning: unaligning (T0376)N281 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1f6kA)P271 T0376 1 :MTA 1f6kA 1 :MRD T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIAD 1f6kA 4 :LKGIFSALLVSFNEDGTINEKGLRQIIRHNIDK T0376 39 :GMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1f6kA 38 :KVDGLYVGGSTGENFMLSTEEKKEIFRIAKD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1f6kA 72 :DQIALIAQVGSVNLKEAVELGKYATELGYDCLSAVTPFYYKFS T0376 114 :IAAQKAHFKAILSAA 1f6kA 115 :FPEIKHYYDTIIAET T0376 130 :EIPAVIYNSPYY 1f6kA 130 :GSNMIVYSIPFL T0376 142 :GFATRADLFFAL 1f6kA 143 :GVNMGIEQFGEL T0376 155 :AEHKNLVGFKEFGG 1f6kA 155 :YKNPKVLGVKFTAG T0376 171 :DMRYAAENITSR 1f6kA 169 :DFYLLERLKKAY T0376 184 :DEVTLMIGVDTA 1f6kA 181 :PNHLIWAGFDEM T0376 197 :VHGFVNCGATGAITGIGNVLPKEVIHLCKLSQA 1f6kA 193 :MLPAASLGVDGAIGSTFNVNGVRARQIFELTKA T0376 233 :GD 1f6kA 226 :GK T0376 235 :ADARARALELEQALAVLSSFD 1f6kA 229 :KEALEIQHVTNDLIEGILANG T0376 260 :LVLYFKYMMVLKGDKEYTLH 1f6kA 250 :LYLTIKELLKLEGVDAGYCR T0376 282 :ETDALTDSQRGYVEAQFKLF 1f6kA 272 :MTSKATAEQVAKAKDLKAKF Number of specific fragments extracted= 15 number of extra gaps= 1 total=1338 Number of alignments=85 # 1f6kA read from 1f6kA/merged-good-all-a2m # found chain 1f6kA in template set Warning: unaligning (T0376)A3 because first residue in template chain is (1f6kA)M1 Warning: unaligning (T0376)F280 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1f6kA)P271 Warning: unaligning (T0376)N281 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1f6kA)P271 T0376 4 :SIFSGVIPALMTPCRQDRTPDFDALVRKGKELIAD 1f6kA 2 :RDLKGIFSALLVSFNEDGTINEKGLRQIIRHNIDK T0376 39 :GMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1f6kA 38 :KVDGLYVGGSTGENFMLSTEEKKEIFRIAKD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGSV 1f6kA 72 :DQIALIAQVGSVNLKEAVELGKYATELGYDCLSAVTPFYYKFSF T0376 115 :AAQKAHFKAILSAA 1f6kA 116 :PEIKHYYDTIIAET T0376 130 :EIPAVIYNSPYY 1f6kA 130 :GSNMIVYSIPFL T0376 142 :GFATRADLFFALR 1f6kA 143 :GVNMGIEQFGELY T0376 156 :EHKNLVGFKEFGG 1f6kA 156 :KNPKVLGVKFTAG T0376 171 :DMRYAAENITSRD 1f6kA 169 :DFYLLERLKKAYP T0376 185 :EVTLMIGVDTAV 1f6kA 182 :NHLIWAGFDEMM T0376 198 :HGFVNCGATGAITGIGNVLPKEVIHLCKLSQA 1f6kA 194 :LPAASLGVDGAIGSTFNVNGVRARQIFELTKA T0376 233 :GDAD 1f6kA 226 :GKLK T0376 238 :RARAL 1f6kA 230 :EALEI T0376 244 :LEQALAVLSSFDEGPD 1f6kA 235 :QHVTNDLIEGILANGL T0376 261 :VLYFKYMMVLKGDKEYTLH 1f6kA 251 :YLTIKELLKLEGVDAGYCR T0376 282 :ETDALTDSQRGYVEAQFKLF 1f6kA 272 :MTSKATAEQVAKAKDLKAKF Number of specific fragments extracted= 15 number of extra gaps= 1 total=1353 Number of alignments=86 # 1f6kA read from 1f6kA/merged-good-all-a2m # found chain 1f6kA in template set Warning: unaligning (T0376)K274 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1f6kA)P271 Warning: unaligning (T0376)E275 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1f6kA)P271 T0376 4 :SIFSGVIPALMTPCRQDRTPDFDALVRKGKELIAD 1f6kA 2 :RDLKGIFSALLVSFNEDGTINEKGLRQIIRHNIDK T0376 39 :GMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1f6kA 38 :KVDGLYVGGSTGENFMLSTEEKKEIFRIAKD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1f6kA 72 :DQIALIAQVGSVNLKEAVELGKYATELGYDCLSAVTPFYYKF T0376 113 :VIAAQKAHFKAILSA 1f6kA 114 :SFPEIKHYYDTIIAE T0376 129 :PEIPAVIYNSPYYGFATRADLFFALRAEHKNLVGFKEFGGPADMRYAAENIT 1f6kA 129 :TGSNMIVYSIPFLTGVNMGIEQFGELYKNPKVLGVKFTAGDFYLLERLKKAY T0376 185 :EVTLMIGVDTAVVHGFVNCGATGAITGIGNVLPKEVIHLCKLSQAAAKGDADARARALELEQALAVLSSFDEGPDLVLYFKYMMVLKGD 1f6kA 181 :PNHLIWAGFDEMMLPAASLGVDGAIGSTFNVNGVRARQIFELTKAGKLKEALEIQHVTNDLIEGILANGLYLTIKELLKLEGVDAGYCR T0376 276 :YT 1f6kA 272 :MT T0376 278 :LHFNETDALTDSQRGY 1f6kA 275 :KATAEQVAKAKDLKAK Number of specific fragments extracted= 8 number of extra gaps= 1 total=1361 Number of alignments=87 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1nal1/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1nal1 expands to /projects/compbio/data/pdb/1nal.pdb.gz 1nal1:# T0376 read from 1nal1/merged-good-all-a2m # 1nal1 read from 1nal1/merged-good-all-a2m # adding 1nal1 to template set # found chain 1nal1 in template set Warning: unaligning (T0376)S4 because first residue in template chain is (1nal1)N4 Warning: unaligning (T0376)A70 because of BadResidue code BAD_PEPTIDE at template residue (1nal1)G72 Warning: unaligning (T0376)F280 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1nal1)P273 Warning: unaligning (T0376)N281 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1nal1)P273 Warning: unaligning (T0376)N302 because of BadResidue code BAD_PEPTIDE in next template residue (1nal1)Q294 Warning: unaligning (T0376)S303 because of BadResidue code BAD_PEPTIDE at template residue (1nal1)Q294 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1nal1 5 :LRGVMAALLTPFDQQQALDKASLRRLVQFNIQQGIDGLYVGGSTGEAFVQSLSEREQVLEIVAE T0376 71 :GIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1nal1 73 :KIKLIAHVGCVTTAESQQLAASAKRYGFDAVSAVTPFYYPFS T0376 114 :IAAQKAHFKAILSAAPEIPAVIYNSPYY 1nal1 115 :FEEHCDHYRAIIDSADGLPMVVYNIPAL T0376 142 :GFATRADLFFAL 1nal1 144 :GVKLTLDQINTL T0376 155 :AEHKNLVGFKEFGG 1nal1 156 :VTLPGVGALKQTSG T0376 171 :DMRYAAENITSR 1nal1 170 :DLYQMEQIRREH T0376 184 :DEVTLMIGVDTAVVHGF 1nal1 182 :PDLVLYNGYDEIFASGL T0376 202 :NCGATGAITGIGNVLPKEVIHLCKLSQA 1nal1 199 :LAGADGGIGSTYNIMGWRYQGIVKALKE T0376 233 :GD 1nal1 227 :GD T0376 235 :ADARARALELEQALAVLSSFD 1nal1 230 :QTAQKLQTECNKVIDLLIKTG T0376 260 :LVLYFKYMMVLKGDKE 1nal1 251 :VFRGLKTVLHYMDVVS T0376 276 :YTLH 1nal1 268 :PLCR T0376 282 :ETD 1nal1 274 :FGP T0376 286 :LTDSQRGYVEAQFKLF 1nal1 277 :VDEKYQPELKALAQQL Number of specific fragments extracted= 14 number of extra gaps= 3 total=1375 Number of alignments=88 # 1nal1 read from 1nal1/merged-good-all-a2m # found chain 1nal1 in template set Warning: unaligning (T0376)I5 because first residue in template chain is (1nal1)N4 Warning: unaligning (T0376)A70 because of BadResidue code BAD_PEPTIDE at template residue (1nal1)G72 Warning: unaligning (T0376)F280 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1nal1)P273 Warning: unaligning (T0376)N281 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1nal1)P273 Warning: unaligning (T0376)N302 because of BadResidue code BAD_PEPTIDE in next template residue (1nal1)Q294 Warning: unaligning (T0376)S303 because of BadResidue code BAD_PEPTIDE at template residue (1nal1)Q294 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1nal1 5 :LRGVMAALLTPFDQQQALDKASLRRLVQFNIQQGIDGLYVGGSTGEAFVQSLSEREQVLEIVAE T0376 71 :GIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGSV 1nal1 73 :KIKLIAHVGCVTTAESQQLAASAKRYGFDAVSAVTPFYYPFSF T0376 115 :AAQKAHFKAILSAAPEIPAVIYNSPYY 1nal1 116 :EEHCDHYRAIIDSADGLPMVVYNIPAL T0376 142 :GFATRADLFFAL 1nal1 144 :GVKLTLDQINTL T0376 155 :AEHKNLVGFKEFGG 1nal1 156 :VTLPGVGALKQTSG T0376 171 :DMRYAAENITSRD 1nal1 170 :DLYQMEQIRREHP T0376 185 :EVTLMIGVDTAV 1nal1 183 :DLVLYNGYDEIF T0376 198 :HGFVNCGATGAITGIGNVLPKEVIHLCKLSQA 1nal1 195 :ASGLLAGADGGIGSTYNIMGWRYQGIVKALKE T0376 233 :GDAD 1nal1 227 :GDIQ T0376 238 :RARAL 1nal1 231 :TAQKL T0376 244 :LEQALAVLSSFDEGPD 1nal1 236 :QTECNKVIDLLIKTGV T0376 261 :VLYFKYMMVLKGDK 1nal1 252 :FRGLKTVLHYMDVV T0376 275 :EYTLH 1nal1 267 :VPLCR T0376 282 :ET 1nal1 274 :FG T0376 285 :ALTDSQRGYVEAQFKLF 1nal1 276 :PVDEKYQPELKALAQQL Number of specific fragments extracted= 15 number of extra gaps= 3 total=1390 Number of alignments=89 # 1nal1 read from 1nal1/merged-good-all-a2m # found chain 1nal1 in template set Warning: unaligning (T0376)I5 because first residue in template chain is (1nal1)N4 Warning: unaligning (T0376)A70 because of BadResidue code BAD_PEPTIDE at template residue (1nal1)G72 Warning: unaligning (T0376)K274 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1nal1)P273 Warning: unaligning (T0376)E275 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1nal1)P273 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1nal1 5 :LRGVMAALLTPFDQQQALDKASLRRLVQFNIQQGIDGLYVGGSTGEAFVQSLSEREQVLEIVAE T0376 71 :GIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1nal1 73 :KIKLIAHVGCVTTAESQQLAASAKRYGFDAVSAVTPFYYPF T0376 113 :VIAAQKAHFKAILSAAPEIPAVIYNSPYYGFATRADLFFALRAEHKNLVGFKEFGGPADMRYAAENIT 1nal1 114 :SFEEHCDHYRAIIDSADGLPMVVYNIPALSGVKLTLDQINTLVTLPGVGALKQTSGDLYQMEQIRREH T0376 185 :EVTLMIGVDTAVVHGFVNCGATGAITGIGNVLPKEVIHLCKLSQAAAKGDADARARALELEQALAVLSSFDEGPDLVLYFKYMM 1nal1 182 :PDLVLYNGYDEIFASGLLAGADGGIGSTYNIMGWRYQGIVKALKEGDIQTAQKLQTECNKVIDLLIKTGVFRGLKTVLHYMDVV T0376 269 :VLKGD 1nal1 267 :VPLCR T0376 276 :YTLHFNETDALTDSQRGYV 1nal1 274 :FGPVDEKYQPELKALAQQL Number of specific fragments extracted= 6 number of extra gaps= 2 total=1396 Number of alignments=90 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1nal3/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1nal3 expands to /projects/compbio/data/pdb/1nal.pdb.gz 1nal3:# T0376 read from 1nal3/merged-good-all-a2m # 1nal3 read from 1nal3/merged-good-all-a2m # adding 1nal3 to template set # found chain 1nal3 in template set Warning: unaligning (T0376)S4 because first residue in template chain is (1nal3)N4 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1nal3 5 :LRGVMAALLTPFDQQQALDKASLRRLVQFNIQQGIDGLYVGGSTGEAFVQSLSEREQVLEIVAE T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1nal3 72 :GKIKLIAHVGCVTTAESQQLAASAKRYGFDAVSAVTPFYYPFS T0376 114 :IAAQKAHFKAILSAAPEIPAVIYNSPYY 1nal3 115 :FEEHCDHYRAIIDSADGLPMVVYNIPAL T0376 142 :GFATRADLFFAL 1nal3 144 :GVKLTLDQINTL T0376 155 :AEHKNLVGFKEFGG 1nal3 156 :VTLPGVGALKQTSG T0376 171 :DMRYAAENITSR 1nal3 170 :DLYQMEQIRREH T0376 184 :DEVTLMIGVDTAVVHGF 1nal3 182 :PDLVLYNGYDEIFASGL T0376 202 :NCGATGAITGIGNVLPKEVIHLCKLSQA 1nal3 199 :LAGADGGIGSTYNIMGWRYQGIVKALKE T0376 233 :GD 1nal3 227 :GD T0376 235 :ADARARALELEQALAVLSSFD 1nal3 230 :QTAQKLQTECNKVIDLLIKTG T0376 260 :LVLYFKYMMVLKGDKE 1nal3 251 :VFRGLKTVLHYMDVVS T0376 276 :YTLHFNETD 1nal3 268 :PLCRKPFGP T0376 286 :LTDSQRGYVEAQFKLFN 1nal3 277 :VDEKYQPELKALAQQLM Number of specific fragments extracted= 13 number of extra gaps= 0 total=1409 Number of alignments=91 # 1nal3 read from 1nal3/merged-good-all-a2m # found chain 1nal3 in template set Warning: unaligning (T0376)I5 because first residue in template chain is (1nal3)N4 Warning: unaligning (T0376)S303 because last residue in template chain is (1nal3)Q294 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1nal3 5 :LRGVMAALLTPFDQQQALDKASLRRLVQFNIQQGIDGLYVGGSTGEAFVQSLSEREQVLEIVAE T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGSV 1nal3 72 :GKIKLIAHVGCVTTAESQQLAASAKRYGFDAVSAVTPFYYPFSF T0376 115 :AAQKAHFKAILSAAPEIPAVIYNSPYY 1nal3 116 :EEHCDHYRAIIDSADGLPMVVYNIPAL T0376 142 :GFATRADLFFAL 1nal3 144 :GVKLTLDQINTL T0376 155 :AEHKNLVGFKEFGG 1nal3 156 :VTLPGVGALKQTSG T0376 171 :DMRYAAENITSRD 1nal3 170 :DLYQMEQIRREHP T0376 185 :EVTLMIGVDTAV 1nal3 183 :DLVLYNGYDEIF T0376 198 :HGFVNCGATGAITGIGNVLPKEVIHLCKLSQA 1nal3 195 :ASGLLAGADGGIGSTYNIMGWRYQGIVKALKE T0376 233 :GDAD 1nal3 227 :GDIQ T0376 238 :RARAL 1nal3 231 :TAQKL T0376 244 :LEQALAVLSSFDEGPD 1nal3 236 :QTECNKVIDLLIKTGV T0376 261 :VLYFKYMMVLKGDK 1nal3 252 :FRGLKTVLHYMDVV T0376 275 :EYTLHFNET 1nal3 267 :VPLCRKPFG T0376 285 :ALTDSQRGYVEAQFKLFN 1nal3 276 :PVDEKYQPELKALAQQLM Number of specific fragments extracted= 14 number of extra gaps= 0 total=1423 Number of alignments=92 # 1nal3 read from 1nal3/merged-good-all-a2m # found chain 1nal3 in template set Warning: unaligning (T0376)I5 because first residue in template chain is (1nal3)N4 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1nal3 5 :LRGVMAALLTPFDQQQALDKASLRRLVQFNIQQGIDGLYVGGSTGEAFVQSLSEREQVLEIVAE T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1nal3 72 :GKIKLIAHVGCVTTAESQQLAASAKRYGFDAVSAVTPFYYPF T0376 113 :VIAAQKAHFKAILSAAPEIPAVIYNSPYYGFATRADLFFALRAEHKNLVGFKEFGGPADMRYAAENIT 1nal3 114 :SFEEHCDHYRAIIDSADGLPMVVYNIPALSGVKLTLDQINTLVTLPGVGALKQTSGDLYQMEQIRREH T0376 185 :EVTLMIGVDTAVVHGFVNCGATGAITGIGNVLPKEVIHLCKLSQAAAKGDADARARALELEQALAVLSSFDEGPDLVLYFKYMM 1nal3 182 :PDLVLYNGYDEIFASGLLAGADGGIGSTYNIMGWRYQGIVKALKEGDIQTAQKLQTECNKVIDLLIKTGVFRGLKTVLHYMDVV T0376 269 :VLKGDKEYTLHFNETDALTDSQRGY 1nal3 267 :VPLCRKPFGPVDEKYQPELKALAQQ Number of specific fragments extracted= 5 number of extra gaps= 0 total=1428 Number of alignments=93 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1n7kA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1n7kA expands to /projects/compbio/data/pdb/1n7k.pdb.gz 1n7kA:# T0376 read from 1n7kA/merged-good-all-a2m # 1n7kA read from 1n7kA/merged-good-all-a2m # adding 1n7kA to template set # found chain 1n7kA in template set T0376 12 :ALMTPCRQD 1n7kA 25 :IDSTLLSPR T0376 23 :PDFDALVRKGKELIADGMSAVVY 1n7kA 34 :ATEEDVRNLVREASDYGFRCAVL T0376 56 :TDEQRMEGVERLVKAGIPVIVGTGAV 1n7kA 57 :TPVYTVKISGLAEKLGVKLCSVIGFP T0376 82 :NTASAVAHAVHAQKVGAKGLMVIPRVLS 1n7kA 87 :PLEVKLVEAQTVLEAGATELDVVPHLSL T0376 112 :S 1n7kA 115 :G T0376 114 :IAAQKAHFKAILSAA 1n7kA 116 :PEAVYREVSGIVKLA T0376 129 :PEIPAVIYNSPYY 1n7kA 133 :YGAVVKVILEAPL T0376 145 :TRADLFFALRAEH 1n7kA 146 :WDDKTLSLLVDSS T0376 159 :NLVGFKEFGGPA 1n7kA 162 :GADIVKTSTGVY T0376 171 :DMRYAAENITSRDD 1n7kA 178 :DPVTVFRLASLAKP T0376 185 :EVTLMIGVD 1n7kA 193 :GMGVKASGG T0376 194 :TAVVHGFVNCGATGAIT 1n7kA 205 :GIDAVLAVGAGADIIGT T0376 220 :VIHLCKLSQ 1n7kA 224 :AVKVLESFK Number of specific fragments extracted= 13 number of extra gaps= 0 total=1441 Number of alignments=94 # 1n7kA read from 1n7kA/merged-good-all-a2m # found chain 1n7kA in template set T0376 12 :ALMTPCRQD 1n7kA 25 :IDSTLLSPR T0376 23 :PDFDALVRKGKELIADGMSAVVY 1n7kA 34 :ATEEDVRNLVREASDYGFRCAVL T0376 56 :TDEQRMEGVERLVKAGIPVIVGTGAV 1n7kA 57 :TPVYTVKISGLAEKLGVKLCSVIGFP T0376 82 :NTASAVAHAVHAQKVGAKGLMVIPRVLSR 1n7kA 87 :PLEVKLVEAQTVLEAGATELDVVPHLSLG T0376 114 :IAAQKAHFKAILSAA 1n7kA 116 :PEAVYREVSGIVKLA T0376 129 :PEIPAVIYNSPYY 1n7kA 133 :YGAVVKVILEAPL T0376 145 :TRADLFFALRAE 1n7kA 146 :WDDKTLSLLVDS T0376 159 :NLVGFKEFGGPA 1n7kA 162 :GADIVKTSTGVY T0376 171 :DMRYAAENITSRDD 1n7kA 178 :DPVTVFRLASLAKP T0376 185 :EVTLMIGVD 1n7kA 193 :GMGVKASGG T0376 194 :TAVVHGFVNCGATGAIT 1n7kA 205 :GIDAVLAVGAGADIIGT T0376 220 :VIHLCKLSQ 1n7kA 224 :AVKVLESFK Number of specific fragments extracted= 12 number of extra gaps= 0 total=1453 Number of alignments=95 # 1n7kA read from 1n7kA/merged-good-all-a2m # found chain 1n7kA in template set T0376 9 :VIP 1n7kA 25 :IDS T0376 15 :TPCRQD 1n7kA 28 :TLLSPR T0376 23 :PDFDALVRKGKELIADGMSAVVY 1n7kA 34 :ATEEDVRNLVREASDYGFRCAVL T0376 56 :TDEQRMEGVERLVKAGIPVIVGTGAV 1n7kA 57 :TPVYTVKISGLAEKLGVKLCSVIGFP T0376 82 :NTASAVAHAVHAQKVGAKGLMVIPRVLS 1n7kA 87 :PLEVKLVEAQTVLEAGATELDVVPHLSL T0376 113 :VIAAQKAHFKAILSAA 1n7kA 115 :GPEAVYREVSGIVKLA T0376 129 :PEIPAVIYNSPYYG 1n7kA 133 :YGAVVKVILEAPLW T0376 147 :ADLFFALRAE 1n7kA 147 :DDKTLSLLVD T0376 157 :HKNLVGFKEFGG 1n7kA 160 :RAGADIVKTSTG T0376 169 :PADMRYAAENITSRDDEVTLMIGVD 1n7kA 178 :DPVTVFRLASLAKPLGMGVKASGGI T0376 194 :TAVVHGFVNCGATGAITG 1n7kA 205 :GIDAVLAVGAGADIIGTS T0376 219 :EVIHLCKLSQ 1n7kA 223 :SAVKVLESFK Number of specific fragments extracted= 12 number of extra gaps= 0 total=1465 Number of alignments=96 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1p0kA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1p0kA expands to /projects/compbio/data/pdb/1p0k.pdb.gz 1p0kA:# T0376 read from 1p0kA/merged-good-all-a2m # 1p0kA read from 1p0kA/merged-good-all-a2m # adding 1p0kA to template set # found chain 1p0kA in template set Warning: unaligning (T0376)G111 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1p0kA)F163 Warning: unaligning (T0376)G167 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1p0kA)R226 T0376 9 :VIPALMTPCR 1p0kA 57 :PIFINAMTGG T0376 21 :R 1p0kA 67 :G T0376 25 :FDALVRKGKELIADGMSAV 1p0kA 72 :YEINKSLARAASQAGIPLA T0376 46 :CGS 1p0kA 91 :VGS T0376 50 :GDWPLLTDEQRM 1p0kA 94 :QMSALKDPSERL T0376 63 :GVERLVK 1p0kA 106 :SYEIVRK T0376 70 :AGIPVIVGTGAVNTA 1p0kA 115 :PNGLIFANLGSEATA T0376 88 :AHAVHAQKV 1p0kA 130 :AQAKEAVEM T0376 97 :GAKGLMVIPRVLSR 1p0kA 140 :GANALQIHLNVIQE T0376 117 :QKAHFKAILSAA 1p0kA 166 :ALKRIEQICSRV T0376 130 :EIPAVIYN 1p0kA 178 :SVPVIVKE T0376 141 :YGFATRADLFFALRAE 1p0kA 186 :VGFGMSKASAGKLYEA T0376 159 :NLVGFKEF 1p0kA 202 :GAAAVDIG T0376 170 :AD 1p0kA 228 :IS T0376 172 :MRYAAENITSR 1p0kA 239 :AASLAEIRSEF T0376 184 :DEVTLMIGVD 1p0kA 250 :PASTMIASGG T0376 194 :TAVVHGFVNCGATGAIT 1p0kA 263 :ALDVAKAIALGASCTGM T0376 217 :PKE 1p0kA 280 :AGH T0376 223 :LCKLSQA 1p0kA 283 :FLKALTD T0376 233 :GD 1p0kA 290 :SG T0376 235 :ADARARALELEQAL 1p0kA 293 :EGLLEEIQLILEEL T0376 265 :KYMMVLKGDKE 1p0kA 307 :KLIMTVLGART T0376 278 :LHFNET 1p0kA 322 :QKAPLV T0376 286 :LTDSQRGYVEA 1p0kA 328 :IKGETHHWLTE Number of specific fragments extracted= 24 number of extra gaps= 0 total=1489 Number of alignments=97 # 1p0kA read from 1p0kA/merged-good-all-a2m # found chain 1p0kA in template set Warning: unaligning (T0376)G111 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1p0kA)F163 Warning: unaligning (T0376)E165 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1p0kA)R226 T0376 11 :PALMTPCRQDR 1p0kA 57 :PIFINAMTGGG T0376 25 :FDALVRKGKELIADGMSAV 1p0kA 72 :YEINKSLARAASQAGIPLA T0376 46 :C 1p0kA 91 :V T0376 50 :GDWPLL 1p0kA 92 :GSQMSA T0376 56 :TDEQRME 1p0kA 100 :DPSERLS T0376 64 :VERLVK 1p0kA 107 :YEIVRK T0376 70 :AGIPVIVGTGAVN 1p0kA 115 :PNGLIFANLGSEA T0376 89 :HAVHAQKV 1p0kA 131 :QAKEAVEM T0376 97 :GAKGLMVIPRVLSR 1p0kA 140 :GANALQIHLNVIQE T0376 117 :QKAHFKAILSAA 1p0kA 166 :ALKRIEQICSRV T0376 130 :EIPAVIYN 1p0kA 178 :SVPVIVKE T0376 141 :YGFATRADLFFALRAEHKNLVGFK 1p0kA 186 :VGFGMSKASAGKLYEAGAAAVDIG T0376 169 :PAD 1p0kA 227 :QIS T0376 172 :MRYAAENITSRDDEVTLMIG 1p0kA 239 :AASLAEIRSEFPASTMIASG T0376 194 :TAVVHGFVNCGATGAITG 1p0kA 263 :ALDVAKAIALGASCTGMA T0376 221 :IHLCKLSQA 1p0kA 281 :GHFLKALTD T0376 242 :LELEQALAVLSSF 1p0kA 290 :SGEEGLLEEIQLI T0376 261 :VLYFKYMMVLKGDK 1p0kA 303 :LEELKLIMTVLGAR T0376 275 :EYTLHFNET 1p0kA 319 :ADLQKAPLV T0376 286 :LTDSQRGYVEA 1p0kA 328 :IKGETHHWLTE Number of specific fragments extracted= 20 number of extra gaps= 0 total=1509 Number of alignments=98 # 1p0kA read from 1p0kA/merged-good-all-a2m # found chain 1p0kA in template set Warning: unaligning (T0376)G111 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1p0kA)F163 Warning: unaligning (T0376)I114 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1p0kA)F163 Warning: unaligning (T0376)G167 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1p0kA)R226 T0376 9 :VIPALMTP 1p0kA 58 :IFINAMTG T0376 20 :D 1p0kA 66 :G T0376 25 :FDALVRKGKELIADGMSA 1p0kA 72 :YEINKSLARAASQAGIPL T0376 45 :YCGSMG 1p0kA 90 :AVGSQM T0376 52 :WPLLTDEQRME 1p0kA 96 :SALKDPSERLS T0376 64 :VERLVK 1p0kA 107 :YEIVRK T0376 70 :AGIPVIVGTGAVNTAS 1p0kA 115 :PNGLIFANLGSEATAA T0376 89 :HAVHAQKV 1p0kA 131 :QAKEAVEM T0376 97 :GAKGLMVIPRVLSR 1p0kA 140 :GANALQIHLNVIQE T0376 115 :AAQKAHFKAILSA 1p0kA 164 :SGALKRIEQICSR T0376 129 :PEIPAVIYNS 1p0kA 177 :VSVPVIVKEV T0376 143 :FATRADLFFALRAE 1p0kA 187 :GFGMSKASAGKLYE T0376 159 :NLVGFKEF 1p0kA 202 :GAAAVDIG T0376 170 :ADMRYAAENIT 1p0kA 239 :AASLAEIRSEF T0376 184 :DEVTLMIGVD 1p0kA 250 :PASTMIASGG T0376 194 :TAVVHGFVNCGATGAITG 1p0kA 263 :ALDVAKAIALGASCTGMA T0376 221 :IHLCKLSQAAAKGDADARARALELEQALAVLSS 1p0kA 281 :GHFLKALTDSGEEGLLEEIQLILEELKLIMTVL T0376 261 :VLYFKYMM 1p0kA 318 :IADLQKAP T0376 280 :FNETDALTDS 1p0kA 329 :KGETHHWLTE Number of specific fragments extracted= 19 number of extra gaps= 0 total=1528 Number of alignments=99 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1hl2A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0376 read from 1hl2A/merged-good-all-a2m # 1hl2A read from 1hl2A/merged-good-all-a2m # found chain 1hl2A in training set Warning: unaligning (T0376)S4 because first residue in template chain is (1hl2A)T3 T0376 5 :IFSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1hl2A 4 :NLRGVMAALLTPFDQQQALDKASLRRLVQFNIQQGIDGLYVGGSTGEAFVQSLSEREQVLEIVAE T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1hl2A 72 :GKIKLIAHVGCVSTAESQQLAASAKRYGFDAVSAVTPFYYPFS T0376 114 :IAAQKAHFKAILSAAPEIPAVIYNSPYY 1hl2A 115 :FEEHCDHYRAIIDSADGLPMVVYNIPAR T0376 142 :GFATRADLFFAL 1hl2A 144 :GVKLTLDQINTL T0376 155 :AEHKNLVGFKEFGG 1hl2A 156 :VTLPGVGALKQTSG T0376 171 :DMRYAAENITSR 1hl2A 170 :DLYQMEQIRREH T0376 184 :DEVTLMIGVDTAVVHGF 1hl2A 182 :PDLVLYNGYDEIFASGL T0376 202 :NCGATGAITGIGNVLPKEVIHLCKLSQA 1hl2A 199 :LAGADGGIGSTYNIMGWRYQGIVKALKE T0376 233 :GD 1hl2A 227 :GD T0376 235 :ADARARALELEQALAVLSSFD 1hl2A 230 :QTAQKLQTECNKVIDLLIKTG T0376 260 :LVLYFKYMMVLKGDKE 1hl2A 251 :VFRGLKTVLHYMDVVS T0376 276 :YTLHFNETD 1hl2A 268 :PLCRKPFGP T0376 286 :LTDSQRGYVEAQFKLFNSW 1hl2A 277 :VDEKYLPELKALAQQLMQE Number of specific fragments extracted= 13 number of extra gaps= 0 total=1541 Number of alignments=100 # 1hl2A read from 1hl2A/merged-good-all-a2m # found chain 1hl2A in training set Warning: unaligning (T0376)S4 because first residue in template chain is (1hl2A)T3 T0376 5 :IFSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1hl2A 4 :NLRGVMAALLTPFDQQQALDKASLRRLVQFNIQQGIDGLYVGGSTGEAFVQSLSEREQVLEIVAE T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGSV 1hl2A 72 :GKIKLIAHVGCVSTAESQQLAASAKRYGFDAVSAVTPFYYPFSF T0376 115 :AAQKAHFKAILSAAPEIPAVIYNSPYY 1hl2A 116 :EEHCDHYRAIIDSADGLPMVVYNIPAR T0376 142 :GFATRADLFFAL 1hl2A 144 :GVKLTLDQINTL T0376 155 :AEHKNLVGFKEFGG 1hl2A 156 :VTLPGVGALKQTSG T0376 171 :DMRYAAENITSRD 1hl2A 170 :DLYQMEQIRREHP T0376 185 :EVTLMIGVDTAV 1hl2A 183 :DLVLYNGYDEIF T0376 198 :HGFVNCGATGAITGIGNVLPKEVIHLCKLSQA 1hl2A 195 :ASGLLAGADGGIGSTYNIMGWRYQGIVKALKE T0376 233 :GDAD 1hl2A 227 :GDIQ T0376 238 :RARAL 1hl2A 231 :TAQKL T0376 244 :LEQALAVLSSFDEGPD 1hl2A 236 :QTECNKVIDLLIKTGV T0376 261 :VLYFKYMMVLKGDK 1hl2A 252 :FRGLKTVLHYMDVV T0376 275 :EYTLHFNET 1hl2A 267 :VPLCRKPFG T0376 285 :ALTDSQRGYVEAQFKLFNSW 1hl2A 276 :PVDEKYLPELKALAQQLMQE Number of specific fragments extracted= 14 number of extra gaps= 0 total=1555 Number of alignments=101 # 1hl2A read from 1hl2A/merged-good-all-a2m # found chain 1hl2A in training set Warning: unaligning (T0376)S4 because first residue in template chain is (1hl2A)T3 T0376 5 :IFSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1hl2A 4 :NLRGVMAALLTPFDQQQALDKASLRRLVQFNIQQGIDGLYVGGSTGEAFVQSLSEREQVLEIVAE T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1hl2A 72 :GKIKLIAHVGCVSTAESQQLAASAKRYGFDAVSAVTPFYYPF T0376 113 :VIAAQKAHFKAILSAAPEIPAVIYNSPYYGFATRADLFFALRAEHKNLVGFKEFGGPADMRYAAENIT 1hl2A 114 :SFEEHCDHYRAIIDSADGLPMVVYNIPARSGVKLTLDQINTLVTLPGVGALKQTSGDLYQMEQIRREH T0376 185 :EVTLMIGVDTAVVHGFVNCGATGAITGIGNVLPKEVIHLCKLSQAAAKGDADARARALELEQALAVLSSFDEGPDLVLYFKYMM 1hl2A 182 :PDLVLYNGYDEIFASGLLAGADGGIGSTYNIMGWRYQGIVKALKEGDIQTAQKLQTECNKVIDLLIKTGVFRGLKTVLHYMDVV T0376 269 :VLKGDKEYTLHFNETDALTDSQRGYVEA 1hl2A 267 :VPLCRKPFGPVDEKYLPELKALAQQLMQ Number of specific fragments extracted= 5 number of extra gaps= 0 total=1560 Number of alignments=102 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1h7wA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1h7wA expands to /projects/compbio/data/pdb/1h7w.pdb.gz 1h7wA:# T0376 read from 1h7wA/merged-good-all-a2m # 1h7wA read from 1h7wA/merged-good-all-a2m # adding 1h7wA to template set # found chain 1h7wA in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1h7wA)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1h7wA)T735 T0376 6 :FSG 1h7wA 542 :FIN T0376 9 :VIPALMTPCR 1h7wA 546 :FGLASAAPTT T0376 24 :DFDA 1h7wA 556 :SSSM T0376 32 :GKELIADGMSAVVYC 1h7wA 560 :IRRAFEAGWGFALTK T0376 47 :GSM 1h7wA 593 :GTT T0376 50 :GDW 1h7wA 601 :GPG T0376 56 :TDEQRMEGVERLVK 1h7wA 617 :TAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1h7wA 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1h7wA 645 :YNKNDWMELSRKAEASGADALELNLSCPHGMG T0376 113 :VIAAQKAHFKAILSAA 1h7wA 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1h7wA 703 :QIPFFAKLTPNV T0376 145 :T 1h7wA 716 :D T0376 147 :ADLFFALRAE 1h7wA 718 :VSIARAAKEG T0376 159 :NLVGFK 1h7wA 728 :GADGVT T0376 167 :GG 1h7wA 736 :NT T0376 171 :DMRYAAENITSR 1h7wA 774 :ALRAVTTIARAL T0376 184 :DEVTLMIGVD 1h7wA 786 :PGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1h7wA 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1h7wA 819 :VQN T0376 233 :GD 1h7wA 822 :QD T0376 246 :QALAV 1h7wA 825 :TVIQD T0376 260 :LVLYFKYMMVLKGDKE 1h7wA 830 :YCTGLKALLYLKSIEE T0376 276 :Y 1h7wA 848 :G T0376 280 :FNETD 1h7wA 865 :VPRIA T0376 289 :SQRGYVEAQFKLFNSW 1h7wA 881 :PYLEQRKKIIAEEKMR Number of specific fragments extracted= 25 number of extra gaps= 1 total=1585 Number of alignments=103 # 1h7wA read from 1h7wA/merged-good-all-a2m # found chain 1h7wA in template set Warning: unaligning (T0376)G162 because of BadResidue code BAD_PEPTIDE in next template residue (1h7wA)T735 Warning: unaligning (T0376)F163 because of BadResidue code BAD_PEPTIDE at template residue (1h7wA)T735 T0376 6 :FSGVIPALMTPC 1h7wA 542 :FINPFGLASAAP T0376 18 :R 1h7wA 555 :T T0376 24 :DFDALVR 1h7wA 556 :SSSMIRR T0376 35 :LIADGMSAVVY 1h7wA 563 :AFEAGWGFALT T0376 47 :GSM 1h7wA 593 :GTT T0376 52 :WPLLTDEQRMEGVERLVK 1h7wA 613 :ISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1h7wA 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1h7wA 645 :YNKNDWMELSRKAEASGADALELNLSCPHGMG T0376 113 :VIAAQKAHFKAILSAA 1h7wA 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1h7wA 703 :QIPFFAKLTPNV T0376 142 :G 1h7wA 716 :D T0376 147 :ADLFFALRA 1h7wA 718 :VSIARAAKE T0376 156 :EHKNLV 1h7wA 728 :GADGVT T0376 172 :MRYAAENITSRD 1h7wA 775 :LRAVTTIARALP T0376 185 :EVTLMIGVD 1h7wA 787 :GFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1h7wA 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1h7wA 819 :VQN T0376 233 :GDADA 1h7wA 822 :QDFTV T0376 239 :ARAL 1h7wA 827 :IQDY T0376 261 :VLYFKYMMVLKGDK 1h7wA 831 :CTGLKALLYLKSIE T0376 275 :EY 1h7wA 847 :QG T0376 278 :LHFNET 1h7wA 874 :KKLPNF T0376 288 :DSQRGYVEAQFKLFNS 1h7wA 880 :GPYLEQRKKIIAEEKM Number of specific fragments extracted= 23 number of extra gaps= 1 total=1608 Number of alignments=104 # 1h7wA read from 1h7wA/merged-good-all-a2m # found chain 1h7wA in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1h7wA)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1h7wA)T735 T0376 30 :RKGKELIADGMSA 1h7wA 558 :SMIRRAFEAGWGF T0376 44 :VYCGSMG 1h7wA 571 :ALTKTFS T0376 52 :WPLLTDEQRMEGVERLVK 1h7wA 613 :ISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1h7wA 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1h7wA 645 :YNKNDWMELSRKAEASGADALELNLSCPHGM T0376 113 :VIAAQKAHFKAILSA 1h7wA 687 :DPELVRNICRWVRQA T0376 129 :PEIPAVIYNSPYYG 1h7wA 702 :VQIPFFAKLTPNVT T0376 147 :ADLFFALRAEHKNLVGFK 1h7wA 716 :DIVSIARAAKEGGADGVT T0376 167 :GG 1h7wA 736 :NT T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1h7wA 772 :PIALRAVTTIARALPGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1h7wA 799 :AESGLQFLHSGASVLQVCSAVQN T0376 248 :LAVLSSFDEGPDLVLYFKYMM 1h7wA 824 :FTVIQDYCTGLKALLYLKSIE T0376 269 :VLKGDKEYT 1h7wA 849 :WDGQSPGTE T0376 278 :LHFNETDALTDSQR 1h7wA 877 :PNFGPYLEQRKKII T0376 298 :FKLFNSWYA 1h7wA 891 :AEEKMRLKE Number of specific fragments extracted= 15 number of extra gaps= 1 total=1623 Number of alignments=105 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1h7wB/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1h7wB expands to /projects/compbio/data/pdb/1h7w.pdb.gz 1h7wB:# T0376 read from 1h7wB/merged-good-all-a2m # 1h7wB read from 1h7wB/merged-good-all-a2m # adding 1h7wB to template set # found chain 1h7wB in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1h7wB)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1h7wB)T735 T0376 6 :FSGVIPALMTPCRQ 1h7wB 542 :FINPFGLASAAPTT T0376 24 :DFDA 1h7wB 556 :SSSM T0376 32 :GKELIADGMSAVVYC 1h7wB 560 :IRRAFEAGWGFALTK T0376 47 :GSM 1h7wB 593 :GTT T0376 50 :GDWPL 1h7wB 601 :GPGQS T0376 56 :TDEQRMEGVERLVK 1h7wB 617 :TAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1h7wB 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1h7wB 645 :YNKNDWMELSRKAEASGADALELNLSCPHGMG T0376 113 :VIAAQKAHFKAILSAA 1h7wB 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1h7wB 703 :QIPFFAKLTPNV T0376 145 :TRADLFFALRAE 1h7wB 716 :DIVSIARAAKEG T0376 159 :NLVGFK 1h7wB 728 :GADGVT T0376 167 :GG 1h7wB 736 :NT T0376 172 :MRYAAENITSR 1h7wB 775 :LRAVTTIARAL T0376 184 :DEVTLMIGVD 1h7wB 786 :PGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1h7wB 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1h7wB 819 :VQN T0376 233 :GD 1h7wB 822 :QD T0376 246 :QALAV 1h7wB 825 :TVIQD T0376 260 :LVLYFKYMMVLKGDKE 1h7wB 830 :YCTGLKALLYLKSIEE T0376 276 :Y 1h7wB 848 :G T0376 281 :NETD 1h7wB 866 :PRIA T0376 289 :SQRGYVEAQFKLFNSWYA 1h7wB 881 :PYLEQRKKIIAEEKMRLK Number of specific fragments extracted= 23 number of extra gaps= 1 total=1646 Number of alignments=106 # 1h7wB read from 1h7wB/merged-good-all-a2m # found chain 1h7wB in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1h7wB)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1h7wB)T735 T0376 6 :FSGVIPALMTPCRQ 1h7wB 542 :FINPFGLASAAPTT T0376 24 :DFDALVR 1h7wB 556 :SSSMIRR T0376 35 :LIADGMSAVVY 1h7wB 563 :AFEAGWGFALT T0376 47 :GSM 1h7wB 593 :GTT T0376 50 :GDWPLL 1h7wB 601 :GPGQSS T0376 56 :TDEQRMEGVERLVK 1h7wB 617 :TAAYWCQSVTELKA T0376 70 :AGIPVIVGTGAV 1h7wB 633 :PDNIVIASIMCS T0376 82 :NTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1h7wB 646 :NKNDWMELSRKAEASGADALELNLSCPHGMG T0376 113 :VIAAQKAHFKAILSAA 1h7wB 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1h7wB 703 :QIPFFAKLTPNV T0376 142 :G 1h7wB 716 :D T0376 147 :ADLFFALRAE 1h7wB 718 :VSIARAAKEG T0376 159 :NLVGFK 1h7wB 728 :GADGVT T0376 167 :GG 1h7wB 736 :NT T0376 169 :PAD 1h7wB 745 :KAD T0376 172 :MRYAAENITSRD 1h7wB 775 :LRAVTTIARALP T0376 185 :EVTLMIGVD 1h7wB 787 :GFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1h7wB 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1h7wB 819 :VQN T0376 233 :GDADA 1h7wB 822 :QDFTV T0376 239 :ARAL 1h7wB 827 :IQDY T0376 261 :VLYFKYMMVLKGDK 1h7wB 831 :CTGLKALLYLKSIE T0376 275 :EY 1h7wB 847 :QG T0376 278 :LHFNET 1h7wB 874 :KKLPNF T0376 288 :DSQRGYVEAQFKLFNSWY 1h7wB 880 :GPYLEQRKKIIAEEKMRL Number of specific fragments extracted= 25 number of extra gaps= 1 total=1671 Number of alignments=107 # 1h7wB read from 1h7wB/merged-good-all-a2m # found chain 1h7wB in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1h7wB)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1h7wB)T735 T0376 8 :GVIPALMTP 1h7wB 547 :GLASAAPTT T0376 24 :DF 1h7wB 556 :SS T0376 30 :RKGKELIADGMSAV 1h7wB 558 :SMIRRAFEAGWGFA T0376 45 :YCGSMG 1h7wB 572 :LTKTFS T0376 52 :WPLLTDEQRMEGVERLVK 1h7wB 613 :ISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1h7wB 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1h7wB 645 :YNKNDWMELSRKAEASGADALELNLSCPHGM T0376 113 :VIAAQKAHFKAILSA 1h7wB 687 :DPELVRNICRWVRQA T0376 129 :PEIPAVIYNSPYYG 1h7wB 702 :VQIPFFAKLTPNVT T0376 147 :ADLFFALRAEHKNLVGFK 1h7wB 716 :DIVSIARAAKEGGADGVT T0376 167 :GG 1h7wB 736 :NT T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1h7wB 772 :PIALRAVTTIARALPGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1h7wB 799 :AESGLQFLHSGASVLQVCSAVQN T0376 248 :LAVLSSFDEGPDLVLYFKYMM 1h7wB 824 :FTVIQDYCTGLKALLYLKSIE T0376 269 :VLKGDKEYT 1h7wB 849 :WDGQSPGTE T0376 278 :LHFNETDALTDSQR 1h7wB 877 :PNFGPYLEQRKKII T0376 295 :E 1h7wB 891 :A T0376 299 :KLFNSWYA 1h7wB 892 :EEKMRLKE Number of specific fragments extracted= 18 number of extra gaps= 1 total=1689 Number of alignments=108 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1gthA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1gthA expands to /projects/compbio/data/pdb/1gth.pdb.gz 1gthA:# T0376 read from 1gthA/merged-good-all-a2m # 1gthA read from 1gthA/merged-good-all-a2m # adding 1gthA to template set # found chain 1gthA in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1gthA)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1gthA)T735 T0376 6 :FSGVIPALMTPCRQ 1gthA 542 :FINPFGLASAAPTT T0376 24 :DFDA 1gthA 556 :SSSM T0376 32 :GKELIADGMSAVVYCGSM 1gthA 560 :IRRAFEAGWGFALTKTFS T0376 56 :TDEQRMEGVERLVK 1gthA 617 :TAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1gthA 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1gthA 645 :YNKNDWMELSRKAEASGADALELNLSCPHGMG T0376 113 :VIAAQKAHFKAILSAA 1gthA 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1gthA 703 :QIPFFAKLTPNV T0376 145 :TRADLFFALRAE 1gthA 716 :DIVSIARAAKEG T0376 159 :NLVGFK 1gthA 728 :GADGVT T0376 167 :GG 1gthA 736 :NT T0376 171 :DMRYAAENITSR 1gthA 774 :ALRAVTTIARAL T0376 184 :DEVTLMIGVD 1gthA 786 :PGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1gthA 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1gthA 819 :VQN T0376 233 :GD 1gthA 822 :QD T0376 246 :QALAV 1gthA 825 :TVIQD T0376 260 :LVLYFKYMMVLKGDKE 1gthA 830 :YCTGLKALLYLKSIEE T0376 276 :Y 1gthA 848 :G T0376 279 :HFNETD 1gthA 864 :PVPRIA T0376 289 :SQRGYVEAQF 1gthA 881 :PYLEQRKKII T0376 299 :KLFNSWYADWSKLPG 1gthA 892 :EEKMRLKEQNAAFPP Number of specific fragments extracted= 22 number of extra gaps= 1 total=1711 Number of alignments=109 # 1gthA read from 1gthA/merged-good-all-a2m # found chain 1gthA in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1gthA)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1gthA)T735 T0376 6 :FSGVIPALMTPCRQ 1gthA 542 :FINPFGLASAAPTT T0376 24 :DFDALVR 1gthA 556 :SSSMIRR T0376 35 :LIADGMSAVVYCGSM 1gthA 563 :AFEAGWGFALTKTFS T0376 51 :DWPLLTDEQRMEGVERLVK 1gthA 612 :LISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTG 1gthA 633 :PDNIVIASIM T0376 80 :AVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1gthA 644 :SYNKNDWMELSRKAEASGADALELNLSCPHGMG T0376 113 :VIAAQKAHFKAILSAA 1gthA 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1gthA 703 :QIPFFAKLTPNV T0376 142 :G 1gthA 716 :D T0376 147 :ADLFFALRAE 1gthA 718 :VSIARAAKEG T0376 159 :NLVGFK 1gthA 728 :GADGVT T0376 167 :GG 1gthA 736 :NT T0376 172 :MRYAAENITSRD 1gthA 775 :LRAVTTIARALP T0376 185 :EVTLMIGVD 1gthA 787 :GFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1gthA 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1gthA 819 :VQN T0376 233 :GDADA 1gthA 822 :QDFTV T0376 239 :ARAL 1gthA 827 :IQDY T0376 261 :VLYFKYMMVLKGDK 1gthA 831 :CTGLKALLYLKSIE T0376 275 :EY 1gthA 847 :QG T0376 278 :LHFNET 1gthA 874 :KKLPNF T0376 288 :DSQRGYVEAQF 1gthA 880 :GPYLEQRKKII T0376 299 :KLFNSWYADWSKLPG 1gthA 892 :EEKMRLKEQNAAFPP Number of specific fragments extracted= 23 number of extra gaps= 1 total=1734 Number of alignments=110 # 1gthA read from 1gthA/merged-good-all-a2m # found chain 1gthA in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1gthA)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1gthA)T735 T0376 31 :KGKELIADGMS 1gthA 559 :MIRRAFEAGWG T0376 43 :VVYCGSMG 1gthA 570 :FALTKTFS T0376 52 :WPLLTDEQRMEGVERLVK 1gthA 613 :ISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1gthA 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1gthA 645 :YNKNDWMELSRKAEASGADALELNLSCPHGM T0376 112 :SVIAAQKAHFKAILSA 1gthA 686 :QDPELVRNICRWVRQA T0376 129 :PEIPAVIYNSPYYG 1gthA 702 :VQIPFFAKLTPNVT T0376 147 :ADLFFALRAEHKNLVGFK 1gthA 716 :DIVSIARAAKEGGADGVT T0376 167 :GG 1gthA 736 :NT T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1gthA 772 :PIALRAVTTIARALPGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1gthA 799 :AESGLQFLHSGASVLQVCSAVQN T0376 231 :A 1gthA 823 :D T0376 248 :LAVLSSFDEGPDLVLYFKYMM 1gthA 824 :FTVIQDYCTGLKALLYLKSIE T0376 269 :VLKGDKE 1gthA 849 :WDGQSPG T0376 276 :YTLHFNETDALTDSQR 1gthA 875 :KLPNFGPYLEQRKKII T0376 298 :FKLFNSWYAD 1gthA 891 :AEEKMRLKEQ Number of specific fragments extracted= 16 number of extra gaps= 1 total=1750 Number of alignments=111 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1gthB/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1gthB expands to /projects/compbio/data/pdb/1gth.pdb.gz 1gthB:# T0376 read from 1gthB/merged-good-all-a2m # 1gthB read from 1gthB/merged-good-all-a2m # adding 1gthB to template set # found chain 1gthB in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1gthB)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1gthB)T735 T0376 6 :FSGVIPALMTPCRQ 1gthB 542 :FINPFGLASAAPTT T0376 24 :DFDA 1gthB 556 :SSSM T0376 32 :GKELIADGMSAVVYC 1gthB 560 :IRRAFEAGWGFALTK T0376 48 :SM 1gthB 575 :TF T0376 50 :GDWP 1gthB 601 :GPGQ T0376 56 :TDEQRMEGVERLVK 1gthB 617 :TAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1gthB 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1gthB 645 :YNKNDWMELSRKAEASGADALELNLSCPHGMG T0376 113 :VIAAQKAHFKAILSAA 1gthB 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1gthB 703 :QIPFFAKLTPNV T0376 145 :TRADLFFALRAE 1gthB 716 :DIVSIARAAKEG T0376 159 :NLVGFK 1gthB 728 :GADGVT T0376 167 :GG 1gthB 736 :NT T0376 171 :DMRYAAENITSR 1gthB 774 :ALRAVTTIARAL T0376 184 :DEVTLMIGVD 1gthB 786 :PGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1gthB 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1gthB 819 :VQN T0376 233 :GD 1gthB 822 :QD T0376 246 :QALAV 1gthB 825 :TVIQD T0376 260 :LVLYFKYMMVLKGDKE 1gthB 830 :YCTGLKALLYLKSIEE T0376 276 :Y 1gthB 848 :G T0376 279 :HFNETD 1gthB 864 :PVPRIA T0376 289 :SQRGYVEAQFKLFNSWYA 1gthB 881 :PYLEQRKKIIAEEKMRLK Number of specific fragments extracted= 23 number of extra gaps= 1 total=1773 Number of alignments=112 # 1gthB read from 1gthB/merged-good-all-a2m # found chain 1gthB in template set Warning: unaligning (T0376)G162 because of BadResidue code BAD_PEPTIDE in next template residue (1gthB)T735 Warning: unaligning (T0376)F163 because of BadResidue code BAD_PEPTIDE at template residue (1gthB)T735 T0376 6 :FSG 1gthB 542 :FIN T0376 9 :VIPALMTPCR 1gthB 546 :FGLASAAPTT T0376 24 :DFDALVR 1gthB 556 :SSSMIRR T0376 35 :LIADGMSAVVY 1gthB 563 :AFEAGWGFALT T0376 47 :GSM 1gthB 574 :KTF T0376 51 :DWPLLTDEQRMEGVERLVK 1gthB 612 :LISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTG 1gthB 633 :PDNIVIASIM T0376 80 :AVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1gthB 644 :SYNKNDWMELSRKAEASGADALELNLSCPHGMG T0376 113 :VIAAQKAHFKAILSAA 1gthB 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1gthB 703 :QIPFFAKLTPNV T0376 142 :G 1gthB 716 :D T0376 147 :ADLFFALRA 1gthB 718 :VSIARAAKE T0376 156 :EHKNLV 1gthB 728 :GADGVT T0376 172 :MRYAAENITSRD 1gthB 775 :LRAVTTIARALP T0376 185 :EVTLMIGVD 1gthB 787 :GFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1gthB 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1gthB 819 :VQN T0376 233 :GDADA 1gthB 822 :QDFTV T0376 239 :ARAL 1gthB 827 :IQDY T0376 261 :VLYFKYMMVLKGDK 1gthB 831 :CTGLKALLYLKSIE T0376 275 :EY 1gthB 847 :QG T0376 278 :LHFNET 1gthB 874 :KKLPNF T0376 288 :DSQRGYVEAQFKLFNSW 1gthB 880 :GPYLEQRKKIIAEEKMR Number of specific fragments extracted= 23 number of extra gaps= 1 total=1796 Number of alignments=113 # 1gthB read from 1gthB/merged-good-all-a2m # found chain 1gthB in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1gthB)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1gthB)T735 T0376 31 :KGKELIADGMS 1gthB 559 :MIRRAFEAGWG T0376 43 :VVYCGSMG 1gthB 570 :FALTKTFS T0376 52 :WPLLTDEQRMEGVERLVK 1gthB 613 :ISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1gthB 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1gthB 645 :YNKNDWMELSRKAEASGADALELNLSCPHGM T0376 112 :SVIAAQKAHFKAILSA 1gthB 686 :QDPELVRNICRWVRQA T0376 129 :PEIPAVIYNSPYYG 1gthB 702 :VQIPFFAKLTPNVT T0376 146 :RADLFFALRAE 1gthB 716 :DIVSIARAAKE T0376 159 :NLVGFK 1gthB 728 :GADGVT T0376 167 :GG 1gthB 736 :NT T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1gthB 772 :PIALRAVTTIARALPGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1gthB 799 :AESGLQFLHSGASVLQVCSAVQN T0376 248 :LAVLSSFDEGPDLVLYFKYMM 1gthB 824 :FTVIQDYCTGLKALLYLKSIE T0376 269 :VLKGDKEYT 1gthB 849 :WDGQSPGTE T0376 278 :LHFNETDALTDSQR 1gthB 877 :PNFGPYLEQRKKII T0376 298 :FKLFNSWYA 1gthB 891 :AEEKMRLKE Number of specific fragments extracted= 16 number of extra gaps= 1 total=1812 Number of alignments=114 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1gthC/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1gthC expands to /projects/compbio/data/pdb/1gth.pdb.gz 1gthC:# T0376 read from 1gthC/merged-good-all-a2m # 1gthC read from 1gthC/merged-good-all-a2m # adding 1gthC to template set # found chain 1gthC in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1gthC)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1gthC)T735 T0376 6 :FSGVIPALMTPCRQ 1gthC 542 :FINPFGLASAAPTT T0376 24 :DFDA 1gthC 556 :SSSM T0376 32 :GKELIADGMSAVVYC 1gthC 560 :IRRAFEAGWGFALTK T0376 48 :SM 1gthC 575 :TF T0376 56 :TDEQRMEGVERLVK 1gthC 617 :TAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1gthC 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1gthC 645 :YNKNDWMELSRKAEASGADALELNLSCPHGMG T0376 113 :VIAAQKAHFKAILSAA 1gthC 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1gthC 703 :QIPFFAKLTPNV T0376 145 :TRADLFFALRAE 1gthC 716 :DIVSIARAAKEG T0376 159 :NLVGFK 1gthC 728 :GADGVT T0376 167 :GG 1gthC 736 :NT T0376 172 :MRYAAENITSR 1gthC 775 :LRAVTTIARAL T0376 184 :DEVTLMIGVD 1gthC 786 :PGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1gthC 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1gthC 819 :VQN T0376 233 :GD 1gthC 822 :QD T0376 246 :QALAV 1gthC 825 :TVIQD T0376 260 :LVLYFKYMMVLKGDKE 1gthC 830 :YCTGLKALLYLKSIEE T0376 276 :Y 1gthC 848 :G T0376 279 :HFNETDA 1gthC 864 :PVPRIAE T0376 289 :SQRGYVEAQF 1gthC 881 :PYLEQRKKII T0376 299 :KLFNSWYA 1gthC 892 :EEKMRLKE Number of specific fragments extracted= 23 number of extra gaps= 1 total=1835 Number of alignments=115 # 1gthC read from 1gthC/merged-good-all-a2m # found chain 1gthC in template set Warning: unaligning (T0376)G162 because of BadResidue code BAD_PEPTIDE in next template residue (1gthC)T735 Warning: unaligning (T0376)F163 because of BadResidue code BAD_PEPTIDE at template residue (1gthC)T735 T0376 6 :FSGVIPALMTPCR 1gthC 542 :FINPFGLASAAPT T0376 21 :R 1gthC 555 :T T0376 24 :DFDALVR 1gthC 556 :SSSMIRR T0376 35 :LIADGMSAVVY 1gthC 563 :AFEAGWGFALT T0376 47 :GSM 1gthC 574 :KTF T0376 51 :DWPLLTDEQRMEGVERLVK 1gthC 612 :LISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTGAV 1gthC 633 :PDNIVIASIMCS T0376 82 :NTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1gthC 646 :NKNDWMELSRKAEASGADALELNLSCPHGMG T0376 113 :VIAAQKAHFKAILSAA 1gthC 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1gthC 703 :QIPFFAKLTPNV T0376 142 :G 1gthC 716 :D T0376 147 :ADLFFALRAE 1gthC 718 :VSIARAAKEG T0376 157 :HKNLV 1gthC 729 :ADGVT T0376 172 :MRYAAENITSRD 1gthC 775 :LRAVTTIARALP T0376 185 :EVTLMIGVD 1gthC 787 :GFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1gthC 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1gthC 819 :VQN T0376 233 :GDADA 1gthC 822 :QDFTV T0376 239 :ARAL 1gthC 827 :IQDY T0376 261 :VLYFKYMMVLKGDK 1gthC 831 :CTGLKALLYLKSIE T0376 275 :EY 1gthC 847 :QG T0376 278 :LHFNET 1gthC 874 :KKLPNF T0376 288 :DSQRGYVEAQFKLFNS 1gthC 880 :GPYLEQRKKIIAEEKM Number of specific fragments extracted= 23 number of extra gaps= 1 total=1858 Number of alignments=116 # 1gthC read from 1gthC/merged-good-all-a2m # found chain 1gthC in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1gthC)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1gthC)T735 T0376 31 :KGKELIADGMS 1gthC 559 :MIRRAFEAGWG T0376 43 :VVYCGSMG 1gthC 570 :FALTKTFS T0376 52 :WPLLTDEQRMEGVERLVK 1gthC 613 :ISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1gthC 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1gthC 645 :YNKNDWMELSRKAEASGADALELNLSCPHGM T0376 112 :SVIAAQKAHFKAILSA 1gthC 686 :QDPELVRNICRWVRQA T0376 129 :PEIPAVIYNSPYYG 1gthC 702 :VQIPFFAKLTPNVT T0376 146 :RADLFFALRAE 1gthC 716 :DIVSIARAAKE T0376 159 :NLVGFK 1gthC 728 :GADGVT T0376 167 :GG 1gthC 736 :NT T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1gthC 772 :PIALRAVTTIARALPGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1gthC 799 :AESGLQFLHSGASVLQVCSAVQN T0376 248 :LAVLSSFDEGPDLVLYFKYMM 1gthC 824 :FTVIQDYCTGLKALLYLKSIE T0376 269 :VLKGDKE 1gthC 849 :WDGQSPG T0376 276 :YTLHFNETDALTDSQR 1gthC 875 :KLPNFGPYLEQRKKII T0376 298 :FKLFNSWYAD 1gthC 891 :AEEKMRLKEQ Number of specific fragments extracted= 16 number of extra gaps= 1 total=1874 Number of alignments=117 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1gthD/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1gthD expands to /projects/compbio/data/pdb/1gth.pdb.gz 1gthD:# T0376 read from 1gthD/merged-good-all-a2m # 1gthD read from 1gthD/merged-good-all-a2m # adding 1gthD to template set # found chain 1gthD in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1gthD)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1gthD)T735 T0376 6 :FSGVIPALMTPCRQD 1gthD 542 :FINPFGLASAAPTTS T0376 25 :FDA 1gthD 557 :SSM T0376 32 :GKELIADGMSAVVYCGSM 1gthD 560 :IRRAFEAGWGFALTKTFS T0376 50 :GDW 1gthD 601 :GPG T0376 56 :TDEQRMEGVERLVK 1gthD 617 :TAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1gthD 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1gthD 645 :YNKNDWMELSRKAEASGADALELNLSCPHGMG T0376 113 :VIAAQKAHFKAILSAA 1gthD 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1gthD 703 :QIPFFAKLTPNV T0376 145 :TRADLFFALRAE 1gthD 716 :DIVSIARAAKEG T0376 159 :NLVGFK 1gthD 728 :GADGVT T0376 167 :GG 1gthD 736 :NT T0376 171 :DMRYAAENITSR 1gthD 774 :ALRAVTTIARAL T0376 184 :DEVTLMIGVD 1gthD 786 :PGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1gthD 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1gthD 819 :VQN T0376 233 :GD 1gthD 822 :QD T0376 246 :QALAV 1gthD 825 :TVIQD T0376 260 :LVLYFKYMMVLKGDKE 1gthD 830 :YCTGLKALLYLKSIEE T0376 276 :Y 1gthD 848 :G T0376 279 :HFNETDA 1gthD 864 :PVPRIAE T0376 289 :SQRGYVEAQFKLFNSWYADWSK 1gthD 881 :PYLEQRKKIIAEEKMRLKEQNA Number of specific fragments extracted= 22 number of extra gaps= 1 total=1896 Number of alignments=118 # 1gthD read from 1gthD/merged-good-all-a2m # found chain 1gthD in template set Warning: unaligning (T0376)G162 because of BadResidue code BAD_PEPTIDE in next template residue (1gthD)T735 Warning: unaligning (T0376)F163 because of BadResidue code BAD_PEPTIDE at template residue (1gthD)T735 T0376 6 :FSGVIPALMTPCRQ 1gthD 542 :FINPFGLASAAPTT T0376 24 :DFDALVR 1gthD 556 :SSSMIRR T0376 35 :LIADGMSAVVYCGSM 1gthD 563 :AFEAGWGFALTKTFS T0376 51 :DWPLLTDEQRMEGVERLVK 1gthD 612 :LISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTGAV 1gthD 633 :PDNIVIASIMCS T0376 82 :NTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1gthD 646 :NKNDWMELSRKAEASGADALELNLSCPHGMG T0376 113 :VIAAQKAHFKAILSAA 1gthD 687 :DPELVRNICRWVRQAV T0376 130 :EIPAVIYNSPYY 1gthD 703 :QIPFFAKLTPNV T0376 142 :G 1gthD 716 :D T0376 147 :ADLFFALRAE 1gthD 718 :VSIARAAKEG T0376 157 :HKNLV 1gthD 729 :ADGVT T0376 172 :MRYAAENITSRD 1gthD 775 :LRAVTTIARALP T0376 185 :EVTLMIGVD 1gthD 787 :GFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIG 1gthD 799 :AESGLQFLHSGASVLQVCSA T0376 227 :SQA 1gthD 819 :VQN T0376 233 :GDADA 1gthD 822 :QDFTV T0376 239 :ARAL 1gthD 827 :IQDY T0376 261 :VLYFKYMMVLKGDK 1gthD 831 :CTGLKALLYLKSIE T0376 275 :EY 1gthD 847 :QG T0376 278 :LHFNET 1gthD 874 :KKLPNF T0376 288 :DSQRGYVEAQFKLFNSWY 1gthD 880 :GPYLEQRKKIIAEEKMRL Number of specific fragments extracted= 21 number of extra gaps= 1 total=1917 Number of alignments=119 # 1gthD read from 1gthD/merged-good-all-a2m # found chain 1gthD in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1gthD)T735 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1gthD)T735 T0376 31 :KGKELIADGMSA 1gthD 559 :MIRRAFEAGWGF T0376 44 :VYCGSMG 1gthD 571 :ALTKTFS T0376 52 :WPLLTDEQRMEGVERLVK 1gthD 613 :ISEKTAAYWCQSVTELKA T0376 70 :AGIPVIVGTGA 1gthD 633 :PDNIVIASIMC T0376 81 :VNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1gthD 645 :YNKNDWMELSRKAEASGADALELNLSCPHGM T0376 113 :VIAAQKAHFKAILSA 1gthD 687 :DPELVRNICRWVRQA T0376 129 :PEIPAVIYNSPYYG 1gthD 702 :VQIPFFAKLTPNVT T0376 146 :RADLFFALRAE 1gthD 716 :DIVSIARAAKE T0376 159 :NLVGFK 1gthD 728 :GADGVT T0376 167 :GG 1gthD 736 :NT T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1gthD 772 :PIALRAVTTIARALPGFPILATGG T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1gthD 799 :AESGLQFLHSGASVLQVCSAVQN T0376 248 :LAVLSSFDEGPDLVLYFKYMM 1gthD 824 :FTVIQDYCTGLKALLYLKSIE T0376 269 :VLKGDKE 1gthD 849 :WDGQSPG T0376 276 :YTLHFNETDALTDSQR 1gthD 875 :KLPNFGPYLEQRKKII T0376 298 :FKLFNSWYAD 1gthD 891 :AEEKMRLKEQ Number of specific fragments extracted= 16 number of extra gaps= 1 total=1933 Number of alignments=120 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1w37A/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/T0376/1w37A/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0376/1w37A/merged-good-all-a2m.gz for input Trying 1w37A/merged-good-all-a2m Error: Couldn't open file 1w37A/merged-good-all-a2m or 1w37A/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 2cw6A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2cw6A expands to /projects/compbio/data/pdb/2cw6.pdb.gz 2cw6A:# T0376 read from 2cw6A/merged-good-all-a2m # 2cw6A read from 2cw6A/merged-good-all-a2m # adding 2cw6A to template set # found chain 2cw6A in template set T0376 4 :SIFS 2cw6A 31 :KRVK T0376 11 :PALMTPC 2cw6A 35 :IVEVGPR T0376 18 :RQDRTPDFDALVRKGKELIADGMSAVVYCGSM 2cw6A 46 :NEKNIVSTPVKIKLIDMLSEAGLSVIETTSFV T0376 64 :VERLVK 2cw6A 88 :HTEVLK T0376 70 :AGIPVIVGT 2cw6A 99 :PGINYPVLT T0376 81 :VNTA 2cw6A 108 :PNLK T0376 89 :HAVHAQKVGAKGLMVIPRVL 2cw6A 112 :GFEAAVAAGAKEVVIFGAAS T0376 109 :SRGS 2cw6A 139 :INCS T0376 114 :IAAQKAHFKAILSAA 2cw6A 143 :IEESFQRFDAILKAA T0376 129 :PEIPAVIYNS 2cw6A 160 :ANISVRGYVS T0376 139 :PY 2cw6A 175 :PY T0376 142 :GFATRADLFFALRAEH 2cw6A 177 :EGKISPAKVAEVTKKF T0376 159 :NLVGFKEFGGPADMRYAAENITSR 2cw6A 198 :YEISLGDTIGVGTPGIMKDMLSAV T0376 183 :D 2cw6A 226 :P T0376 184 :DEVTLMIGVD 2cw6A 228 :AALAVHCHDT T0376 194 :TAVVHGFVNCGATGAITGIGNVL 2cw6A 242 :LANTLMALQMGVSVVDSSVAGLG T0376 220 :VIHLCKLSQAA 2cw6A 278 :TEDLVYMLEGL T0376 233 :G 2cw6A 289 :G T0376 234 :D 2cw6A 295 :N T0376 242 :LELEQALAVLSSFDE 2cw6A 297 :QKLLEAGNFICQALN Number of specific fragments extracted= 20 number of extra gaps= 0 total=1953 Number of alignments=121 # 2cw6A read from 2cw6A/merged-good-all-a2m # found chain 2cw6A in template set T0376 19 :QDRTPDFDALVRKGKELIADGMSAVVYCGSM 2cw6A 47 :EKNIVSTPVKIKLIDMLSEAGLSVIETTSFV T0376 64 :VERLVK 2cw6A 88 :HTEVLK T0376 70 :AGI 2cw6A 99 :PGI T0376 73 :PVI 2cw6A 104 :PVL T0376 78 :TGA 2cw6A 107 :TPN T0376 89 :HAVHAQKVGAKGLMVIPRVL 2cw6A 112 :GFEAAVAAGAKEVVIFGAAS T0376 109 :SRGSVIAAQKAHFKAILSAA 2cw6A 138 :NINCSIEESFQRFDAILKAA T0376 129 :PEIPAVIYNS 2cw6A 160 :ANISVRGYVS T0376 141 :Y 2cw6A 175 :P T0376 142 :GFATRADLFFALRAE 2cw6A 177 :EGKISPAKVAEVTKK T0376 157 :HK 2cw6A 197 :CY T0376 160 :LVGFKEFGGPADMRYAAENITSR 2cw6A 199 :EISLGDTIGVGTPGIMKDMLSAV T0376 183 :D 2cw6A 226 :P T0376 184 :DEVTLMIGVD 2cw6A 228 :AALAVHCHDT T0376 194 :TAVVHGFVNCGATGAITGIGNVL 2cw6A 242 :LANTLMALQMGVSVVDSSVAGLG T0376 219 :EVIHLCKLSQAA 2cw6A 277 :ATEDLVYMLEGL T0376 233 :G 2cw6A 289 :G T0376 234 :DADARARAL 2cw6A 291 :HTGVNLQKL T0376 244 :LEQALAVLSSFDEGPD 2cw6A 300 :LEAGNFICQALNRKTS Number of specific fragments extracted= 19 number of extra gaps= 0 total=1972 Number of alignments=122 # 2cw6A read from 2cw6A/merged-good-all-a2m # found chain 2cw6A in template set T0376 2 :TASIFSGVIPALM 2cw6A 29 :LPKRVKIVEVGPR T0376 20 :DRTPDFDALVRKGKELIADGMSAVVYCGSMG 2cw6A 48 :KNIVSTPVKIKLIDMLSEAGLSVIETTSFVS T0376 60 :RMEGVERLV 2cw6A 88 :HTEVLKGIQ T0376 70 :AGI 2cw6A 99 :PGI T0376 73 :PVI 2cw6A 104 :PVL T0376 78 :TGA 2cw6A 107 :TPN T0376 83 :T 2cw6A 110 :L T0376 89 :HAVHAQKVGAKGLMVIPRVL 2cw6A 112 :GFEAAVAAGAKEVVIFGAAS T0376 110 :RG 2cw6A 140 :NC T0376 113 :VIAAQKAHFKAILSAA 2cw6A 142 :SIEESFQRFDAILKAA T0376 129 :PEIPAVIYNSPYYG 2cw6A 160 :ANISVRGYVSCALG T0376 143 :FATRADLFFALRAE 2cw6A 177 :EGKISPAKVAEVTK T0376 157 :H 2cw6A 197 :C T0376 159 :NLVGFKEFGG 2cw6A 198 :YEISLGDTIG T0376 169 :PADMRYAAENITS 2cw6A 210 :TPGIMKDMLSAVM T0376 182 :RDDEVTLMIGVD 2cw6A 225 :VPLAALAVHCHD T0376 194 :TAVVHGFVNCGATGAITGIGNVL 2cw6A 242 :LANTLMALQMGVSVVDSSVAGLG T0376 220 :VIHLCKLSQA 2cw6A 278 :TEDLVYMLEG T0376 231 :AKGDADARARALELE 2cw6A 295 :NLQKLLEAGNFICQA Number of specific fragments extracted= 19 number of extra gaps= 0 total=1991 Number of alignments=123 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1s5tA/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/T0376/1s5tA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0376/1s5tA/merged-good-all-a2m.gz for input Trying 1s5tA/merged-good-all-a2m Error: Couldn't open file 1s5tA/merged-good-all-a2m or 1s5tA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1s5vA/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/T0376/1s5vA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0376/1s5vA/merged-good-all-a2m.gz for input Trying 1s5vA/merged-good-all-a2m Error: Couldn't open file 1s5vA/merged-good-all-a2m or 1s5vA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1o0yA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1o0yA expands to /projects/compbio/data/pdb/1o0y.pdb.gz 1o0yA:# T0376 read from 1o0yA/merged-good-all-a2m # 1o0yA read from 1o0yA/merged-good-all-a2m # adding 1o0yA to template set # found chain 1o0yA in template set Warning: unaligning (T0376)G162 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1o0yA)V178 Warning: unaligning (T0376)F163 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1o0yA)V178 Warning: unaligning (T0376)E165 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1o0yA)S181 Warning: unaligning (T0376)F166 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1o0yA)S181 Warning: unaligning (T0376)G168 because of BadResidue code BAD_PEPTIDE in next template residue (1o0yA)F184 Warning: unaligning (T0376)P169 because of BadResidue code BAD_PEPTIDE at template residue (1o0yA)F184 T0376 12 :ALMTPCRQD 1o0yA 35 :IEHTNLKPF T0376 23 :PDFDALVRKGKELIADGMSAVVYCGS 1o0yA 44 :ATPDDIKKLCLEARENRFHGVCVNPC T0376 63 :GVERLVK 1o0yA 70 :YVKLARE T0376 70 :AGIPVIVGTG 1o0yA 81 :TDVKVVTVVG T0376 80 :AVNTASAVAHAVHAQKVGAKGLMVIPRV 1o0yA 95 :ANETRTKAHEAIFAVESGADEIDMVINV T0376 108 :LSRGS 1o0yA 125 :LKAKE T0376 114 :IAAQKAHFKAILSAAPEIPAVIYNSPY 1o0yA 130 :WEYVYEDIRSVVESVKGKVVKVIIETC T0376 144 :ATRADLFFALR 1o0yA 157 :YLDTEEKIAAC T0376 155 :AEHKNLV 1o0yA 170 :SKLAGAH T0376 164 :K 1o0yA 179 :K T0376 167 :G 1o0yA 182 :T T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1o0yA 189 :ATAEDVHLMKWIVGDEMGVKASGG T0376 196 :VVHGFVNCGATGAITGI 1o0yA 218 :DAVKMIMYGADRIGTSS T0376 220 :VIHLCKLSQA 1o0yA 235 :GVKIVQGGEE Number of specific fragments extracted= 14 number of extra gaps= 3 total=2005 Number of alignments=124 # 1o0yA read from 1o0yA/merged-good-all-a2m # found chain 1o0yA in template set Warning: unaligning (T0376)G162 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1o0yA)V178 Warning: unaligning (T0376)F163 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1o0yA)V178 Warning: unaligning (T0376)E165 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1o0yA)S181 Warning: unaligning (T0376)F166 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1o0yA)S181 Warning: unaligning (T0376)G168 because of BadResidue code BAD_PEPTIDE in next template residue (1o0yA)F184 Warning: unaligning (T0376)P169 because of BadResidue code BAD_PEPTIDE at template residue (1o0yA)F184 T0376 12 :ALMTPCRQDR 1o0yA 35 :IEHTNLKPFA T0376 24 :DFDALVRKGKELIADGMSAVVYCG 1o0yA 45 :TPDDIKKLCLEARENRFHGVCVNP T0376 64 :VERLVK 1o0yA 71 :VKLARE T0376 70 :AGIPVIVGTG 1o0yA 81 :TDVKVVTVVG T0376 80 :AVNTASAVAHAVHAQKVGAKGLMVIPRV 1o0yA 95 :ANETRTKAHEAIFAVESGADEIDMVINV T0376 108 :LSRGSVIAAQKAHFKAILSAAPEIPAVIYNSPY 1o0yA 124 :MLKAKEWEYVYEDIRSVVESVKGKVVKVIIETC T0376 144 :ATRADLFFALR 1o0yA 157 :YLDTEEKIAAC T0376 155 :AEHKNLV 1o0yA 170 :SKLAGAH T0376 164 :K 1o0yA 179 :K T0376 167 :G 1o0yA 182 :T T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1o0yA 189 :ATAEDVHLMKWIVGDEMGVKASGG T0376 195 :AVVHGFVNCGATGAITGI 1o0yA 217 :EDAVKMIMYGADRIGTSS T0376 220 :VIHLCKLSQA 1o0yA 235 :GVKIVQGGEE Number of specific fragments extracted= 13 number of extra gaps= 3 total=2018 Number of alignments=125 # 1o0yA read from 1o0yA/merged-good-all-a2m # found chain 1o0yA in template set Warning: unaligning (T0376)G162 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1o0yA)V178 Warning: unaligning (T0376)F163 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1o0yA)V178 Warning: unaligning (T0376)E165 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1o0yA)S181 Warning: unaligning (T0376)F166 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1o0yA)S181 Warning: unaligning (T0376)G168 because of BadResidue code BAD_PEPTIDE in next template residue (1o0yA)F184 T0376 13 :LMTPCRQD 1o0yA 36 :EHTNLKPF T0376 24 :DFDALVRKGKELIADGMSAVVY 1o0yA 45 :TPDDIKKLCLEARENRFHGVCV T0376 63 :GVERLVK 1o0yA 70 :YVKLARE T0376 70 :AGIPVIVGTG 1o0yA 81 :TDVKVVTVVG T0376 80 :AVNTASAVAHAVHAQKVGAKGLMVIPR 1o0yA 95 :ANETRTKAHEAIFAVESGADEIDMVIN T0376 110 :RG 1o0yA 127 :AK T0376 113 :VIAAQKAHFKAILSAAPEIPAVIYNSPYYG 1o0yA 129 :EWEYVYEDIRSVVESVKGKVVKVIIETCYL T0376 147 :ADLFFALRA 1o0yA 159 :DTEEKIAAC T0376 156 :EHKNLV 1o0yA 171 :KLAGAH T0376 164 :K 1o0yA 179 :K T0376 167 :G 1o0yA 182 :T T0376 169 :PADMRYAAENITS 1o0yA 190 :TAEDVHLMKWIVG T0376 184 :DEVTLMIGVD 1o0yA 203 :DEMGVKASGG T0376 194 :TAVVHGFVNCGATGAITGIG 1o0yA 216 :FEDAVKMIMYGADRIGTSSG T0376 221 :IHLCKLSQA 1o0yA 236 :VKIVQGGEE Number of specific fragments extracted= 15 number of extra gaps= 3 total=2033 Number of alignments=126 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1rqbA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1rqbA expands to /projects/compbio/data/pdb/1rqb.pdb.gz 1rqbA:Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: CX for alphabet: pdb_atoms Bad short name: OQ1 for alphabet: pdb_atoms Bad short name: OQ2 for alphabet: pdb_atoms Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M 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 # T0376 read from 1rqbA/merged-good-all-a2m # 1rqbA read from 1rqbA/merged-good-all-a2m # adding 1rqbA to template set # found chain 1rqbA in template set Warning: unaligning (T0376)V103 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1rqbA)D185 Warning: unaligning (T0376)P105 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1rqbA)D185 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDW 1rqbA 86 :SRLQMLLRGQNLLGYRHYNDEVVDRFVDKSAENGMDVFRVFDAMNDP T0376 58 :EQRMEGVERLVKAGIPVIVGTGAV 1rqbA 133 :RNMAHAMAAVKKAGKHAQGTICYT T0376 82 :NTASAVAHAVHAQKVGAKGLM 1rqbA 162 :TVEGYVKLAGQLLDMGADSIA T0376 106 :RVL 1rqbA 186 :MAA T0376 110 :RGS 1rqbA 189 :LLK T0376 114 :IAAQKAHFKAILSAAP 1rqbA 192 :PQPAYDIIKAIKDTYG T0376 130 :EIPAVIYNSPYYGF 1rqbA 209 :KTQINLHCHSTTGV T0376 146 :RADLFFALRAE 1rqbA 223 :TEVSLMKAIEA T0376 159 :NLVGFKEFGG 1rqbA 234 :GVDVVDTAIS T0376 171 :DM 1rqbA 244 :SM T0376 175 :AAENITSRDD 1rqbA 254 :TESVAEMLEG T0376 185 :EVT 1rqbA 265 :GYT T0376 190 :IGVDTAVVHGFV 1rqbA 268 :TNLDYDRLHKIR T0376 213 :GNVLPKEVIHLCKLSQA 1rqbA 305 :SQIPGGMLSNMESQLRA T0376 232 :KGD 1rqbA 322 :QGA T0376 235 :ADARARALELEQALAVLSSF 1rqbA 326 :DKMDEVMAEVPRVRKAAGFP T0376 255 :DEGPDLVLYFKYMMVLKGDKEY 1rqbA 349 :TPSSQIVGTQAVFNVMMGEYKR T0376 277 :TLHFNETD 1rqbA 382 :YYGASPAD T0376 286 :LTDSQRGYVEAQF 1rqbA 390 :RDPKVVKLAEEQS Number of specific fragments extracted= 19 number of extra gaps= 0 total=2052 Number of alignments=127 # 1rqbA read from 1rqbA/merged-good-all-a2m # found chain 1rqbA in template set Warning: unaligning (T0376)I135 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1rqbA)D185 Warning: unaligning (T0376)N137 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1rqbA)D185 T0376 30 :RKGKELIAD 1rqbA 74 :ERLRTFRKL T0376 39 :GMSAVVYCG 1rqbA 85 :NSRLQMLLR T0376 50 :GDWP 1rqbA 94 :GQNL T0376 54 :LLTDEQRMEGVERLVKAGIPVIVGTGAVNTASAVAHA 1rqbA 102 :HYNDEVVDRFVDKSAENGMDVFRVFDAMNDPRNMAHA T0376 91 :VHAQKVGAKGLMVIPRVLSRGSVIAAQKAHFKAILSAAP 1rqbA 140 :AAVKKAGKHAQGTICYTISPVHTVEGYVKLAGQLLDMGA T0376 131 :IPAV 1rqbA 179 :DSIA T0376 141 :YGFATRADLFFAL 1rqbA 186 :MAALLKPQPAYDI T0376 175 :AAENITSRDDEVTLMIGVD 1rqbA 199 :IKAIKDTYGQKTQINLHCH T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1rqbA 224 :EVSLMKAIEAGVDVVDTAISSMS T0376 217 :PKEVIHLCKLSQAAAK 1rqbA 272 :YDRLHKIRDHFKAIRP T0376 236 :DARARAL 1rqbA 299 :DTSIFKS T0376 243 :ELEQALAVLSSFDEGPDL 1rqbA 311 :MLSNMESQLRAQGAEDKM T0376 261 :VLYFKYMMVLKGDKEYT 1rqbA 354 :IVGTQAVFNVMMGEYKR T0376 278 :LHFNE 1rqbA 384 :GASPA T0376 285 :ALTDSQRGYVEAQF 1rqbA 389 :DRDPKVVKLAEEQS Number of specific fragments extracted= 15 number of extra gaps= 0 total=2067 Number of alignments=128 # 1rqbA read from 1rqbA/merged-good-all-a2m # found chain 1rqbA in template set Warning: unaligning (T0376)I135 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1rqbA)D185 Warning: unaligning (T0376)N137 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1rqbA)D185 T0376 30 :RKGKELIA 1rqbA 74 :ERLRTFRK T0376 38 :DGMSAVVYCGSMGDWP 1rqbA 84 :PNSRLQMLLRGQNLLG T0376 54 :LLTDEQRMEGVERLVKAGIPVIVGTGAVNTASAVAHA 1rqbA 102 :HYNDEVVDRFVDKSAENGMDVFRVFDAMNDPRNMAHA T0376 91 :VHAQKVGAKGLMVIPRVLSRGSVIAAQKAHFKAILSA 1rqbA 140 :AAVKKAGKHAQGTICYTISPVHTVEGYVKLAGQLLDM T0376 129 :PEIPAV 1rqbA 177 :GADSIA T0376 142 :GFATRADLFFALR 1rqbA 186 :MAALLKPQPAYDI T0376 173 :RYAAENITS 1rqbA 199 :IKAIKDTYG T0376 184 :DEVTLMIGVD 1rqbA 208 :QKTQINLHCH T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1rqbA 224 :EVSLMKAIEAGVDVVDTAISSMS T0376 219 :EVIHLCKLSQAA 1rqbA 253 :PTESVAEMLEGT T0376 231 :AKGDADARARALELEQALAVLSS 1rqbA 271 :DYDRLHKIRDHFKAIRPKYKKFE T0376 254 :FDEGPDLV 1rqbA 308 :PGGMLSNM T0376 302 :NSWYADWSKLPGA 1rqbA 316 :ESQLRAQGAEDKM Number of specific fragments extracted= 13 number of extra gaps= 0 total=2080 Number of alignments=129 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ad1A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ad1A expands to /projects/compbio/data/pdb/1ad1.pdb.gz 1ad1A:# T0376 read from 1ad1A/merged-good-all-a2m # 1ad1A read from 1ad1A/merged-good-all-a2m # adding 1ad1A to template set # found chain 1ad1A in template set T0376 5 :IFSGVIPALMT 1ad1A 3 :KTKIMGILNVT T0376 16 :PCRQDRT 1ad1A 16 :SFSDGGK T0376 23 :PDFDALVRKGKELIADGMSAVVYCGSMGDWPL 1ad1A 24 :NNVESAVTRVKAMMDEGADIIDVGGVSTRPGH T0376 55 :LTDEQRMEGVERLVK 1ad1A 58 :ITVEEELNRVLPVVE T0376 70 :AGIPVIVGTGA 1ad1A 77 :FDVKISVDTFR T0376 87 :VAHAVHAQKVGAKGLMVIPRVLSRGS 1ad1A 88 :SEVAEACLKLGVDIINDQWAGLYDHR T0376 120 :HFKAILSA 1ad1A 114 :MFQVVAKY T0376 130 :EIPAVIYNSPYYGFATR 1ad1A 122 :DAEIVLMHNGNGNRDEP T0376 147 :ADLFFALR 1ad1A 148 :LAQAHQAK T0376 155 :AEHK 1ad1A 157 :AGIP T0376 159 :NLVGFKEFGGPADMRYAAENITSR 1ad1A 163 :KIWLDPGIGFAKTRNEEAEVMARL T0376 184 :DEVTLMIGVD 1ad1A 192 :TEYPVLLATS T0376 194 :TAVVHGFVNCGATGAIT 1ad1A 224 :AATTAYGIMKGVRAVRV T0376 217 :PKEVI 1ad1A 243 :VELNA T0376 225 :KLSQA 1ad1A 248 :KLAKG T0376 240 :RALELEQ 1ad1A 253 :IDFLKEN Number of specific fragments extracted= 16 number of extra gaps= 0 total=2096 Number of alignments=130 # 1ad1A read from 1ad1A/merged-good-all-a2m # found chain 1ad1A in template set Warning: unaligning (T0376)S4 because first residue in template chain is (1ad1A)T2 T0376 5 :IFSGVIPALMTP 1ad1A 3 :KTKIMGILNVTP T0376 17 :CRQDRT 1ad1A 17 :FSDGGK T0376 23 :PDFDALVRKGKELIADGMSAVVYCGSMGD 1ad1A 24 :NNVESAVTRVKAMMDEGADIIDVGGVSTR T0376 52 :WPLLTDEQRME 1ad1A 55 :HEMITVEEELN T0376 63 :GVERLVKAGIPVIVGTGA 1ad1A 70 :VVEAIVGFDVKISVDTFR T0376 87 :VAHAVHAQKVGAKGLMVIPRVLSRGS 1ad1A 88 :SEVAEACLKLGVDIINDQWAGLYDHR T0376 120 :HFKAILSA 1ad1A 114 :MFQVVAKY T0376 130 :EIPAVIYNSPYYGFATRA 1ad1A 122 :DAEIVLMHNGNGNRDEPV T0376 148 :DLFFALRAE 1ad1A 142 :EMLTSLLAQ T0376 157 :HK 1ad1A 159 :IP T0376 159 :NLVGFKEFGGPADMRYAAENITSR 1ad1A 163 :KIWLDPGIGFAKTRNEEAEVMARL T0376 184 :DEVTLMIGVD 1ad1A 192 :TEYPVLLATS T0376 194 :TAVVHGFVNCGATGAIT 1ad1A 224 :AATTAYGIMKGVRAVRV T0376 220 :VIHLCKLSQA 1ad1A 243 :VELNAKLAKG T0376 237 :ARARAL 1ad1A 253 :IDFLKE T0376 244 :LE 1ad1A 259 :NE Number of specific fragments extracted= 16 number of extra gaps= 0 total=2112 Number of alignments=131 # 1ad1A read from 1ad1A/merged-good-all-a2m # found chain 1ad1A in template set Warning: unaligning (T0376)S4 because first residue in template chain is (1ad1A)T2 T0376 5 :IFSGVIPALMT 1ad1A 3 :KTKIMGILNVT T0376 17 :CRQDRT 1ad1A 17 :FSDGGK T0376 23 :PDFDALVRKGKELIADGMSAVVYCGSMGD 1ad1A 24 :NNVESAVTRVKAMMDEGADIIDVGGVSTR T0376 52 :WPLLTDEQRME 1ad1A 55 :HEMITVEEELN T0376 63 :GVERLVKAGIPVIVGTGA 1ad1A 70 :VVEAIVGFDVKISVDTFR T0376 87 :VAHAVHAQKVGAKGLMVIPRVLSRG 1ad1A 88 :SEVAEACLKLGVDIINDQWAGLYDH T0376 119 :AHFKAILSA 1ad1A 113 :RMFQVVAKY T0376 130 :EIPAVIYNSPYYGFATRADLFFALRA 1ad1A 122 :DAEIVLMHNGNGNRDEPVVEEMLTSL T0376 157 :HKNLVGFKEFGGP 1ad1A 161 :SNKIWLDPGIGFA T0376 170 :ADMRYAAENITS 1ad1A 180 :AEVMARLDELVA T0376 184 :DEVTLMIGVD 1ad1A 192 :TEYPVLLATS T0376 194 :TAVVHGFVNCGATGAITGIG 1ad1A 224 :AATTAYGIMKGVRAVRVHNV T0376 218 :KEVIHLCK 1ad1A 244 :ELNAKLAK T0376 237 :ARARALELE 1ad1A 252 :GIDFLKENE T0376 250 :VLS 1ad1A 261 :NAR Number of specific fragments extracted= 15 number of extra gaps= 0 total=2127 Number of alignments=132 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1vh7A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1vh7A expands to /projects/compbio/data/pdb/1vh7.pdb.gz 1vh7A:Skipped atom 193, because occupancy 0.500 <= existing 0.500 in 1vh7A Skipped atom 195, because occupancy 0.500 <= existing 0.500 in 1vh7A Skipped atom 197, because occupancy 0.500 <= existing 0.500 in 1vh7A Skipped atom 199, because occupancy 0.500 <= existing 0.500 in 1vh7A Skipped atom 201, because occupancy 0.500 <= existing 0.500 in 1vh7A Skipped atom 203, because occupancy 0.500 <= existing 0.500 in 1vh7A Skipped atom 688, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 690, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 692, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 694, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 890, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 892, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 894, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 896, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 925, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1031, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1033, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1035, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1037, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1039, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1370, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1372, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1374, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1376, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1835, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1837, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1839, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1841, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1843, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1923, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1925, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1927, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1929, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1931, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1933, because occupancy 0.350 <= existing 0.650 in 1vh7A Skipped atom 1935, because occupancy 0.350 <= existing 0.650 in 1vh7A # T0376 read from 1vh7A/merged-good-all-a2m # 1vh7A read from 1vh7A/merged-good-all-a2m # adding 1vh7A to template set # found chain 1vh7A in template set T0376 5 :IF 1vh7A 3 :AK T0376 8 :GVIPAL 1vh7A 5 :RIIACL T0376 15 :TPCRQDRT 1vh7A 21 :TNFENLRD T0376 28 :LVRKGKELIADGMSAVVYCGSM 1vh7A 32 :PVELGKFYSEIGIDELVFLDIT T0376 57 :DEQRMEGVERLVK 1vh7A 59 :RKTMLELVEKVAE T0376 70 :AGIPVIVGTGAVNTASA 1vh7A 73 :IDIPFTVGGGIHDFETA T0376 91 :VHAQKVGAKGLMVIPRVLSRGSVIAA 1vh7A 90 :SELILRGADKVSINTAAVENPSLITQ T0376 117 :QKAHFKAILSA 1vh7A 153 :LRDWVVEVEKR T0376 130 :EIPAVIYNSPYY 1vh7A 164 :GAGEILLTSIDR T0376 142 :GFATRADLFFALR 1vh7A 179 :KSGYDTEMIRFVR T0376 158 :K 1vh7A 192 :P T0376 165 :EFGG 1vh7A 193 :LTTL T0376 185 :EVTLMIGVD 1vh7A 197 :PIIASGGAG T0376 194 :TAVVHGFVNCGATGAITG 1vh7A 207 :MEHFLEAFLAGADAALAA T0376 225 :KLSQA 1vh7A 225 :SVFHF T0376 233 :GD 1vh7A 230 :RE T0376 236 :DAR 1vh7A 233 :DVR T0376 246 :QALAVLSS 1vh7A 236 :ELKEYLKK Number of specific fragments extracted= 18 number of extra gaps= 0 total=2145 Number of alignments=133 # 1vh7A read from 1vh7A/merged-good-all-a2m # found chain 1vh7A in template set Warning: unaligning (T0376)S4 because first residue in template chain is (1vh7A)L2 T0376 5 :IFS 1vh7A 3 :AKR T0376 9 :VIPAL 1vh7A 6 :IIACL T0376 14 :M 1vh7A 12 :V T0376 15 :TPCR 1vh7A 21 :TNFE T0376 20 :D 1vh7A 25 :N T0376 21 :RT 1vh7A 27 :RD T0376 28 :LVRKGKELIADGMSAVVYCGSM 1vh7A 32 :PVELGKFYSEIGIDELVFLDIT T0376 57 :DEQRMEGVERLVK 1vh7A 59 :RKTMLELVEKVAE T0376 70 :AGIPVIVGTGAVNTA 1vh7A 73 :IDIPFTVGGGIHDFE T0376 89 :HAVHAQKVGAKGLMVIPRVLSRGSVIAA 1vh7A 88 :TASELILRGADKVSINTAAVENPSLITQ T0376 117 :QKAHFKAILSAAP 1vh7A 153 :LRDWVVEVEKRGA T0376 131 :IPAVIYNSPYY 1vh7A 166 :GEILLTSIDRD T0376 142 :GFATRADLFFALRAEHKNLVGFKEFGG 1vh7A 179 :KSGYDTEMIRFVRPLTTLPIIASGGAG T0376 171 :DMRYA 1vh7A 206 :KMEHF T0376 198 :HGFVNCGATGAITG 1vh7A 211 :LEAFLAGADAALAA T0376 225 :KLSQA 1vh7A 225 :SVFHF T0376 233 :GDAD 1vh7A 230 :REID T0376 239 :ARAL 1vh7A 234 :VREL T0376 244 :LEQALA 1vh7A 238 :KEYLKK Number of specific fragments extracted= 19 number of extra gaps= 0 total=2164 Number of alignments=134 # 1vh7A read from 1vh7A/merged-good-all-a2m # found chain 1vh7A in template set T0376 6 :FSGVIPA 1vh7A 4 :KRIIACL T0376 16 :PCRQD 1vh7A 11 :DVKDG T0376 21 :RT 1vh7A 27 :RD T0376 28 :LVRKGKELIADGMSAVVYCGSM 1vh7A 32 :PVELGKFYSEIGIDELVFLDIT T0376 57 :DEQRMEGVERLVK 1vh7A 59 :RKTMLELVEKVAE T0376 70 :AGIPVIVGTGAVNTAS 1vh7A 73 :IDIPFTVGGGIHDFET T0376 90 :AVHAQKVGAKGLMVI 1vh7A 89 :ASELILRGADKVSIN T0376 113 :VIAA 1vh7A 109 :NPSL T0376 117 :QKAHFKAILSA 1vh7A 153 :LRDWVVEVEKR T0376 129 :P 1vh7A 164 :G T0376 131 :IPAVIYNSPYYG 1vh7A 165 :AGEILLTSIDRD T0376 143 :FATRADLFFALRAE 1vh7A 179 :KSGYDTEMIRFVRP T0376 183 :DDEVTLMIGVD 1vh7A 193 :LTTLPIIASGG T0376 194 :TAVVHGFVNCGATGAITGIGNV 1vh7A 207 :MEHFLEAFLAGADAALAASVFH T0376 220 :VIHLCKLSQAA 1vh7A 234 :VRELKEYLKKH Number of specific fragments extracted= 15 number of extra gaps= 0 total=2179 Number of alignments=135 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1fdyA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1fdyA expands to /projects/compbio/data/pdb/1fdy.pdb.gz 1fdyA:# T0376 read from 1fdyA/merged-good-all-a2m # 1fdyA read from 1fdyA/merged-good-all-a2m # adding 1fdyA to template set # found chain 1fdyA in template set Warning: unaligning (T0376)A3 because first residue in template chain is (1fdyA)N4 Warning: unaligning (T0376)W304 because last residue in template chain is (1fdyA)E295 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1fdyA 5 :LRGVMAALLTPFDQQQALDKASLRRLVQFNIQQGIDGLYVGGSTGEAFVQSLSEREQVLEIVAE T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1fdyA 72 :GKIKLIAHVGCVTTAESQQLAASAKRYGFDAVSAVTPFYYPFS T0376 114 :IAAQKAHFKAILSAAPEIPAVIYNSPYY 1fdyA 115 :FEEHCDHYRAIIDSADGLPMVVYNIPAL T0376 142 :GFATRADLFFAL 1fdyA 144 :GVKLTLDQINTL T0376 155 :AEHKNLVGFKEFGG 1fdyA 156 :VTLPGVGALKQTSG T0376 171 :DMRYAAENITSR 1fdyA 170 :DLYQMEQIRREH T0376 184 :DEVTLMIGVDTAVVHGF 1fdyA 182 :PDLVLYNGYDEIFASGL T0376 202 :NCGATGAITGIGNVLPKEVIHLCKLSQA 1fdyA 199 :LAGADGGIGSTYNIMGWRYQGIVKALKE T0376 233 :GD 1fdyA 227 :GD T0376 235 :ADARARALELEQALAVLSSFD 1fdyA 230 :QTAQKLQTECNKVIDLLIKTG T0376 260 :LVLYFKYMMVLKGDKE 1fdyA 251 :VFRGLKTVLHYMDVVS T0376 276 :YTLHFNETD 1fdyA 268 :PLCRKPFGP T0376 286 :LTDSQRGYVEAQFKLFNS 1fdyA 277 :VDEKYLPELKALAQQLMQ Number of specific fragments extracted= 13 number of extra gaps= 0 total=2192 Number of alignments=136 # 1fdyA read from 1fdyA/merged-good-all-a2m # found chain 1fdyA in template set Warning: unaligning (T0376)I5 because first residue in template chain is (1fdyA)N4 Warning: unaligning (T0376)W304 because last residue in template chain is (1fdyA)E295 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1fdyA 5 :LRGVMAALLTPFDQQQALDKASLRRLVQFNIQQGIDGLYVGGSTGEAFVQSLSEREQVLEIVAE T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGSV 1fdyA 72 :GKIKLIAHVGCVTTAESQQLAASAKRYGFDAVSAVTPFYYPFSF T0376 115 :AAQKAHFKAILSAAPEIPAVIYNSPYY 1fdyA 116 :EEHCDHYRAIIDSADGLPMVVYNIPAL T0376 142 :GFATRADLFFAL 1fdyA 144 :GVKLTLDQINTL T0376 155 :AEHKNLVGFKEFGG 1fdyA 156 :VTLPGVGALKQTSG T0376 171 :DMRYAAENITSRD 1fdyA 170 :DLYQMEQIRREHP T0376 185 :EVTLMIGVDTAV 1fdyA 183 :DLVLYNGYDEIF T0376 198 :HGFVNCGATGAITGIGNVLPKEVIHLCKLSQA 1fdyA 195 :ASGLLAGADGGIGSTYNIMGWRYQGIVKALKE T0376 233 :GDAD 1fdyA 227 :GDIQ T0376 238 :RARAL 1fdyA 231 :TAQKL T0376 244 :LEQALAVLSSFDEGPD 1fdyA 236 :QTECNKVIDLLIKTGV T0376 261 :VLYFKYMMVLKGDK 1fdyA 252 :FRGLKTVLHYMDVV T0376 275 :EYTLHFNET 1fdyA 267 :VPLCRKPFG T0376 285 :ALTDSQRGYVEAQFKLFNS 1fdyA 276 :PVDEKYLPELKALAQQLMQ Number of specific fragments extracted= 14 number of extra gaps= 0 total=2206 Number of alignments=137 # 1fdyA read from 1fdyA/merged-good-all-a2m # found chain 1fdyA in template set Warning: unaligning (T0376)I5 because first residue in template chain is (1fdyA)N4 T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIADGMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1fdyA 5 :LRGVMAALLTPFDQQQALDKASLRRLVQFNIQQGIDGLYVGGSTGEAFVQSLSEREQVLEIVAE T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1fdyA 72 :GKIKLIAHVGCVTTAESQQLAASAKRYGFDAVSAVTPFYYPF T0376 113 :VIAAQKAHFKAILSAAPEIPAVIYNSPYYGFATRADLFFALRAEHKNLVGFKEFGGPADMRYAAENIT 1fdyA 114 :SFEEHCDHYRAIIDSADGLPMVVYNIPALSGVKLTLDQINTLVTLPGVGALKQTSGDLYQMEQIRREH T0376 185 :EVTLMIGVDTAVVHGFVNCGATGAITGIGNVLPKEVIHLCKLSQAAAKGDADARARALELEQALAVLSSFDEGPDLVLYFKYMM 1fdyA 182 :PDLVLYNGYDEIFASGLLAGADGGIGSTYNIMGWRYQGIVKALKEGDIQTAQKLQTECNKVIDLLIKTGVFRGLKTVLHYMDVV T0376 269 :VLKGDKEYTLHFNETDALTDSQRGYVEA 1fdyA 267 :VPLCRKPFGPVDEKYLPELKALAQQLMQ Number of specific fragments extracted= 5 number of extra gaps= 0 total=2211 Number of alignments=138 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1f74A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0376 read from 1f74A/merged-good-all-a2m # 1f74A read from 1f74A/merged-good-all-a2m # found chain 1f74A in training set Warning: unaligning (T0376)F280 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1f74A)P271 Warning: unaligning (T0376)N281 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1f74A)P271 T0376 1 :MTA 1f74A 1 :MRD T0376 6 :FSGVIPALMTPCRQDRTPDFDALVRKGKELIAD 1f74A 4 :LKGIFSALLVSFNEDGTINEKGLRQIIRHNIDK T0376 39 :GMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1f74A 38 :KVDGLYVGGSTGENFMLSTEEKKEIFRIAKD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGS 1f74A 72 :DQIALIAQVGSVNLKEAVELGKYATELGYDCLSAVTPFYYKFS T0376 114 :IAAQKAHFKAILSAA 1f74A 115 :FPEIKHYYDTIIAET T0376 130 :EIPAVIYNSPYY 1f74A 130 :GSNMIVYSIPFL T0376 142 :GFATRADLFFAL 1f74A 143 :GVNMGIEQFGEL T0376 155 :AEHKNLVGFKEFGG 1f74A 155 :YKNPKVLGVKFTAG T0376 171 :DMRYAAENITSR 1f74A 169 :DFYLLERLKKAY T0376 184 :DEVTLMIGVDTAVVHGF 1f74A 181 :PNHLIWAGFDEMMLPAA T0376 202 :NCGATGAITGIGNVLPKEVIHLCKLSQA 1f74A 198 :SLGVDGAIGSTFNVNGVRARQIFELTKA T0376 233 :GD 1f74A 226 :GK T0376 235 :ADARARALELEQALAVLSSFD 1f74A 229 :KEALEIQHVTNDLIEGILANG T0376 260 :LVLYFKYMMVLKGDKEYTLH 1f74A 250 :LYLTIKELLKLEGVDAGYCR T0376 282 :ETDALTDSQRGYVEAQFKLF 1f74A 272 :MTSKATAEQVAKAKDLKAKF Number of specific fragments extracted= 15 number of extra gaps= 1 total=2226 Number of alignments=139 # 1f74A read from 1f74A/merged-good-all-a2m # found chain 1f74A in training set Warning: unaligning (T0376)A3 because first residue in template chain is (1f74A)M1 Warning: unaligning (T0376)F280 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1f74A)P271 Warning: unaligning (T0376)N281 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1f74A)P271 T0376 4 :SIFSGVIPALMTPCRQDRTPDFDALVRKGKELIAD 1f74A 2 :RDLKGIFSALLVSFNEDGTINEKGLRQIIRHNIDK T0376 39 :GMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1f74A 38 :KVDGLYVGGSTGENFMLSTEEKKEIFRIAKD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRGSV 1f74A 72 :DQIALIAQVGSVNLKEAVELGKYATELGYDCLSAVTPFYYKFSF T0376 115 :AAQKAHFKAILSAA 1f74A 116 :PEIKHYYDTIIAET T0376 130 :EIPAVIYNSPYY 1f74A 130 :GSNMIVYSIPFL T0376 142 :GFATRADLFFAL 1f74A 143 :GVNMGIEQFGEL T0376 155 :AEHKNLVGFKEFGG 1f74A 155 :YKNPKVLGVKFTAG T0376 171 :DMRYAAENITSRD 1f74A 169 :DFYLLERLKKAYP T0376 185 :EVTLMIGVDTAV 1f74A 182 :NHLIWAGFDEMM T0376 198 :HGFVNCGATGAITGIGNVLPKEVIHLCKLSQA 1f74A 194 :LPAASLGVDGAIGSTFNVNGVRARQIFELTKA T0376 233 :GDAD 1f74A 226 :GKLK T0376 238 :RARAL 1f74A 230 :EALEI T0376 244 :LEQALAVLSSFDEGPD 1f74A 235 :QHVTNDLIEGILANGL T0376 261 :VLYFKYMMVLKGDKEYTLH 1f74A 251 :YLTIKELLKLEGVDAGYCR T0376 282 :ETDALTDSQRGYVEAQFKLF 1f74A 272 :MTSKATAEQVAKAKDLKAKF Number of specific fragments extracted= 15 number of extra gaps= 1 total=2241 Number of alignments=140 # 1f74A read from 1f74A/merged-good-all-a2m # found chain 1f74A in training set Warning: unaligning (T0376)K274 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1f74A)P271 Warning: unaligning (T0376)E275 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1f74A)P271 T0376 4 :SIFSGVIPALMTPCRQDRTPDFDALVRKGKELIAD 1f74A 2 :RDLKGIFSALLVSFNEDGTINEKGLRQIIRHNIDK T0376 39 :GMSAVVYCGSMGDWPLLTDEQRMEGVERLVK 1f74A 38 :KVDGLYVGGSTGENFMLSTEEKKEIFRIAKD T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1f74A 72 :DQIALIAQVGSVNLKEAVELGKYATELGYDCLSAVTPFYYKF T0376 113 :VIAAQKAHFKAILSA 1f74A 114 :SFPEIKHYYDTIIAE T0376 129 :PEIPAVIYNSPYYGFATRADLFFALRAEHKNLVGFKEFGGPADMRYAAENIT 1f74A 129 :TGSNMIVYSIPFLTGVNMGIEQFGELYKNPKVLGVKFTAGDFYLLERLKKAY T0376 185 :EVTLMIGVDTAVVHGFVNCGATGAITGIGNVLPKEVIHLCKLSQAAAKGDADARARALELEQALAVLSSFDEGPDLVLYFKYMMVLKGD 1f74A 181 :PNHLIWAGFDEMMLPAASLGVDGAIGSTFNVNGVRARQIFELTKAGKLKEALEIQHVTNDLIEGILANGLYLTIKELLKLEGVDAGYCR T0376 276 :YT 1f74A 272 :MT T0376 278 :LHFNETDALTDSQRGY 1f74A 275 :KATAEQVAKAKDLKAK Number of specific fragments extracted= 8 number of extra gaps= 1 total=2249 Number of alignments=141 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ep3A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ep3A expands to /projects/compbio/data/pdb/1ep3.pdb.gz 1ep3A:# T0376 read from 1ep3A/merged-good-all-a2m # 1ep3A read from 1ep3A/merged-good-all-a2m # adding 1ep3A to template set # found chain 1ep3A in template set Warning: unaligning (T0376)V103 because of BadResidue code BAD_PEPTIDE in next template residue (1ep3A)I196 Warning: unaligning (T0376)I104 because of BadResidue code BAD_PEPTIDE at template residue (1ep3A)I196 T0376 9 :VIPALMT 1ep3A 101 :IIANVAG T0376 17 :C 1ep3A 108 :S T0376 24 :DFDALVRKGKELIA 1ep3A 109 :EEADYVAVCAKIGD T0376 38 :DGMSAVVYCGSM 1ep3A 124 :ANVKAIELNISC T0376 50 :GDWPLLTDEQRMEGVERLVK 1ep3A 142 :GQAFGTDPEVAAALVKACKA T0376 70 :AGIPVIVGTGAV 1ep3A 163 :SKVPLYVKLSPN T0376 87 :VAHAVHAQKVGAKGLM 1ep3A 179 :VPIAKAVEAAGADGLT T0376 105 :P 1ep3A 197 :N T0376 106 :RVLSRG 1ep3A 211 :PILANI T0376 113 :VIAAQKAHFKAILSAA 1ep3A 225 :IKPVALKLIHQVAQDV T0376 130 :EIPAVIYN 1ep3A 241 :DIPIIGMG T0376 166 :FGG 1ep3A 249 :GVA T0376 171 :DMRY 1ep3A 252 :NAQD T0376 197 :VHGFVNCGATGAITGIGNVL 1ep3A 256 :VLEMYMAGASAVAVGTANFA T0376 217 :PKEVIHLCKLSQA 1ep3A 277 :PFVCPKIIDKLPE T0376 240 :RALE 1ep3A 290 :LMDQ T0376 244 :LEQALAVLSS 1ep3A 299 :LESLIQEVKE Number of specific fragments extracted= 17 number of extra gaps= 1 total=2266 Number of alignments=142 # 1ep3A read from 1ep3A/merged-good-all-a2m # found chain 1ep3A in template set Warning: unaligning (T0376)V103 because of BadResidue code BAD_PEPTIDE in next template residue (1ep3A)I196 Warning: unaligning (T0376)I104 because of BadResidue code BAD_PEPTIDE at template residue (1ep3A)I196 T0376 9 :VIPALMTP 1ep3A 101 :IIANVAGS T0376 24 :DFDALVRKGKELIA 1ep3A 109 :EEADYVAVCAKIGD T0376 38 :DGMSAVVYCGSM 1ep3A 124 :ANVKAIELNISC T0376 50 :GDWPLLTDEQRMEGVERLVK 1ep3A 142 :GQAFGTDPEVAAALVKACKA T0376 70 :AGIPVIVGTGAV 1ep3A 163 :SKVPLYVKLSPN T0376 88 :AHAVHAQKVGAKGLM 1ep3A 180 :PIAKAVEAAGADGLT T0376 105 :PRVL 1ep3A 197 :NTLM T0376 109 :SRGS 1ep3A 222 :GPAI T0376 114 :IAAQKAHFKAILSAA 1ep3A 226 :KPVALKLIHQVAQDV T0376 130 :EIPAVIYN 1ep3A 241 :DIPIIGMG T0376 166 :FGG 1ep3A 249 :GVA T0376 171 :DM 1ep3A 252 :NA T0376 195 :AVVHGFVNCGATGAITGIGNVL 1ep3A 254 :QDVLEMYMAGASAVAVGTANFA T0376 217 :PKEVIHLCK 1ep3A 277 :PFVCPKIID T0376 238 :RARAL 1ep3A 286 :KLPEL T0376 244 :LEQ 1ep3A 291 :MDQ T0376 247 :ALAVLSSFDEG 1ep3A 299 :LESLIQEVKEG Number of specific fragments extracted= 17 number of extra gaps= 1 total=2283 Number of alignments=143 # 1ep3A read from 1ep3A/merged-good-all-a2m # found chain 1ep3A in template set Warning: unaligning (T0376)E165 because of BadResidue code BAD_PEPTIDE in next template residue (1ep3A)I196 Warning: unaligning (T0376)F166 because of BadResidue code BAD_PEPTIDE at template residue (1ep3A)I196 T0376 64 :VERLVK 1ep3A 89 :LPWLNE T0376 70 :AGIPVIVGTGAVNTASAVAHAVHAQKV 1ep3A 97 :PELPIIANVAGSEEADYVAVCAKIGDA T0376 97 :GAKGLMVIPRVLSRG 1ep3A 125 :NVKAIELNISCPNVK T0376 112 :SVIAAQKAHFKAILSA 1ep3A 147 :TDPEVAAALVKACKAV T0376 129 :PEIPAVIYNSPY 1ep3A 163 :SKVPLYVKLSPN T0376 144 :ATRADLFFALRAE 1ep3A 175 :VTDIVPIAKAVEA T0376 159 :NLVGFK 1ep3A 189 :GADGLT T0376 167 :GG 1ep3A 197 :NT T0376 170 :ADMRYAAENITSRDDEVTLMIGVD 1ep3A 227 :PVALKLIHQVAQDVDIPIIGMGGV T0376 194 :TAVVHGFVNCGATGAITGIGNVL 1ep3A 253 :AQDVLEMYMAGASAVAVGTANFA T0376 217 :PKEVIHLCK 1ep3A 277 :PFVCPKIID T0376 234 :DADARARA 1ep3A 286 :KLPELMDQ T0376 242 :LELEQALAV 1ep3A 299 :LESLIQEVK Number of specific fragments extracted= 13 number of extra gaps= 1 total=2296 Number of alignments=144 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1zfjA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1zfjA expands to /projects/compbio/data/pdb/1zfj.pdb.gz 1zfjA:Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M 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 # T0376 read from 1zfjA/merged-good-all-a2m # 1zfjA read from 1zfjA/merged-good-all-a2m # adding 1zfjA to template set # found chain 1zfjA in template set T0376 24 :DFDALVRKGK 1zfjA 172 :DLETAERILH T0376 37 :ADGMSAVVYCGSMGD 1zfjA 182 :EHRIEKLPLVDNSGR T0376 61 :MEGVERLVK 1zfjA 203 :IKDIEKVIE T0376 70 :AGIPVIVGTGAV 1zfjA 221 :GRLLVAAAVGVT T0376 85 :SAVAHAVHAQKVGAKGLMVIPRVLS 1zfjA 234 :DTFERAEALFEAGADAIVIDTAHGH T0376 114 :IAAQKAHFKAILSAAPEIPAVIYNS 1zfjA 259 :SAGVLRKIAEIRAHFPNRTLIAGNI T0376 145 :TRADLFFALRAE 1zfjA 284 :ATAEGARALYDA T0376 159 :NLVGFKEFGG 1zfjA 296 :GVDVVKVGIG T0376 170 :ADMRYAAENITSR 1zfjA 324 :TAIYDAAAVAREY T0376 184 :DEVTLMIG 1zfjA 337 :GKTIIADG T0376 193 :D 1zfjA 345 :G T0376 194 :TAVVHGFVNCGATGAITGIGNV 1zfjA 349 :SGDIVKALAAGGNAVMLGSMFA T0376 218 :KEVI 1zfjA 396 :IAAM T0376 236 :DARARALELEQAL 1zfjA 432 :AASDIVFQMLGGI T0376 265 :KYMMVLKGDKE 1zfjA 445 :RSGMGYVGAGD T0376 277 :TLH 1zfjA 464 :QFV T0376 285 :ALTDSQRGY 1zfjA 467 :EMSGAGLIE Number of specific fragments extracted= 17 number of extra gaps= 0 total=2313 Number of alignments=145 # 1zfjA read from 1zfjA/merged-good-all-a2m # found chain 1zfjA in template set Warning: unaligning (T0376)G233 because of BadResidue code TOO_FEW_ATOMS+CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1zfjA)N416 T0376 23 :PDFDALVRKGK 1zfjA 171 :TDLETAERILH T0376 37 :ADGMSAVVYCGSMGDWPLL 1zfjA 182 :EHRIEKLPLVDNSGRLSGL T0376 61 :MEGVERLVK 1zfjA 203 :IKDIEKVIE T0376 70 :AGIPVIVGTGAV 1zfjA 221 :GRLLVAAAVGVT T0376 86 :AVAHAVHAQKVGAKGLMVIPRV 1zfjA 235 :TFERAEALFEAGADAIVIDTAH T0376 111 :GSV 1zfjA 257 :GHS T0376 115 :AAQKAHFKAILSAAPEIPAVIYNS 1zfjA 260 :AGVLRKIAEIRAHFPNRTLIAGNI T0376 145 :TRADLFFALRAE 1zfjA 284 :ATAEGARALYDA T0376 159 :NLVGFKEFGGP 1zfjA 296 :GVDVVKVGIGP T0376 172 :MRYAAENITSRD 1zfjA 326 :IYDAAAVAREYG T0376 185 :EVTLMIG 1zfjA 338 :KTIIADG T0376 194 :TAVVHGFVNCGATGAITGIGNV 1zfjA 349 :SGDIVKALAAGGNAVMLGSMFA T0376 217 :PKEVI 1zfjA 395 :SIAAM T0376 234 :DA 1zfjA 417 :KL T0376 236 :D 1zfjA 431 :G T0376 238 :RARAL 1zfjA 432 :AASDI T0376 244 :LEQALAVLSSF 1zfjA 437 :VFQMLGGIRSG T0376 255 :DEGPD 1zfjA 451 :VGAGD T0376 261 :VLYFKYM 1zfjA 456 :IQELHEN T0376 276 :YTLH 1zfjA 463 :AQFV T0376 285 :ALTDSQRGY 1zfjA 467 :EMSGAGLIE Number of specific fragments extracted= 21 number of extra gaps= 0 total=2334 Number of alignments=146 # 1zfjA read from 1zfjA/merged-good-all-a2m # found chain 1zfjA in template set T0376 24 :DFDALVRKGK 1zfjA 172 :DLETAERILH T0376 37 :ADGMS 1zfjA 182 :EHRIE T0376 61 :MEGVERLVK 1zfjA 203 :IKDIEKVIE T0376 70 :AGIPVIVGTGAV 1zfjA 221 :GRLLVAAAVGVT T0376 84 :ASAVAHAVHAQKVGAKGLMVIPRVLSR 1zfjA 233 :SDTFERAEALFEAGADAIVIDTAHGHS T0376 115 :AAQKAHFKAILSAAPEIPAVIYNSP 1zfjA 260 :AGVLRKIAEIRAHFPNRTLIAGNIA T0376 147 :ADLFFALRAE 1zfjA 285 :TAEGARALYD T0376 159 :NLVGFKEFGGP 1zfjA 296 :GVDVVKVGIGP T0376 170 :ADMRYAAENITSRD 1zfjA 323 :VTAIYDAAAVAREY T0376 185 :EVTLMIGVD 1zfjA 337 :GKTIIADGG T0376 194 :TAVVHGFVNCGATGAITGIGNV 1zfjA 349 :SGDIVKALAAGGNAVMLGSMFA Number of specific fragments extracted= 11 number of extra gaps= 0 total=2345 Number of alignments=147 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1mumA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1mumA expands to /projects/compbio/data/pdb/1mum.pdb.gz 1mumA:# T0376 read from 1mumA/merged-good-all-a2m # 1mumA read from 1mumA/merged-good-all-a2m # adding 1mumA to template set # found chain 1mumA in template set T0376 29 :VRKGKELIADGMSAVVYC 1mumA 28 :ANHALLAQRAGYQAIYLS T0376 47 :GSMG 1mumA 52 :GSLG T0376 51 :DWPLLTDEQRMEGVERLVK 1mumA 58 :DLGISTLDDVLTDIRRITD T0376 70 :AGIPVIVGTG 1mumA 78 :CSLPLLVDAD T0376 80 :AVNTASAVAHAVHAQKVGAKGLMVIPRVLSR 1mumA 91 :GSSAFNVARTVKSMIKAGAAGLHIEDQVGAK T0376 113 :VIAAQKAHFKAILSAA 1mumA 133 :SKEEMVDRIRAAVDAK T0376 129 :PEIPAVIYNSPYY 1mumA 151 :PDFVIMARTDALA T0376 142 :GFATRADLFFALRAE 1mumA 166 :GLDAAIERAQAYVEA T0376 159 :NL 1mumA 181 :GA T0376 161 :VGFKEFGG 1mumA 184 :MLFPEAIT T0376 171 :DMRYAAENITSRD 1mumA 192 :ELAMYRQFADAVQ T0376 186 :VTLMIGVDT 1mumA 205 :VPILANITE T0376 195 :AVVHGFVNCGATGAITGIG 1mumA 220 :FTTDELRSAHVAMALYPLS T0376 226 :LSQA 1mumA 239 :AFRA T0376 240 :RALELEQALAVLSSFDEGPDLV 1mumA 243 :MNRAAEHVYNVLRQEGTQKSVI T0376 282 :ETD 1mumA 265 :DTM T0376 286 :LTDSQR 1mumA 268 :QTRNEL Number of specific fragments extracted= 17 number of extra gaps= 0 total=2362 Number of alignments=148 # 1mumA read from 1mumA/merged-good-all-a2m # found chain 1mumA in template set T0376 9 :VIPALMTPCRQ 1mumA 82 :LLVDADIGFGS T0376 24 :DFDALVRKGKELIADGMSAVVYCGSMG 1mumA 93 :SAFNVARTVKSMIKAGAAGLHIEDQVG T0376 51 :DWPLLTDEQRMEGVERLVK 1mumA 128 :NKAIVSKEEMVDRIRAAVD T0376 70 :AGIPVIVGTGAV 1mumA 151 :PDFVIMARTDAL T0376 82 :NTASAVAHAVHAQKVGAKGLMV 1mumA 166 :GLDAAIERAQAYVEAGAEMLFP T0376 110 :RGSVIA 1mumA 189 :AITELA T0376 120 :HFKAILSAA 1mumA 195 :MYRQFADAV T0376 130 :EIPAVIYNSPYY 1mumA 204 :QVPILANITEFG T0376 142 :GFATRAD 1mumA 217 :TPLFTTD T0376 199 :GFVNCGATGAITGIG 1mumA 224 :ELRSAHVAMALYPLS T0376 226 :LSQA 1mumA 239 :AFRA T0376 237 :A 1mumA 243 :M T0376 240 :RAL 1mumA 244 :NRA T0376 244 :LEQALAVLSSFDEGPDL 1mumA 247 :AEHVYNVLRQEGTQKSV T0376 282 :ETDALTDSQRG 1mumA 264 :IDTMQTRNELY Number of specific fragments extracted= 15 number of extra gaps= 0 total=2377 Number of alignments=149 # 1mumA read from 1mumA/merged-good-all-a2m # found chain 1mumA in template set T0376 29 :VRKGKELIADGMSAVVYC 1mumA 28 :ANHALLAQRAGYQAIYLS T0376 47 :GSMG 1mumA 52 :GSLG T0376 51 :DWPLLTDEQRMEGVERLVK 1mumA 58 :DLGISTLDDVLTDIRRITD T0376 70 :AGIPVIVGT 1mumA 78 :CSLPLLVDA T0376 79 :GAVNTASAVAHAVHAQKVGAKGLMVIPRVLSRG 1mumA 90 :FGSSAFNVARTVKSMIKAGAAGLHIEDQVGAKR T0376 112 :SVIAAQKAHFKAILSAA 1mumA 132 :VSKEEMVDRIRAAVDAK T0376 129 :PEIPAVIYNSP 1mumA 151 :PDFVIMARTDA T0376 147 :ADLFFALRAE 1mumA 166 :GLDAAIERAQ T0376 161 :VGFKEFGGPADMRYAAENIT 1mumA 184 :MLFPEAITELAMYRQFADAV T0376 184 :DEVTLMIGVD 1mumA 204 :QVPILANITE T0376 197 :VHGFVNCGATGAITGIG 1mumA 222 :TDELRSAHVAMALYPLS T0376 234 :DADARARALELEQALAVLSS 1mumA 239 :AFRAMNRAAEHVYNVLRQEG T0376 270 :LKGDKEYTLHFNETDAL 1mumA 260 :QKSVIDTMQTRNELYES Number of specific fragments extracted= 13 number of extra gaps= 0 total=2390 Number of alignments=150 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1pymA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1pymA expands to /projects/compbio/data/pdb/1pym.pdb.gz 1pymA: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 Skipped atom 419, because occupancy 0.500 <= existing 0.500 in 1pymA 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 Skipped atom 550, because occupancy 0.500 <= existing 0.500 in 1pymA 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 Skipped atom 1776, because occupancy 0.500 <= existing 0.500 in 1pymA 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 # T0376 read from 1pymA/merged-good-all-a2m # 1pymA read from 1pymA/merged-good-all-a2m # adding 1pymA to template set # found chain 1pymA in template set T0376 5 :IFSGVIPAL 1pymA 19 :DLEFIMEAH T0376 29 :VRKGKELIADGMSAVVYCG 1pymA 29 :GLSARIVQEAGFKGIWGSG T0376 49 :MGDWPLLTDEQRMEGVERLVK 1pymA 56 :VRDSNEASWTQVVEVLEFMSD T0376 70 :AGIPVIVGTGAVN 1pymA 78 :SDVPILLDADTGY T0376 83 :TASAVAHAVHAQKVGAKGLMVIPRVL 1pymA 93 :FNNARRLVRKLEDRGVAGACLEDKLF T0376 111 :GS 1pymA 133 :AD T0376 114 :IAAQKAHFKAILSAA 1pymA 135 :IEEFALKIKACKDSQ T0376 129 :PEIPAVIYNSPYY 1pymA 152 :PDFCIVARVEAFI T0376 142 :GFATR 1pymA 166 :GWGLD T0376 147 :ADLFFALRAE 1pymA 173 :LKRAEAYRNA T0376 159 :NLVGFKEFGGPADMRYAAENITSRDDEVTLMIGVDTAV 1pymA 183 :GADAILMHSKKADPSDIEAFMKAWNNQGPVVIVPTKYY T0376 197 :VHGFVNCGATGAITGI 1pymA 224 :TDHFRDMGVSMVIWAN T0376 225 :KL 1pymA 240 :HN T0376 237 :ARARALELEQALAVLSSFDEGPDLV 1pymA 242 :LRASVSAIQQTTKQIYDDQSLVNVE T0376 282 :ET 1pymA 267 :DK T0376 285 :ALTDSQRGYV 1pymA 269 :IVSVKEIFRL Number of specific fragments extracted= 16 number of extra gaps= 0 total=2406 Number of alignments=151 # 1pymA read from 1pymA/merged-good-all-a2m # found chain 1pymA in template set T0376 29 :VRKGKELIADGMSAVVYCG 1pymA 29 :GLSARIVQEAGFKGIWGSG T0376 51 :DWPLLTDEQRMEGVERLVK 1pymA 58 :DSNEASWTQVVEVLEFMSD T0376 70 :AGIPVIVGTGAVN 1pymA 78 :SDVPILLDADTGY T0376 83 :TASAVAHAVHAQKVGAKGLMVIPRVL 1pymA 93 :FNNARRLVRKLEDRGVAGACLEDKLF T0376 109 :SRGSVIAAQKAHFKAILSAA 1pymA 130 :QPLADIEEFALKIKACKDSQ T0376 129 :PEIPAVIYNSPYY 1pymA 152 :PDFCIVARVEAFI T0376 142 :GFATR 1pymA 166 :GWGLD T0376 147 :ADLFFALRAE 1pymA 173 :LKRAEAYRNA T0376 159 :NLVGFKEFGGPADMRYAAENITSRDDEVTLMIGVDTAV 1pymA 183 :GADAILMHSKKADPSDIEAFMKAWNNQGPVVIVPTKYY T0376 197 :VHGFVNCGATGAITGI 1pymA 224 :TDHFRDMGVSMVIWAN T0376 222 :HLCKLSQA 1pymA 240 :HNLRASVS T0376 238 :RARAL 1pymA 248 :AIQQT T0376 244 :LEQ 1pymA 253 :TKQ T0376 251 :LSSFDEGPDL 1pymA 256 :IYDDQSLVNV T0376 284 :DALTDSQRGYV 1pymA 268 :KIVSVKEIFRL Number of specific fragments extracted= 15 number of extra gaps= 0 total=2421 Number of alignments=152 # 1pymA read from 1pymA/merged-good-all-a2m # found chain 1pymA in template set T0376 29 :VRKGKELIADGMSAVVYCG 1pymA 29 :GLSARIVQEAGFKGIWGSG T0376 51 :DWPLLTDEQRMEGVERLVK 1pymA 58 :DSNEASWTQVVEVLEFMSD T0376 70 :AGIPVIVGTGAVN 1pymA 78 :SDVPILLDADTGY T0376 83 :TASAVAHAVHAQKVGAKGLMVIPRVLSRG 1pymA 93 :FNNARRLVRKLEDRGVAGACLEDKLFPKT T0376 112 :SVIAAQKAHFKAILSAA 1pymA 133 :ADIEEFALKIKACKDSQ T0376 129 :PEIPAVIYNSPYYG 1pymA 152 :PDFCIVARVEAFIA T0376 145 :TRADLFFALRAE 1pymA 166 :GWGLDEALKRAE T0376 157 :HKNLVGFKEFG 1pymA 181 :NAGADAILMHS T0376 168 :GPADMRYAAENITS 1pymA 194 :ADPSDIEAFMKAWN T0376 184 :DEVTLMIGVDTAV 1pymA 208 :NQGPVVIVPTKYY T0376 197 :VHGFVNCGATGAITGIGN 1pymA 224 :TDHFRDMGVSMVIWANHN T0376 235 :ADARARALELEQALAVLSSFDEGPD 1pymA 242 :LRASVSAIQQTTKQIYDDQSLVNVE T0376 276 :YTLHFNETDALT 1pymA 267 :DKIVSVKEIFRL T0376 288 :DSQR 1pymA 285 :VQAE Number of specific fragments extracted= 14 number of extra gaps= 0 total=2435 Number of alignments=153 # command:Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0376//projects/compbio/experiments/protein-predict/casp7/T0376/align.constraints_v3.costfcn or /projects/compbio/experiments/protein-predict/casp7/T0376//projects/compbio/experiments/protein-predict/casp7/T0376/align.constraints_v3.costfcn.gz for input Trying /projects/compbio/experiments/protein-predict/casp7/T0376/align.constraints_v3.costfcn # reading script from file /projects/compbio/experiments/protein-predict/casp7/T0376/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((T0376)G77.CA, (T0376)L101.CB) [> 3.8041 = 6.3401 < 8.2422] w=1.0000 to align # Constraint # added constraint: constraint((T0376)V76.CB, (T0376)L101.CB) [> 3.3570 = 5.5950 < 7.2735] w=1.0000 to align # Constraint # added constraint: constraint((T0376)V76.CB, (T0376)G100.CA) [> 3.9703 = 6.6172 < 8.6024] w=1.0000 to align # Constraint # added constraint: constraint((T0376)I75.CB, (T0376)L101.CB) [> 4.1816 = 6.9693 < 9.0601] w=0.9999 to align # Constraint # added constraint: constraint((T0376)P73.CB, (T0376)K99.CB) [> 2.9829 = 4.9715 < 6.4630] w=0.9846 to align # Constraint # added constraint: constraint((T0376)I75.CB, (T0376)G100.CA) [> 3.0675 = 5.1126 < 6.6463] w=0.9845 to align # Constraint # added constraint: constraint((T0376)M102.CB, (T0376)V134.CB) [> 2.7125 = 4.5208 < 5.8771] w=0.9779 to align # Constraint # added constraint: constraint((T0376)G77.CA, (T0376)M102.CB) [> 2.7042 = 4.5070 < 5.8591] w=0.9769 to align # Constraint # added constraint: constraint((T0376)L101.CB, (T0376)V134.CB) [> 4.1247 = 6.8745 < 8.9368] w=0.9707 to align # Constraint # added constraint: constraint((T0376)L101.CB, (T0376)A133.CB) [> 3.2106 = 5.3509 < 6.9562] w=0.9707 to align # Constraint # added constraint: constraint((T0376)V76.CB, (T0376)A93.CB) [> 2.7552 = 4.5920 < 5.9696] w=0.9693 to align # Constraint # added constraint: constraint((T0376)V76.CB, (T0376)A98.CB) [> 2.7802 = 4.6336 < 6.0237] w=0.9692 to align # Constraint # added constraint: constraint((T0376)G100.CA, (T0376)I131.CB) [> 2.9488 = 4.9147 < 6.3891] w=0.9556 to align # Constraint # added constraint: constraint((T0376)G100.CA, (T0376)A133.CB) [> 4.1457 = 6.9096 < 8.9824] w=0.9553 to align # Constraint # added constraint: constraint((T0376)T78.CB, (T0376)M102.CB) [> 4.2027 = 7.0046 < 9.1059] w=0.9537 to align # Constraint # added constraint: constraint((T0376)L101.CB, (T0376)P132.CB) [> 4.3178 = 7.1963 < 9.3552] w=0.9479 to align # Constraint # added constraint: constraint((T0376)G100.CA, (T0376)P132.CB) [> 2.8115 = 4.6858 < 6.0916] w=0.9479 to align # Constraint # added constraint: constraint((T0376)V74.CB, (T0376)A98.CB) [> 3.0991 = 5.1651 < 6.7147] w=0.9460 to align # Constraint # added constraint: constraint((T0376)A42.CB, (T0376)P73.CB) [> 2.5460 = 4.2434 < 5.5164] w=0.9449 to align # Constraint # added constraint: constraint((T0376)V74.CB, (T0376)K99.CB) [> 3.5397 = 5.8996 < 7.6694] w=0.9383 to align # Constraint # added constraint: constraint((T0376)I75.CB, (T0376)K99.CB) [> 4.0258 = 6.7096 < 8.7225] w=0.9383 to align # Constraint # added constraint: constraint((T0376)K99.CB, (T0376)P132.CB) [> 4.1888 = 6.9814 < 9.0758] w=0.9322 to align # Constraint # added constraint: constraint((T0376)G100.CA, (T0376)V134.CB) [> 4.2154 = 7.0257 < 9.1334] w=0.9322 to align # Constraint # added constraint: constraint((T0376)Q94.CB, (T0376)I131.CB) [> 3.5650 = 5.9416 < 7.7241] w=0.9322 to align # Constraint # added constraint: constraint((T0376)T78.CB, (T0376)L101.CB) [> 3.4211 = 5.7019 < 7.4125] w=0.9322 to align # Constraint # added constraint: constraint((T0376)V134.CB, (T0376)V161.CB) [> 3.7528 = 6.2546 < 8.1310] w=0.9247 to align # Constraint # added constraint: constraint((T0376)V76.CB, (T0376)M102.CB) [> 4.1762 = 6.9604 < 9.0485] w=0.9232 to align # Constraint # added constraint: constraint((T0376)I75.CB, (T0376)A98.CB) [> 4.0151 = 6.6918 < 8.6993] w=0.9163 to align # Constraint # added constraint: constraint((T0376)I75.CB, (T0376)M102.CB) [> 3.2803 = 5.4671 < 7.1072] w=0.9155 to align # Constraint # added constraint: constraint((T0376)V44.CB, (T0376)I75.CB) [> 2.8515 = 4.7525 < 6.1783] w=0.9115 to align # Constraint # added constraint: constraint((T0376)V43.CB, (T0376)P73.CB) [> 4.3869 = 7.3115 < 9.5050] w=0.9097 to align # Constraint # added constraint: constraint((T0376)T78.CB, (T0376)A93.CB) [> 3.8825 = 6.4709 < 8.4122] w=0.9093 to align # Constraint # added constraint: constraint((T0376)I124.CB, (T0376)A133.CB) [> 3.7057 = 6.1762 < 8.0291] w=0.9085 to align # Constraint # added constraint: constraint((T0376)Y45.CB, (T0376)V76.CB) [> 3.3144 = 5.5240 < 7.1813] w=0.9076 to align # Constraint # added constraint: constraint((T0376)L101.CB, (T0376)I131.CB) [> 3.3939 = 5.6566 < 7.3536] w=0.9033 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)L160.CB) [> 3.4252 = 5.7086 < 7.4212] w=0.9019 to align # Constraint # added constraint: constraint((T0376)T78.CB, (T0376)H89.CB) [> 2.8436 = 4.7394 < 6.1612] w=0.9018 to align # Constraint # added constraint: constraint((T0376)V43.CB, (T0376)V74.CB) [> 3.3487 = 5.5812 < 7.2555] w=0.9018 to align # Constraint # added constraint: constraint((T0376)G77.CA, (T0376)V103.CB) [> 4.0915 = 6.8192 < 8.8649] w=0.9003 to align # Constraint # added constraint: constraint((T0376)A42.CB, (T0376)V74.CB) [> 4.1422 = 6.9037 < 8.9748] w=0.8986 to align # Constraint # added constraint: constraint((T0376)V43.CB, (T0376)I75.CB) [> 4.1544 = 6.9240 < 9.0012] w=0.8941 to align # Constraint # added constraint: constraint((T0376)A90.CB, (T0376)L101.CB) [> 3.3735 = 5.6225 < 7.3092] w=0.8934 to align # Constraint # added constraint: constraint((T0376)Y45.CB, (T0376)I75.CB) [> 4.1408 = 6.9014 < 8.9718] w=0.8922 to align # Constraint # added constraint: constraint((T0376)A42.CB, (T0376)I75.CB) [> 3.6304 = 6.0506 < 7.8658] w=0.8909 to align # Constraint # added constraint: constraint((T0376)A42.CB, (T0376)I72.CB) [> 3.5679 = 5.9464 < 7.7304] w=0.8908 to align # Constraint # added constraint: constraint((T0376)M189.CB, (T0376)A205.CB) [> 3.6923 = 6.1539 < 8.0001] w=0.8857 to align # Constraint # added constraint: constraint((T0376)S41.CB, (T0376)P73.CB) [> 3.9885 = 6.6475 < 8.6418] w=0.8846 to align # Constraint # added constraint: constraint((T0376)Y45.CB, (T0376)V74.CB) [> 3.8345 = 6.3909 < 8.3082] w=0.8743 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)G162.CA) [> 3.7888 = 6.3146 < 8.2090] w=0.8735 to align # Constraint # added constraint: constraint((T0376)V103.CB, (T0376)I135.CB) [> 3.6812 = 6.1354 < 7.9760] w=0.8708 to align # Constraint # added constraint: constraint((T0376)I104.CB, (T0376)Y136.CB) [> 2.9162 = 4.8604 < 6.3185] w=0.8708 to align # Constraint # added constraint: constraint((T0376)L188.CB, (T0376)T206.CB) [> 3.4923 = 5.8204 < 7.5666] w=0.8703 to align # Constraint # added constraint: constraint((T0376)V64.CB, (T0376)V96.CB) [> 3.0905 = 5.1507 < 6.6960] w=0.8697 to align # Constraint # added constraint: constraint((T0376)I36.CB, (T0376)I72.CB) [> 3.2809 = 5.4682 < 7.1087] w=0.8696 to align # Constraint # added constraint: constraint((T0376)S41.CB, (T0376)I72.CB) [> 4.1085 = 6.8475 < 8.9017] w=0.8690 to align # Constraint # added constraint: constraint((T0376)V103.CB, (T0376)A133.CB) [> 3.9686 = 6.6144 < 8.5987] w=0.8631 to align # Constraint # added constraint: constraint((T0376)M189.CB, (T0376)G207.CA) [> 3.3390 = 5.5649 < 7.2344] w=0.8625 to align # Constraint # added constraint: constraint((T0376)P105.CB, (T0376)Y136.CB) [> 3.8323 = 6.3871 < 8.3032] w=0.8554 to align # Constraint # added constraint: constraint((T0376)M102.CB, (T0376)Y136.CB) [> 3.5041 = 5.8402 < 7.5922] w=0.8551 to align # Constraint # added constraint: constraint((T0376)T78.CB, (T0376)V103.CB) [> 3.3920 = 5.6533 < 7.3493] w=0.8550 to align # Constraint # added constraint: constraint((T0376)V64.CB, (T0376)A93.CB) [> 3.7207 = 6.2012 < 8.0616] w=0.8538 to align # Constraint # added constraint: constraint((T0376)M40.CB, (T0376)I72.CB) [> 3.9982 = 6.6637 < 8.6628] w=0.8536 to align # Constraint # added constraint: constraint((T0376)Y45.CB, (T0376)G77.CA) [> 3.8952 = 6.4921 < 8.4397] w=0.8536 to align # Constraint # added constraint: constraint((T0376)G32.CA, (T0376)V43.CB) [> 3.6943 = 6.1571 < 8.0042] w=0.8531 to align # Constraint # added constraint: constraint((T0376)A133.CB, (T0376)L160.CB) [> 3.2877 = 5.4795 < 7.1234] w=0.8507 to align # Constraint # added constraint: constraint((T0376)V134.CB, (T0376)G162.CA) [> 3.1587 = 5.2644 < 6.8438] w=0.8503 to align # Constraint # added constraint: constraint((T0376)A98.CB, (T0376)I131.CB) [> 4.1356 = 6.8926 < 8.9604] w=0.8488 to align # Constraint # added constraint: constraint((T0376)A90.CB, (T0376)I124.CB) [> 3.2353 = 5.3922 < 7.0099] w=0.8478 to align # Constraint # added constraint: constraint((T0376)V103.CB, (T0376)Y136.CB) [> 3.8467 = 6.4111 < 8.3344] w=0.8476 to align # Constraint # added constraint: constraint((T0376)V103.CB, (T0376)V134.CB) [> 4.2355 = 7.0592 < 9.1769] w=0.8475 to align # Constraint # added constraint: constraint((T0376)V74.CB, (T0376)G97.CA) [> 4.2489 = 7.0815 < 9.2059] w=0.8474 to align # Constraint # added constraint: constraint((T0376)G162.CA, (T0376)L188.CB) [> 3.6701 = 6.1169 < 7.9519] w=0.8432 to align # Constraint # added constraint: constraint((T0376)E65.CB, (T0376)V96.CB) [> 3.3925 = 5.6542 < 7.3505] w=0.8387 to align # Constraint # added constraint: constraint((T0376)A133.CB, (T0376)V161.CB) [> 3.7278 = 6.2129 < 8.0768] w=0.8351 to align # Constraint # added constraint: constraint((T0376)T78.CB, (T0376)A90.CB) [> 3.2541 = 5.4236 < 7.0506] w=0.8335 to align # Constraint # added constraint: constraint((T0376)I190.CB, (T0376)A208.CB) [> 3.2086 = 5.3476 < 6.9519] w=0.8323 to align # Constraint # added constraint: constraint((T0376)V68.CB, (T0376)G97.CA) [> 3.2252 = 5.3752 < 6.9878] w=0.8313 to align # Constraint # added constraint: constraint((T0376)V64.CB, (T0376)A98.CB) [> 3.6279 = 6.0465 < 7.8605] w=0.8312 to align # Constraint # added constraint: constraint((T0376)V64.CB, (T0376)V76.CB) [> 3.4387 = 5.7312 < 7.4505] w=0.8307 to align # Constraint # added constraint: constraint((T0376)V74.CB, (T0376)G100.CA) [> 4.4401 = 7.4002 < 9.6202] w=0.8306 to align # Constraint # added constraint: constraint((T0376)G162.CA, (T0376)T187.CB) [> 3.1203 = 5.2005 < 6.7607] w=0.8277 to align # Constraint # added constraint: constraint((T0376)V44.CB, (T0376)G77.CA) [> 3.9401 = 6.5668 < 8.5369] w=0.8273 to align # Constraint # added constraint: constraint((T0376)V91.CB, (T0376)A127.CB) [> 3.6578 = 6.0963 < 7.9252] w=0.8247 to align # Constraint # added constraint: constraint((T0376)V68.CB, (T0376)A98.CB) [> 4.1189 = 6.8648 < 8.9243] w=0.8231 to align # Constraint # added constraint: constraint((T0376)P132.CB, (T0376)V161.CB) [> 2.8566 = 4.7610 < 6.1893] w=0.8120 to align # Constraint # added constraint: constraint((T0376)G79.CA, (T0376)V103.CB) [> 3.1828 = 5.3047 < 6.8961] w=0.8093 to align # Constraint # added constraint: constraint((T0376)I75.CB, (T0376)V134.CB) [> 4.1184 = 6.8640 < 8.9232] w=0.8088 to align # Constraint # added constraint: constraint((T0376)G191.CA, (T0376)A208.CB) [> 3.7743 = 6.2904 < 8.1775] w=0.8085 to align # Constraint # added constraint: constraint((T0376)F121.CB, (T0376)A133.CB) [> 4.1031 = 6.8385 < 8.8900] w=0.8083 to align # Constraint # added constraint: constraint((T0376)N137.CB, (T0376)K164.CB) [> 3.9153 = 6.5256 < 8.4832] w=0.8043 to align # Constraint # added constraint: constraint((T0376)G79.CA, (T0376)I104.CB) [> 3.1732 = 5.2886 < 6.8752] w=0.8023 to align # Constraint # added constraint: constraint((T0376)L188.CB, (T0376)A205.CB) [> 3.0750 = 5.1250 < 6.6625] w=0.8002 to align # Constraint # added constraint: constraint((T0376)F163.CB, (T0376)L188.CB) [> 3.8066 = 6.3444 < 8.2477] w=0.7969 to align # Constraint # added constraint: constraint((T0376)G32.CA, (T0376)L67.CB) [> 4.0088 = 6.6813 < 8.6857] w=0.7916 to align # Constraint # added constraint: constraint((T0376)K99.CB, (T0376)I131.CB) [> 4.0479 = 6.7466 < 8.7706] w=0.7859 to align # Constraint # added constraint: constraint((T0376)V197.CB, (T0376)A208.CB) [> 3.0173 = 5.0289 < 6.5376] w=0.7848 to align # Constraint # added constraint: constraint((T0376)N137.CB, (T0376)F163.CB) [> 3.7581 = 6.2635 < 8.1425] w=0.7815 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)F163.CB) [> 3.2712 = 5.4521 < 7.0877] w=0.7811 to align # Constraint # added constraint: constraint((T0376)A133.CB, (T0376)N159.CB) [> 3.7734 = 6.2890 < 8.1757] w=0.7798 to align # Constraint # added constraint: constraint((T0376)G79.CA, (T0376)H89.CB) [> 4.0978 = 6.8297 < 8.8786] w=0.7796 to align # Constraint # added constraint: constraint((T0376)C46.CB, (T0376)G77.CA) [> 3.2279 = 5.3798 < 6.9938] w=0.7788 to align # Constraint # added constraint: constraint((T0376)I190.CB, (T0376)G207.CA) [> 3.6998 = 6.1663 < 8.0162] w=0.7783 to align # Constraint # added constraint: constraint((T0376)I190.CB, (T0376)A205.CB) [> 2.8876 = 4.8127 < 6.2565] w=0.7783 to align # Constraint # added constraint: constraint((T0376)M189.CB, (T0376)T206.CB) [> 3.9277 = 6.5461 < 8.5099] w=0.7783 to align # Constraint # added constraint: constraint((T0376)I190.CB, (T0376)I209.CB) [> 3.8951 = 6.4919 < 8.4395] w=0.7775 to align # Constraint # added constraint: constraint((T0376)V87.CB, (T0376)A123.CB) [> 3.5353 = 5.8921 < 7.6597] w=0.7707 to align # Constraint # added constraint: constraint((T0376)V44.CB, (T0376)M102.CB) [> 3.7876 = 6.3127 < 8.2065] w=0.7674 to align # Constraint # added constraint: constraint((T0376)F25.CB, (T0376)R66.CB) [> 3.5675 = 5.9459 < 7.7297] w=0.7643 to align # Constraint # added constraint: constraint((T0376)T187.CB, (T0376)T206.CB) [> 3.0088 = 5.0146 < 6.5190] w=0.7617 to align # Constraint # added constraint: constraint((T0376)L188.CB, (T0376)G207.CA) [> 4.2791 = 7.1319 < 9.2714] w=0.7610 to align # Constraint # added constraint: constraint((T0376)V134.CB, (T0376)F163.CB) [> 3.9169 = 6.5283 < 8.4867] w=0.7585 to align # Constraint # added constraint: constraint((T0376)G191.CA, (T0376)I209.CB) [> 3.0211 = 5.0351 < 6.5457] w=0.7544 to align # Constraint # added constraint: constraint((T0376)V68.CB, (T0376)V96.CB) [> 3.6193 = 6.0322 < 7.8418] w=0.7539 to align # Constraint # added constraint: constraint((T0376)M61.CB, (T0376)H92.CB) [> 3.3162 = 5.5271 < 7.1852] w=0.7538 to align # Constraint # added constraint: constraint((T0376)P105.CB, (T0376)N137.CB) [> 3.6352 = 6.0587 < 7.8763] w=0.7478 to align # Constraint # added constraint: constraint((T0376)Y45.CB, (T0376)L67.CB) [> 3.4824 = 5.8040 < 7.5452] w=0.7440 to align # Constraint # added constraint: constraint((T0376)F163.CB, (T0376)M189.CB) [> 3.8068 = 6.3447 < 8.2481] w=0.7434 to align # Constraint # added constraint: constraint((T0376)G162.CA, (T0376)M189.CB) [> 4.0140 = 6.6900 < 8.6969] w=0.7433 to align # Constraint # added constraint: constraint((T0376)V161.CB, (T0376)T187.CB) [> 3.6630 = 6.1049 < 7.9364] w=0.7433 to align # Constraint # added constraint: constraint((T0376)Y45.CB, (T0376)V64.CB) [> 3.5833 = 5.9722 < 7.7639] w=0.7430 to align # Constraint # added constraint: constraint((T0376)P105.CB, (T0376)Q117.CB) [> 3.5468 = 5.9113 < 7.6847] w=0.7404 to align # Constraint # added constraint: constraint((T0376)F121.CB, (T0376)I135.CB) [> 3.7666 = 6.2777 < 8.1610] w=0.7400 to align # Constraint # added constraint: constraint((T0376)M189.CB, (T0376)A208.CB) [> 3.9464 = 6.5773 < 8.5505] w=0.7390 to align # Constraint # added constraint: constraint((T0376)Y136.CB, (T0376)K164.CB) [> 3.0026 = 5.0043 < 6.5056] w=0.7276 to align # Constraint # added constraint: constraint((T0376)T83.CB, (T0376)A123.CB) [> 3.2428 = 5.4047 < 7.0262] w=0.7247 to align # Constraint # added constraint: constraint((T0376)M102.CB, (T0376)I135.CB) [> 4.4279 = 7.3798 < 9.5937] w=0.7154 to align # Constraint # added constraint: constraint((T0376)V43.CB, (T0376)L67.CB) [> 3.8962 = 6.4937 < 8.4418] w=0.7138 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)V44.CB) [> 3.2614 = 5.4356 < 7.0663] w=0.7135 to align # Constraint # added constraint: constraint((T0376)V87.CB, (T0376)I124.CB) [> 3.7471 = 6.2452 < 8.1187] w=0.7094 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)A42.CB) [> 3.0153 = 5.0255 < 6.5332] w=0.7060 to align # Constraint # added constraint: constraint((T0376)V134.CB, (T0376)L160.CB) [> 3.9951 = 6.6585 < 8.6560] w=0.7016 to align # Constraint # added constraint: constraint((T0376)M189.CB, (T0376)I209.CB) [> 3.5251 = 5.8752 < 7.6378] w=0.6998 to align # Constraint # added constraint: constraint((T0376)V103.CB, (T0376)I124.CB) [> 3.6683 = 6.1139 < 7.9480] w=0.6940 to align # Constraint # added constraint: constraint((T0376)A86.CB, (T0376)I124.CB) [> 3.3909 = 5.6514 < 7.3469] w=0.6940 to align # Constraint # added constraint: constraint((T0376)P105.CB, (T0376)I135.CB) [> 4.0146 = 6.6910 < 8.6983] w=0.6937 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)V44.CB) [> 3.6954 = 6.1590 < 8.0067] w=0.6915 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)V44.CB) [> 3.9811 = 6.6352 < 8.6258] w=0.6904 to align # Constraint # added constraint: constraint((T0376)K164.CB, (T0376)G191.CA) [> 3.9387 = 6.5645 < 8.5339] w=0.6898 to align # Constraint # added constraint: constraint((T0376)M102.CB, (T0376)A133.CB) [> 4.3729 = 7.2881 < 9.4746] w=0.6857 to align # Constraint # added constraint: constraint((T0376)D57.CB, (T0376)H89.CB) [> 3.6213 = 6.0355 < 7.8461] w=0.6854 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)S41.CB) [> 3.3283 = 5.5472 < 7.2114] w=0.6827 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)M40.CB) [> 3.7845 = 6.3075 < 8.1997] w=0.6827 to align # Constraint # added constraint: constraint((T0376)L125.CB, (T0376)N159.CB) [> 2.6603 = 4.4338 < 5.7640] w=0.6740 to align # Constraint # added constraint: constraint((T0376)V44.CB, (T0376)V76.CB) [> 4.5422 = 7.5703 < 9.8413] w=0.6740 to align # Constraint # added constraint: constraint((T0376)F163.CB, (T0376)T187.CB) [> 4.2343 = 7.0571 < 9.1743] w=0.6664 to align # Constraint # added constraint: constraint((T0376)G162.CA, (T0376)V186.CB) [> 3.3565 = 5.5941 < 7.2723] w=0.6659 to align # Constraint # added constraint: constraint((T0376)F121.CB, (T0376)L160.CB) [> 3.8209 = 6.3682 < 8.2787] w=0.6592 to align # Constraint # added constraint: constraint((T0376)V103.CB, (T0376)F121.CB) [> 4.0782 = 6.7970 < 8.8360] w=0.6555 to align # Constraint # added constraint: constraint((T0376)G191.CA, (T0376)T210.CB) [> 4.2027 = 7.0045 < 9.1058] w=0.6553 to align # Constraint # added constraint: constraint((T0376)L28.CB, (T0376)L67.CB) [> 3.8812 = 6.4687 < 8.4093] w=0.6548 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)M40.CB) [> 3.0636 = 5.1059 < 6.6377] w=0.6529 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)V43.CB) [> 3.4284 = 5.7140 < 7.4283] w=0.6520 to align # Constraint # added constraint: constraint((T0376)V134.CB, (T0376)M189.CB) [> 3.9318 = 6.5530 < 8.5189] w=0.6473 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)G207.CA) [> 3.9386 = 6.5644 < 8.5337] w=0.6444 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)K164.CB) [> 4.1039 = 6.8398 < 8.8917] w=0.6432 to align # Constraint # added constraint: constraint((T0376)V134.CB, (T0376)K164.CB) [> 3.3482 = 5.5804 < 7.2545] w=0.6432 to align # Constraint # added constraint: constraint((T0376)V29.CB, (T0376)R66.CB) [> 3.3566 = 5.5944 < 7.2727] w=0.6424 to align # Constraint # added constraint: constraint((T0376)V44.CB, (T0376)I209.CB) [> 3.6522 = 6.0870 < 7.9131] w=0.6423 to align # Constraint # added constraint: constraint((T0376)A86.CB, (T0376)H120.CB) [> 4.0204 = 6.7007 < 8.7109] w=0.6403 to align # Constraint # added constraint: constraint((T0376)I190.CB, (T0376)F200.CB) [> 2.6382 = 4.3971 < 5.7162] w=0.6396 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)A42.CB) [> 4.1843 = 6.9738 < 9.0659] w=0.6377 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)S41.CB) [> 3.5268 = 5.8780 < 7.6415] w=0.6375 to align # Constraint # added constraint: constraint((T0376)A80.CB, (T0376)H89.CB) [> 3.5294 = 5.8824 < 7.6471] w=0.6349 to align # Constraint # added constraint: constraint((T0376)L188.CB, (T0376)G204.CA) [> 3.9311 = 6.5518 < 8.5173] w=0.6317 to align # Constraint # added constraint: constraint((T0376)A86.CB, (T0376)V103.CB) [> 3.9502 = 6.5836 < 8.5587] w=0.6314 to align # Constraint # added constraint: constraint((T0376)F166.CB, (T0376)G191.CA) [> 3.3153 = 5.5255 < 7.1831] w=0.6306 to align # Constraint # added constraint: constraint((T0376)Y45.CB, (T0376)G63.CA) [> 4.0488 = 6.7480 < 8.7724] w=0.6296 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)V44.CB) [> 3.4924 = 5.8206 < 7.5668] w=0.6259 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)V43.CB) [> 3.9361 = 6.5601 < 8.5282] w=0.6259 to align # Constraint # added constraint: constraint((T0376)G47.CA, (T0376)G77.CA) [> 3.5083 = 5.8471 < 7.6013] w=0.6241 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)V43.CB) [> 3.3705 = 5.6174 < 7.3026] w=0.6236 to align # Constraint # added constraint: constraint((T0376)I36.CB, (T0376)G71.CA) [> 3.9295 = 6.5491 < 8.5138] w=0.6213 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)A208.CB) [> 3.6388 = 6.0647 < 7.8841] w=0.6212 to align # Constraint # added constraint: constraint((T0376)L28.CB, (T0376)G63.CA) [> 3.8547 = 6.4245 < 8.3519] w=0.6152 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)M40.CB) [> 3.3848 = 5.6413 < 7.3337] w=0.6140 to align # Constraint # added constraint: constraint((T0376)C46.CB, (T0376)V76.CB) [> 3.8998 = 6.4997 < 8.4496] w=0.6105 to align # Constraint # added constraint: constraint((T0376)I104.CB, (T0376)S138.CB) [> 4.0908 = 6.8180 < 8.8634] w=0.6067 to align # Constraint # added constraint: constraint((T0376)A90.CB, (T0376)A128.CB) [> 3.1546 = 5.2577 < 6.8350] w=0.6060 to align # Constraint # added constraint: constraint((T0376)L125.CB, (T0376)L160.CB) [> 4.0679 = 6.7799 < 8.8139] w=0.6053 to align # Constraint # added constraint: constraint((T0376)T83.CB, (T0376)H120.CB) [> 3.2511 = 5.4184 < 7.0440] w=0.5995 to align # Constraint # added constraint: constraint((T0376)M102.CB, (T0376)K164.CB) [> 3.8504 = 6.4173 < 8.3425] w=0.5904 to align # Constraint # added constraint: constraint((T0376)Q94.CB, (T0376)E130.CB) [> 4.0736 = 6.7894 < 8.8262] w=0.5877 to align # Constraint # added constraint: constraint((T0376)G77.CA, (T0376)A93.CB) [> 4.4336 = 7.3894 < 9.6062] w=0.5860 to align # Constraint # added constraint: constraint((T0376)N137.CB, (T0376)E165.CB) [> 3.2233 = 5.3722 < 6.9839] w=0.5838 to align # Constraint # added constraint: constraint((T0376)K164.CB, (T0376)M189.CB) [> 3.0512 = 5.0854 < 6.6110] w=0.5818 to align # Constraint # added constraint: constraint((T0376)A176.CB, (T0376)C203.CB) [> 3.2234 = 5.3722 < 6.9839] w=0.5787 to align # Constraint # added constraint: constraint((T0376)Y136.CB, (T0376)F163.CB) [> 3.9558 = 6.5930 < 8.5709] w=0.5736 to align # Constraint # added constraint: constraint((T0376)V76.CB, (T0376)V96.CB) [> 4.2720 = 7.1199 < 9.2559] w=0.5721 to align # Constraint # added constraint: constraint((T0376)K164.CB, (T0376)I190.CB) [> 3.8990 = 6.4983 < 8.4477] w=0.5703 to align # Constraint # added constraint: constraint((T0376)K118.CB, (T0376)L153.CB) [> 3.8195 = 6.3658 < 8.2756] w=0.5605 to align # Constraint # added constraint: constraint((T0376)P105.CB, (T0376)S138.CB) [> 3.9436 = 6.5727 < 8.5445] w=0.5543 to align # Constraint # added constraint: constraint((T0376)V161.CB, (T0376)V186.CB) [> 3.9852 = 6.6419 < 8.6345] w=0.5539 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)Y45.CB) [> 3.3742 = 5.6237 < 7.3108] w=0.5498 to align # Constraint # added constraint: constraint((T0376)G77.CA, (T0376)I104.CB) [> 4.1676 = 6.9459 < 9.0297] w=0.5491 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)A208.CB) [> 4.0731 = 6.7885 < 8.8250] w=0.5452 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)G207.CA) [> 4.2382 = 7.0637 < 9.1828] w=0.5452 to align # Constraint # added constraint: constraint((T0376)A90.CB, (T0376)V103.CB) [> 4.4199 = 7.3665 < 9.5764] w=0.5384 to align # Constraint # added constraint: constraint((T0376)S138.CB, (T0376)G167.CA) [> 3.6997 = 6.1662 < 8.0160] w=0.5372 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)L35.CB) [> 3.0375 = 5.0624 < 6.5812] w=0.5345 to align # Constraint # added constraint: constraint((T0376)A42.CB, (T0376)K99.CB) [> 4.5570 = 7.5951 < 9.8736] w=0.5326 to align # Constraint # added constraint: constraint((T0376)E165.CB, (T0376)I190.CB) [> 3.8535 = 6.4225 < 8.3492] w=0.5306 to align # Constraint # added constraint: constraint((T0376)P73.CB, (T0376)G100.CA) [> 4.2958 = 7.1596 < 9.3075] w=0.5258 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)G211.CA) [> 2.8479 = 4.7465 < 6.1705] w=0.5247 to align # Constraint # added constraint: constraint((T0376)L101.CB, (T0376)A128.CB) [> 3.6618 = 6.1030 < 7.9339] w=0.5227 to align # Constraint # added constraint: constraint((T0376)T187.CB, (T0376)G207.CA) [> 4.4254 = 7.3758 < 9.5885] w=0.5211 to align # Constraint # added constraint: constraint((T0376)K164.CB, (T0376)I209.CB) [> 3.8189 = 6.3649 < 8.2743] w=0.5197 to align # Constraint # added constraint: constraint((T0376)F150.CB, (T0376)N178.CB) [> 3.4767 = 5.7945 < 7.5328] w=0.5140 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)T210.CB) [> 4.0669 = 6.7781 < 8.8116] w=0.5131 to align # Constraint # added constraint: constraint((T0376)V64.CB, (T0376)G97.CA) [> 3.7151 = 6.1919 < 8.0494] w=0.5084 to align # Constraint # added constraint: constraint((T0376)T83.CB, (T0376)A119.CB) [> 4.2839 = 7.1399 < 9.2818] w=0.5014 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)K31.CB) [> 3.7494 = 6.2490 < 8.1236] w=0.5000 to align # Constraint # added constraint: constraint((T0376)G167.CA, (T0376)G191.CA) [> 4.3132 = 7.1886 < 9.3452] w=0.4975 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)I75.CB) [> 4.1733 = 6.9555 < 9.0422] w=0.4972 to align # Constraint # added constraint: constraint((T0376)F163.CB, (T0376)V186.CB) [> 3.9988 = 6.6647 < 8.6641] w=0.4971 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)G211.CA) [> 3.8582 = 6.4303 < 8.3594] w=0.4954 to align # Constraint # added constraint: constraint((T0376)G8.CA, (T0376)S41.CB) [> 2.7615 = 4.6025 < 5.9833] w=0.4939 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)G32.CA) [> 4.1050 = 6.8417 < 8.8941] w=0.4927 to align # Constraint # added constraint: constraint((T0376)D57.CB, (T0376)A88.CB) [> 3.9242 = 6.5403 < 8.5024] w=0.4927 to align # Constraint # added constraint: constraint((T0376)F121.CB, (T0376)H157.CB) [> 3.7878 = 6.3130 < 8.2069] w=0.4920 to align # Constraint # added constraint: constraint((T0376)T83.CB, (T0376)I124.CB) [> 4.2394 = 7.0656 < 9.1853] w=0.4920 to align # Constraint # added constraint: constraint((T0376)A147.CB, (T0376)E177.CB) [> 3.2057 = 5.3428 < 6.9456] w=0.4917 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)T210.CB) [> 3.8103 = 6.3505 < 8.2557] w=0.4911 to align # Constraint # added constraint: constraint((T0376)I179.CB, (T0376)G204.CA) [> 3.1119 = 5.1865 < 6.7425] w=0.4909 to align # Constraint # added constraint: constraint((T0376)I179.CB, (T0376)L188.CB) [> 3.5438 = 5.9064 < 7.6783] w=0.4867 to align # Constraint # added constraint: constraint((T0376)M172.CB, (T0376)F200.CB) [> 4.0268 = 6.7113 < 8.7247] w=0.4863 to align # Constraint # added constraint: constraint((T0376)E165.CB, (T0376)G191.CA) [> 3.6414 = 6.0689 < 7.8896] w=0.4856 to align # Constraint # added constraint: constraint((T0376)L35.CB, (T0376)I72.CB) [> 4.0518 = 6.7531 < 8.7790] w=0.4841 to align # Constraint # added constraint: constraint((T0376)M61.CB, (T0376)A93.CB) [> 4.1389 = 6.8981 < 8.9676] w=0.4840 to align # Constraint # added constraint: constraint((T0376)A147.CB, (T0376)N178.CB) [> 3.6027 = 6.0045 < 7.8059] w=0.4833 to align # Constraint # added constraint: constraint((T0376)S7.CB, (T0376)S41.CB) [> 3.4215 = 5.7025 < 7.4133] w=0.4827 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)A27.CB) [> 2.7846 = 4.6410 < 6.0332] w=0.4819 to align # Constraint # added constraint: constraint((T0376)R60.CB, (T0376)H89.CB) [> 3.7599 = 6.2664 < 8.1464] w=0.4778 to align # Constraint # added constraint: constraint((T0376)A133.CB, (T0376)G162.CA) [> 4.4255 = 7.3758 < 9.5886] w=0.4775 to align # Constraint # added constraint: constraint((T0376)E165.CB, (T0376)M189.CB) [> 4.0170 = 6.6950 < 8.7035] w=0.4769 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)L153.CB) [> 3.2808 = 5.4680 < 7.1084] w=0.4753 to align # Constraint # added constraint: constraint((T0376)R106.CB, (T0376)Q117.CB) [> 4.2569 = 7.0949 < 9.2234] w=0.4704 to align # Constraint # added constraint: constraint((T0376)A90.CB, (T0376)I131.CB) [> 4.1775 = 6.9626 < 9.0514] w=0.4691 to align # Constraint # added constraint: constraint((T0376)N137.CB, (T0376)G167.CA) [> 3.9922 = 6.6537 < 8.6498] w=0.4678 to align # Constraint # added constraint: constraint((T0376)A176.CB, (T0376)G204.CA) [> 3.9875 = 6.6458 < 8.6395] w=0.4639 to align # Constraint # added constraint: constraint((T0376)V91.CB, (T0376)A128.CB) [> 4.0142 = 6.6903 < 8.6974] w=0.4612 to align # Constraint # added constraint: constraint((T0376)A175.CB, (T0376)A205.CB) [> 3.5969 = 5.9948 < 7.7932] w=0.4601 to align # Constraint # added constraint: constraint((T0376)A175.CB, (T0376)C203.CB) [> 2.8062 = 4.6771 < 6.0802] w=0.4600 to align # Constraint # added constraint: constraint((T0376)F121.CB, (T0376)L153.CB) [> 3.4558 = 5.7597 < 7.4876] w=0.4594 to align # Constraint # added constraint: constraint((T0376)L160.CB, (T0376)V186.CB) [> 3.8923 = 6.4872 < 8.4334] w=0.4571 to align # Constraint # added constraint: constraint((T0376)G191.CA, (T0376)F200.CB) [> 4.1006 = 6.8343 < 8.8846] w=0.4568 to align # Constraint # added constraint: constraint((T0376)L125.CB, (T0376)H157.CB) [> 3.5649 = 5.9415 < 7.7239] w=0.4507 to align # Constraint # added constraint: constraint((T0376)F25.CB, (T0376)G63.CA) [> 3.6062 = 6.0103 < 7.8134] w=0.4484 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)L35.CB) [> 4.2161 = 7.0269 < 9.1350] w=0.4475 to align # Constraint # added constraint: constraint((T0376)M172.CB, (T0376)C203.CB) [> 3.1585 = 5.2642 < 6.8434] w=0.4454 to align # Constraint # added constraint: constraint((T0376)M61.CB, (T0376)V96.CB) [> 3.1725 = 5.2874 < 6.8737] w=0.4453 to align # Constraint # added constraint: constraint((T0376)Q117.CB, (T0376)L153.CB) [> 4.0463 = 6.7438 < 8.7670] w=0.4436 to align # Constraint # added constraint: constraint((T0376)K164.CB, (T0376)L188.CB) [> 4.3444 = 7.2407 < 9.4129] w=0.4422 to align # Constraint # added constraint: constraint((T0376)A93.CB, (T0376)I131.CB) [> 4.0990 = 6.8317 < 8.8812] w=0.4385 to align # Constraint # added constraint: constraint((T0376)C46.CB, (T0376)T78.CB) [> 4.0656 = 6.7760 < 8.8088] w=0.4380 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)I209.CB) [> 3.3763 = 5.6272 < 7.3153] w=0.4371 to align # Constraint # added constraint: constraint((T0376)G167.CA, (T0376)V192.CB) [> 3.7908 = 6.3180 < 8.2134] w=0.4369 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)K31.CB) [> 3.5069 = 5.8448 < 7.5983] w=0.4349 to align # Constraint # added constraint: constraint((T0376)R173.CB, (T0376)C203.CB) [> 3.5420 = 5.9034 < 7.6744] w=0.4337 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)L28.CB) [> 3.3563 = 5.5939 < 7.2721] w=0.4320 to align # Constraint # added constraint: constraint((T0376)F166.CB, (T0376)V192.CB) [> 2.9538 = 4.9230 < 6.4000] w=0.4315 to align # Constraint # added constraint: constraint((T0376)V81.CB, (T0376)S109.CB) [> 3.6971 = 6.1619 < 8.0105] w=0.4308 to align # Constraint # added constraint: constraint((T0376)Y45.CB, (T0376)A98.CB) [> 4.5413 = 7.5688 < 9.8394] w=0.4307 to align # Constraint # added constraint: constraint((T0376)G32.CA, (T0376)I72.CB) [> 4.1856 = 6.9761 < 9.0689] w=0.4302 to align # Constraint # added constraint: constraint((T0376)A175.CB, (T0376)F200.CB) [> 3.6215 = 6.0358 < 7.8465] w=0.4294 to align # Constraint # added constraint: constraint((T0376)V44.CB, (T0376)V74.CB) [> 4.5227 = 7.5378 < 9.7992] w=0.4273 to align # Constraint # added constraint: constraint((T0376)Y136.CB, (T0376)F166.CB) [> 4.2120 = 7.0200 < 9.1260] w=0.4235 to align # Constraint # added constraint: constraint((T0376)A175.CB, (T0376)L188.CB) [> 3.7907 = 6.3178 < 8.2131] w=0.4225 to align # Constraint # added constraint: constraint((T0376)A80.CB, (T0376)V103.CB) [> 4.0436 = 6.7393 < 8.7611] w=0.4218 to align # Constraint # added constraint: constraint((T0376)P139.CB, (T0376)G167.CA) [> 3.7031 = 6.1718 < 8.0233] w=0.4215 to align # Constraint # added constraint: constraint((T0376)V29.CB, (T0376)L67.CB) [> 3.7494 = 6.2490 < 8.1237] w=0.4214 to align # Constraint # added constraint: constraint((T0376)I179.CB, (T0376)C203.CB) [> 3.8673 = 6.4454 < 8.3791] w=0.4214 to align # Constraint # added constraint: constraint((T0376)V81.CB, (T0376)V107.CB) [> 3.3218 = 5.5363 < 7.1971] w=0.4175 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)I209.CB) [> 4.0890 = 6.8150 < 8.8595] w=0.4160 to align # Constraint # added constraint: constraint((T0376)V197.CB, (T0376)L223.CB) [> 3.5098 = 5.8497 < 7.6046] w=0.4152 to align # Constraint # added constraint: constraint((T0376)N137.CB, (T0376)F150.CB) [> 3.8965 = 6.4942 < 8.4424] w=0.4142 to align # Constraint # added constraint: constraint((T0376)G8.CA, (T0376)G207.CA) [> 2.7712 = 4.6187 < 6.0043] w=0.4107 to align # Constraint # added constraint: constraint((T0376)S138.CB, (T0376)F166.CB) [> 2.4082 = 4.0136 < 5.2177] w=0.4080 to align # Constraint # added constraint: constraint((T0376)S7.CB, (T0376)T206.CB) [> 3.3295 = 5.5492 < 7.2139] w=0.4075 to align # Constraint # added constraint: constraint((T0376)R60.CB, (T0376)V76.CB) [> 4.0532 = 6.7554 < 8.7821] w=0.4071 to align # Constraint # added constraint: constraint((T0376)A80.CB, (T0376)R106.CB) [> 4.1349 = 6.8915 < 8.9589] w=0.4070 to align # Constraint # added constraint: constraint((T0376)A147.CB, (T0376)S181.CB) [> 3.4285 = 5.7141 < 7.4284] w=0.4064 to align # Constraint # added constraint: constraint((T0376)R106.CB, (T0376)H120.CB) [> 3.5819 = 5.9699 < 7.7608] w=0.4014 to align # Constraint # added constraint: constraint((T0376)G39.CA, (T0376)I221.CB) [> 3.5071 = 5.8451 < 7.5987] w=0.4005 to align # Constraint # added constraint: constraint((T0376)D193.CB, (T0376)I212.CB) [> 3.8816 = 6.4693 < 8.4101] w=0.4003 to align # Constraint # added constraint: constraint((T0376)N137.CB, (T0376)F166.CB) [> 3.6294 = 6.0489 < 7.8636] w=0.3998 to align # Constraint # added constraint: constraint((T0376)F151.CB, (T0376)R182.CB) [> 3.8384 = 6.3973 < 8.3165] w=0.3996 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)K31.CB) [> 3.8563 = 6.4271 < 8.3553] w=0.3969 to align # Constraint # added constraint: constraint((T0376)P132.CB, (T0376)G162.CA) [> 4.4597 = 7.4328 < 9.6627] w=0.3966 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)T210.CB) [> 4.2583 = 7.0972 < 9.2264] w=0.3928 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)C46.CB) [> 4.2451 = 7.0752 < 9.1977] w=0.3924 to align # Constraint # added constraint: constraint((T0376)C46.CB, (T0376)R60.CB) [> 3.5349 = 5.8915 < 7.6590] w=0.3897 to align # Constraint # added constraint: constraint((T0376)G8.CA, (T0376)A208.CB) [> 3.9434 = 6.5724 < 8.5441] w=0.3875 to align # Constraint # added constraint: constraint((T0376)P105.CB, (T0376)H120.CB) [> 4.3805 = 7.3008 < 9.4911] w=0.3871 to align # Constraint # added constraint: constraint((T0376)V134.CB, (T0376)T187.CB) [> 4.3754 = 7.2923 < 9.4800] w=0.3865 to align # Constraint # added constraint: constraint((T0376)G79.CA, (T0376)M102.CB) [> 4.4136 = 7.3560 < 9.5627] w=0.3841 to align # Constraint # added constraint: constraint((T0376)G79.CA, (T0376)R106.CB) [> 4.4776 = 7.4627 < 9.7016] w=0.3838 to align # Constraint # added constraint: constraint((T0376)K118.CB, (T0376)A152.CB) [> 3.4733 = 5.7889 < 7.5255] w=0.3824 to align # Constraint # added constraint: constraint((T0376)F163.CB, (T0376)N178.CB) [> 3.9611 = 6.6019 < 8.5825] w=0.3796 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)C224.CB) [> 3.5715 = 5.9525 < 7.7383] w=0.3783 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)L28.CB) [> 3.9806 = 6.6344 < 8.6247] w=0.3783 to align # Constraint # added constraint: constraint((T0376)A86.CB, (T0376)A123.CB) [> 3.7986 = 6.3310 < 8.2303] w=0.3779 to align # Constraint # added constraint: constraint((T0376)T210.CB, (T0376)V220.CB) [> 3.5878 = 5.9797 < 7.7736] w=0.3775 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)G39.CA) [> 4.2122 = 7.0204 < 9.1265] w=0.3767 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)A42.CB) [> 4.0649 = 6.7749 < 8.8073] w=0.3758 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)I209.CB) [> 3.0031 = 5.0053 < 6.5068] w=0.3754 to align # Constraint # added constraint: constraint((T0376)L125.CB, (T0376)K158.CB) [> 4.0656 = 6.7760 < 8.8088] w=0.3722 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)V220.CB) [> 3.0569 = 5.0948 < 6.6232] w=0.3706 to align # Constraint # added constraint: constraint((T0376)H198.CB, (T0376)S227.CB) [> 3.8405 = 6.4008 < 8.3211] w=0.3698 to align # Constraint # added constraint: constraint((T0376)K31.CB, (T0376)N214.CB) [> 4.3758 = 7.2930 < 9.4809] w=0.3696 to align # Constraint # added constraint: constraint((T0376)V81.CB, (T0376)R106.CB) [> 2.9025 = 4.8375 < 6.2887] w=0.3695 to align # Constraint # added constraint: constraint((T0376)V201.CB, (T0376)S227.CB) [> 3.1454 = 5.2424 < 6.8151] w=0.3694 to align # Constraint # added constraint: constraint((T0376)I131.CB, (T0376)N159.CB) [> 4.2028 = 7.0046 < 9.1060] w=0.3692 to align # Constraint # added constraint: constraint((T0376)V161.CB, (T0376)L188.CB) [> 3.9886 = 6.6476 < 8.6419] w=0.3659 to align # Constraint # added constraint: constraint((T0376)T78.CB, (T0376)I104.CB) [> 4.1269 = 6.8782 < 8.9416] w=0.3642 to align # Constraint # added constraint: constraint((T0376)I190.CB, (T0376)V201.CB) [> 4.4148 = 7.3581 < 9.5655] w=0.3641 to align # Constraint # added constraint: constraint((T0376)K122.CB, (T0376)H157.CB) [> 3.7538 = 6.2563 < 8.1332] w=0.3620 to align # Constraint # added constraint: constraint((T0376)R106.CB, (T0376)S138.CB) [> 3.4883 = 5.8138 < 7.5580] w=0.3617 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)A42.CB) [> 3.9777 = 6.6296 < 8.6184] w=0.3610 to align # Constraint # added constraint: constraint((T0376)S138.CB, (T0376)E165.CB) [> 3.8707 = 6.4512 < 8.3865] w=0.3608 to align # Constraint # added constraint: constraint((T0376)A175.CB, (T0376)I190.CB) [> 3.7311 = 6.2185 < 8.0840] w=0.3600 to align # Constraint # added constraint: constraint((T0376)F150.CB, (T0376)F163.CB) [> 3.6782 = 6.1304 < 7.9695] w=0.3552 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)V43.CB) [> 3.9207 = 6.5346 < 8.4949] w=0.3550 to align # Constraint # added constraint: constraint((T0376)Y140.CB, (T0376)F166.CB) [> 4.1110 = 6.8516 < 8.9071] w=0.3531 to align # Constraint # added constraint: constraint((T0376)I179.CB, (T0376)A205.CB) [> 4.2478 = 7.0797 < 9.2036] w=0.3520 to align # Constraint # added constraint: constraint((T0376)P23.CB, (T0376)Q59.CB) [> 3.8493 = 6.4154 < 8.3400] w=0.3474 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)G213.CA) [> 3.0669 = 5.1115 < 6.6450] w=0.3474 to align # Constraint # added constraint: constraint((T0376)M40.CB, (T0376)G213.CA) [> 4.1894 = 6.9823 < 9.0770] w=0.3473 to align # Constraint # added constraint: constraint((T0376)D38.CB, (T0376)P217.CB) [> 2.8219 = 4.7032 < 6.1142] w=0.3471 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)M49.CB) [> 3.6590 = 6.0984 < 7.9279] w=0.3468 to align # Constraint # added constraint: constraint((T0376)F25.CB, (T0376)E62.CB) [> 3.8119 = 6.3532 < 8.2591] w=0.3465 to align # Constraint # added constraint: constraint((T0376)A133.CB, (T0376)H157.CB) [> 4.3470 = 7.2449 < 9.4184] w=0.3432 to align # Constraint # added constraint: constraint((T0376)I114.CB, (T0376)L153.CB) [> 3.9275 = 6.5459 < 8.5097] w=0.3413 to align # Constraint # added constraint: constraint((T0376)V76.CB, (T0376)A90.CB) [> 4.3723 = 7.2872 < 9.4733] w=0.3388 to align # Constraint # added constraint: constraint((T0376)V81.CB, (T0376)L108.CB) [> 3.5536 = 5.9227 < 7.6995] w=0.3386 to align # Constraint # added constraint: constraint((T0376)E165.CB, (T0376)L188.CB) [> 3.9817 = 6.6362 < 8.6271] w=0.3383 to align # Constraint # added constraint: constraint((T0376)D38.CB, (T0376)I221.CB) [> 3.5119 = 5.8532 < 7.6092] w=0.3383 to align # Constraint # added constraint: constraint((T0376)Y140.CB, (T0376)G167.CA) [> 4.1776 = 6.9627 < 9.0515] w=0.3378 to align # Constraint # added constraint: constraint((T0376)A175.CB, (T0376)G204.CA) [> 3.5463 = 5.9106 < 7.6837] w=0.3377 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)G63.CA) [> 4.2411 = 7.0685 < 9.1890] w=0.3320 to align # Constraint # added constraint: constraint((T0376)L35.CB, (T0376)P217.CB) [> 3.6638 = 6.1063 < 7.9382] w=0.3318 to align # Constraint # added constraint: constraint((T0376)G8.CA, (T0376)T206.CB) [> 4.1632 = 6.9387 < 9.0203] w=0.3315 to align # Constraint # added constraint: constraint((T0376)P132.CB, (T0376)L160.CB) [> 4.3610 = 7.2683 < 9.4488] w=0.3308 to align # Constraint # added constraint: constraint((T0376)V192.CB, (T0376)I209.CB) [> 4.0568 = 6.7613 < 8.7896] w=0.3294 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)N214.CB) [> 4.4528 = 7.4214 < 9.6478] w=0.3289 to align # Constraint # added constraint: constraint((T0376)S126.CB, (T0376)N159.CB) [> 4.6024 = 7.6706 < 9.9718] w=0.3281 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)N214.CB) [> 3.4438 = 5.7397 < 7.4616] w=0.3251 to align # Constraint # added constraint: constraint((T0376)W52.CB, (T0376)G79.CA) [> 4.4216 = 7.3693 < 9.5801] w=0.3246 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)G213.CA) [> 4.1754 = 6.9589 < 9.0466] w=0.3243 to align # Constraint # added constraint: constraint((T0376)T83.CB, (T0376)R106.CB) [> 4.5063 = 7.5105 < 9.7636] w=0.3243 to align # Constraint # added constraint: constraint((T0376)A208.CB, (T0376)V220.CB) [> 3.9640 = 6.6067 < 8.5887] w=0.3241 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)G50.CA) [> 2.7883 = 4.6471 < 6.0413] w=0.3240 to align # Constraint # added constraint: constraint((T0376)A147.CB, (T0376)Y174.CB) [> 3.6957 = 6.1595 < 8.0073] w=0.3234 to align # Constraint # added constraint: constraint((T0376)F166.CB, (T0376)I190.CB) [> 3.9589 = 6.5982 < 8.5776] w=0.3230 to align # Constraint # added constraint: constraint((T0376)R154.CB, (T0376)R182.CB) [> 3.5686 = 5.9476 < 7.7319] w=0.3217 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)M189.CB) [> 4.2193 = 7.0321 < 9.1418] w=0.3202 to align # Constraint # added constraint: constraint((T0376)M40.CB, (T0376)P217.CB) [> 3.0772 = 5.1287 < 6.6673] w=0.3166 to align # Constraint # added constraint: constraint((T0376)G39.CA, (T0376)P217.CB) [> 3.8335 = 6.3892 < 8.3060] w=0.3166 to align # Constraint # added constraint: constraint((T0376)N202.CB, (T0376)S227.CB) [> 4.0369 = 6.7281 < 8.7465] w=0.3166 to align # Constraint # added constraint: constraint((T0376)V107.CB, (T0376)Y141.CB) [> 4.2863 = 7.1439 < 9.2871] w=0.3163 to align # Constraint # added constraint: constraint((T0376)V197.CB, (T0376)T210.CB) [> 4.3179 = 7.1966 < 9.3555] w=0.3161 to align # Constraint # added constraint: constraint((T0376)A80.CB, (T0376)I104.CB) [> 4.0851 = 6.8086 < 8.8511] w=0.3153 to align # Constraint # added constraint: constraint((T0376)V192.CB, (T0376)A208.CB) [> 4.3031 = 7.1718 < 9.3233] w=0.3138 to align # Constraint # added constraint: constraint((T0376)W52.CB, (T0376)G77.CA) [> 4.0311 = 6.7184 < 8.7340] w=0.3089 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)P217.CB) [> 3.7707 = 6.2844 < 8.1698] w=0.3089 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)D51.CB) [> 3.3568 = 5.5946 < 7.2730] w=0.3088 to align # Constraint # added constraint: constraint((T0376)G39.CA, (T0376)K218.CB) [> 4.2595 = 7.0992 < 9.2289] w=0.3087 to align # Constraint # added constraint: constraint((T0376)A90.CB, (T0376)A133.CB) [> 4.5090 = 7.5151 < 9.7696] w=0.3083 to align # Constraint # added constraint: constraint((T0376)V76.CB, (T0376)H89.CB) [> 4.3053 = 7.1755 < 9.3282] w=0.3083 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)N214.CB) [> 3.3864 = 5.6439 < 7.3371] w=0.3043 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)S48.CB) [> 4.2876 = 7.1461 < 9.2899] w=0.3011 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)M49.CB) [> 2.3265 = 3.8775 < 5.0407] w=0.3011 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)G50.CA) [> 4.1698 = 6.9496 < 9.0345] w=0.3011 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)M49.CB) [> 4.1318 = 6.8863 < 8.9521] w=0.3011 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)G50.CA) [> 3.7242 = 6.2070 < 8.0690] w=0.3011 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)G50.CA) [> 3.4026 = 5.6710 < 7.3723] w=0.3011 to align # Constraint # added constraint: constraint((T0376)P23.CB, (T0376)G63.CA) [> 3.8656 = 6.4427 < 8.3756] w=0.3011 to align # Constraint # added constraint: constraint((T0376)M49.CB, (T0376)G211.CA) [> 3.0960 = 5.1600 < 6.7080] w=0.3011 to align # Constraint # added constraint: constraint((T0376)G207.CA, (T0376)C224.CB) [> 3.8552 = 6.4253 < 8.3529] w=0.3011 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)N214.CB) [> 4.0844 = 6.8073 < 8.8494] w=0.3011 to align # Constraint # added constraint: constraint((T0376)M40.CB, (T0376)I221.CB) [> 4.1031 = 6.8386 < 8.8901] w=0.3010 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)T206.CB) [> 4.3110 = 7.1851 < 9.3406] w=0.3002 to align # Constraint # added constraint: constraint((T0376)S48.CB, (T0376)I104.CB) [> 4.2636 = 7.1060 < 9.2378] w=0.2990 to align # Constraint # added constraint: constraint((T0376)D148.CB, (T0376)A175.CB) [> 3.2584 = 5.4307 < 7.0599] w=0.2950 to align # Constraint # added constraint: constraint((T0376)G8.CA, (T0376)A42.CB) [> 4.1744 = 6.9573 < 9.0445] w=0.2945 to align # Constraint # added constraint: constraint((T0376)D193.CB, (T0376)T210.CB) [> 3.0148 = 5.0248 < 6.5322] w=0.2925 to align # Constraint # added constraint: constraint((T0376)G168.CA, (T0376)V196.CB) [> 3.6434 = 6.0723 < 7.8940] w=0.2925 to align # Constraint # added constraint: constraint((T0376)F163.CB, (T0376)I190.CB) [> 4.0409 = 6.7348 < 8.7552] w=0.2924 to align # Constraint # added constraint: constraint((T0376)L28.CB, (T0376)Y45.CB) [> 4.0136 = 6.6893 < 8.6961] w=0.2922 to align # Constraint # added constraint: constraint((T0376)I104.CB, (T0376)I135.CB) [> 4.4446 = 7.4077 < 9.6300] w=0.2916 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)G47.CA) [> 3.8102 = 6.3503 < 8.2554] w=0.2888 to align # Constraint # added constraint: constraint((T0376)G77.CA, (T0376)Y136.CB) [> 4.5498 = 7.5830 < 9.8579] w=0.2863 to align # Constraint # added constraint: constraint((T0376)C46.CB, (T0376)G63.CA) [> 4.1184 = 6.8639 < 8.9231] w=0.2863 to align # Constraint # added constraint: constraint((T0376)R154.CB, (T0376)F163.CB) [> 3.9341 = 6.5568 < 8.5239] w=0.2863 to align # Constraint # added constraint: constraint((T0376)V201.CB, (T0376)C224.CB) [> 3.8763 = 6.4604 < 8.3986] w=0.2857 to align # Constraint # added constraint: constraint((T0376)F150.CB, (T0376)R182.CB) [> 3.8094 = 6.3490 < 8.2537] w=0.2832 to align # Constraint # added constraint: constraint((T0376)K33.CB, (T0376)A70.CB) [> 3.7230 = 6.2050 < 8.0666] w=0.2817 to align # Constraint # added constraint: constraint((T0376)G32.CA, (T0376)A70.CB) [> 3.5289 = 5.8815 < 7.6459] w=0.2817 to align # Constraint # added constraint: constraint((T0376)R106.CB, (T0376)N137.CB) [> 4.0443 = 6.7406 < 8.7627] w=0.2783 to align # Constraint # added constraint: constraint((T0376)S48.CB, (T0376)Y141.CB) [> 3.9949 = 6.6582 < 8.6557] w=0.2780 to align # Constraint # added constraint: constraint((T0376)K31.CB, (T0376)M268.CB) [> 4.2003 = 7.0004 < 9.1006] w=0.2780 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)L55.CB) [> 4.2308 = 7.0512 < 9.1666] w=0.2779 to align # Constraint # added constraint: constraint((T0376)V107.CB, (T0376)F143.CB) [> 4.4075 = 7.3459 < 9.5497] w=0.2776 to align # Constraint # added constraint: constraint((T0376)G8.CA, (T0376)C224.CB) [> 3.5430 = 5.9050 < 7.6764] w=0.2774 to align # Constraint # added constraint: constraint((T0376)E165.CB, (T0376)N178.CB) [> 4.1791 = 6.9652 < 9.0548] w=0.2772 to align # Constraint # added constraint: constraint((T0376)G47.CA, (T0376)R60.CB) [> 3.8068 = 6.3447 < 8.2481] w=0.2769 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)R154.CB) [> 3.6802 = 6.1337 < 7.9739] w=0.2765 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)T210.CB) [> 4.0414 = 6.7357 < 8.7564] w=0.2742 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)V161.CB) [> 3.7377 = 6.2295 < 8.0984] w=0.2727 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)M268.CB) [> 4.0613 = 6.7689 < 8.7995] w=0.2703 to align # Constraint # added constraint: constraint((T0376)G100.CA, (T0376)A128.CB) [> 4.4870 = 7.4784 < 9.7219] w=0.2694 to align # Constraint # added constraint: constraint((T0376)N82.CB, (T0376)R106.CB) [> 4.4092 = 7.3487 < 9.5533] w=0.2691 to align # Constraint # added constraint: constraint((T0376)G79.CA, (T0376)P105.CB) [> 3.8817 = 6.4695 < 8.4103] w=0.2688 to align # Constraint # added constraint: constraint((T0376)D57.CB, (T0376)S85.CB) [> 3.5942 = 5.9903 < 7.7874] w=0.2680 to align # Constraint # added constraint: constraint((T0376)V29.CB, (T0376)G63.CA) [> 4.2054 = 7.0091 < 9.1118] w=0.2664 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)C46.CB) [> 4.1349 = 6.8915 < 8.9590] w=0.2651 to align # Constraint # added constraint: constraint((T0376)I190.CB, (T0376)C203.CB) [> 4.4586 = 7.4310 < 9.6602] w=0.2629 to align # Constraint # added constraint: constraint((T0376)G47.CA, (T0376)G79.CA) [> 4.2369 = 7.0616 < 9.1800] w=0.2615 to align # Constraint # added constraint: constraint((T0376)P139.CB, (T0376)F166.CB) [> 4.1649 = 6.9414 < 9.0239] w=0.2613 to align # Constraint # added constraint: constraint((T0376)G79.CA, (T0376)Y136.CB) [> 4.5846 = 7.6410 < 9.9333] w=0.2611 to align # Constraint # added constraint: constraint((T0376)L160.CB, (T0376)T187.CB) [> 4.2993 = 7.1656 < 9.3152] w=0.2584 to align # Constraint # added constraint: constraint((T0376)A86.CB, (T0376)A127.CB) [> 4.3611 = 7.2684 < 9.4490] w=0.2559 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)V134.CB) [> 4.3918 = 7.3197 < 9.5157] w=0.2548 to align # Constraint # added constraint: constraint((T0376)D193.CB, (T0376)A208.CB) [> 4.2777 = 7.1294 < 9.2683] w=0.2542 to align # Constraint # added constraint: constraint((T0376)T210.CB, (T0376)L223.CB) [> 3.6311 = 6.0518 < 7.8673] w=0.2536 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)P73.CB) [> 3.5980 = 5.9967 < 7.7957] w=0.2533 to align # Constraint # added constraint: constraint((T0376)G47.CA, (T0376)T78.CB) [> 3.6715 = 6.1191 < 7.9549] w=0.2471 to align # Constraint # added constraint: constraint((T0376)K118.CB, (T0376)E156.CB) [> 3.0712 = 5.1187 < 6.6544] w=0.2466 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)C46.CB) [> 3.4497 = 5.7496 < 7.4745] w=0.2463 to align # Constraint # added constraint: constraint((T0376)F151.CB, (T0376)N178.CB) [> 3.9961 = 6.6602 < 8.6582] w=0.2463 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)G211.CA) [> 4.0695 = 6.7825 < 8.8172] w=0.2460 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)V44.CB) [> 3.6249 = 6.0415 < 7.8539] w=0.2453 to align # Constraint # added constraint: constraint((T0376)A90.CB, (T0376)P129.CB) [> 3.5512 = 5.9186 < 7.6941] w=0.2423 to align # Constraint # added constraint: constraint((T0376)S138.CB, (T0376)G191.CA) [> 4.2794 = 7.1324 < 9.2721] w=0.2382 to align # Constraint # added constraint: constraint((T0376)V197.CB, (T0376)S227.CB) [> 4.0375 = 6.7291 < 8.7479] w=0.2380 to align # Constraint # added constraint: constraint((T0376)Y136.CB, (T0376)G162.CA) [> 3.8338 = 6.3898 < 8.3067] w=0.2380 to align # Constraint # added constraint: constraint((T0376)G47.CA, (T0376)M102.CB) [> 4.3378 = 7.2297 < 9.3987] w=0.2369 to align # Constraint # added constraint: constraint((T0376)Y136.CB, (T0376)G167.CA) [> 3.5951 = 5.9917 < 7.7893] w=0.2361 to align # Constraint # added constraint: constraint((T0376)V215.CB, (T0376)M267.CB) [> 3.0587 = 5.0978 < 6.6271] w=0.2316 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)V161.CB) [> 3.9428 = 6.5714 < 8.5428] w=0.2316 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)I75.CB) [> 4.4822 = 7.4703 < 9.7114] w=0.2316 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)I212.CB) [> 2.9113 = 4.8521 < 6.3078] w=0.2313 to align # Constraint # added constraint: constraint((T0376)L226.CB, (T0376)R238.CB) [> 3.4980 = 5.8300 < 7.5789] w=0.2309 to align # Constraint # added constraint: constraint((T0376)V134.CB, (T0376)L188.CB) [> 4.0896 = 6.8160 < 8.8608] w=0.2306 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)P73.CB) [> 4.2100 = 7.0166 < 9.1216] w=0.2273 to align # Constraint # added constraint: constraint((T0376)L226.CB, (T0376)A235.CB) [> 3.3395 = 5.5659 < 7.2357] w=0.2234 to align # Constraint # added constraint: constraint((T0376)L108.CB, (T0376)G142.CA) [> 4.0810 = 6.8017 < 8.8422] w=0.2233 to align # Constraint # added constraint: constraint((T0376)Y174.CB, (T0376)C203.CB) [> 3.2269 = 5.3782 < 6.9917] w=0.2229 to align # Constraint # added constraint: constraint((T0376)S48.CB, (T0376)T78.CB) [> 3.7412 = 6.2353 < 8.1059] w=0.2223 to align # Constraint # added constraint: constraint((T0376)L223.CB, (T0376)A239.CB) [> 3.3273 = 5.5455 < 7.2091] w=0.2162 to align # Constraint # added constraint: constraint((T0376)V196.CB, (T0376)A208.CB) [> 3.9180 = 6.5300 < 8.4890] w=0.2158 to align # Constraint # added constraint: constraint((T0376)S48.CB, (T0376)G79.CA) [> 3.9739 = 6.6232 < 8.6102] w=0.2158 to align # Constraint # added constraint: constraint((T0376)V161.CB, (T0376)E185.CB) [> 4.1309 = 6.8849 < 8.9504] w=0.2154 to align # Constraint # added constraint: constraint((T0376)V201.CB, (T0376)Q228.CB) [> 4.2723 = 7.1205 < 9.2567] w=0.2085 to align # Constraint # added constraint: constraint((T0376)K265.CB, (T0376)Y276.CB) [> 3.1905 = 5.3174 < 6.9127] w=0.2085 to align # Constraint # added constraint: constraint((T0376)D51.CB, (T0376)L278.CB) [> 4.0697 = 6.7828 < 8.8176] w=0.2085 to align # Constraint # added constraint: constraint((T0376)D51.CB, (T0376)H279.CB) [> 3.4140 = 5.6900 < 7.3970] w=0.2085 to align # Constraint # added constraint: constraint((T0376)I212.CB, (T0376)L251.CB) [> 3.6591 = 6.0985 < 7.9280] w=0.2085 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)G211.CA) [> 3.5974 = 5.9956 < 7.7943] w=0.2085 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)G213.CA) [> 4.4842 = 7.4736 < 9.7157] w=0.2082 to align # Constraint # added constraint: constraint((T0376)M189.CB, (T0376)F200.CB) [> 3.5742 = 5.9571 < 7.7442] w=0.2077 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)V197.CB) [> 4.2312 = 7.0520 < 9.1676] w=0.2062 to align # Constraint # added constraint: constraint((T0376)N137.CB, (T0376)L149.CB) [> 3.2806 = 5.4676 < 7.1079] w=0.2053 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)G207.CA) [> 3.6300 = 6.0500 < 7.8650] w=0.2043 to align # Constraint # added constraint: constraint((T0376)R18.CB, (T0376)A27.CB) [> 3.5800 = 5.9667 < 7.7566] w=0.2043 to align # Constraint # added constraint: constraint((T0376)R106.CB, (T0376)Y136.CB) [> 3.5693 = 5.9488 < 7.7334] w=0.2012 to align # Constraint # added constraint: constraint((T0376)G47.CA, (T0376)V76.CB) [> 4.2137 = 7.0228 < 9.1297] w=0.2008 to align # Constraint # added constraint: constraint((T0376)D51.CB, (T0376)E282.CB) [> 4.3064 = 7.1773 < 9.3305] w=0.2008 to align # Constraint # added constraint: constraint((T0376)E34.CB, (T0376)D273.CB) [> 3.3922 = 5.6537 < 7.3498] w=0.2008 to align # Constraint # added constraint: constraint((T0376)K31.CB, (T0376)D273.CB) [> 3.4866 = 5.8110 < 7.5543] w=0.2008 to align # Constraint # added constraint: constraint((T0376)R21.CB, (T0376)H279.CB) [> 3.0616 = 5.1027 < 6.6335] w=0.2008 to align # Constraint # added constraint: constraint((T0376)R21.CB, (T0376)T277.CB) [> 3.7473 = 6.2456 < 8.1192] w=0.2008 to align # Constraint # added constraint: constraint((T0376)C17.CB, (T0376)H279.CB) [> 3.8732 = 6.4553 < 8.3919] w=0.2008 to align # Constraint # added constraint: constraint((T0376)C17.CB, (T0376)L278.CB) [> 4.2672 = 7.1121 < 9.2457] w=0.2008 to align # Constraint # added constraint: constraint((T0376)C17.CB, (T0376)T277.CB) [> 2.8238 = 4.7063 < 6.1181] w=0.2008 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)K265.CB) [> 3.5619 = 5.9365 < 7.7175] w=0.2008 to align # Constraint # added constraint: constraint((T0376)L270.CB, (T0376)F298.CB) [> 3.2593 = 5.4322 < 7.0619] w=0.2008 to align # Constraint # added constraint: constraint((T0376)L270.CB, (T0376)E295.CB) [> 3.7159 = 6.1931 < 8.0510] w=0.2008 to align # Constraint # added constraint: constraint((T0376)M267.CB, (T0376)F298.CB) [> 3.3642 = 5.6071 < 7.2892] w=0.2008 to align # Constraint # added constraint: constraint((T0376)M267.CB, (T0376)V294.CB) [> 3.3743 = 5.6238 < 7.3109] w=0.2008 to align # Constraint # added constraint: constraint((T0376)Y266.CB, (T0376)V294.CB) [> 3.1388 = 5.2313 < 6.8007] w=0.2008 to align # Constraint # added constraint: constraint((T0376)Y266.CB, (T0376)R291.CB) [> 3.8857 = 6.4761 < 8.4190] w=0.2008 to align # Constraint # added constraint: constraint((T0376)Y266.CB, (T0376)L286.CB) [> 3.0241 = 5.0401 < 6.5522] w=0.2008 to align # Constraint # added constraint: constraint((T0376)K265.CB, (T0376)L278.CB) [> 4.0033 = 6.6721 < 8.6737] w=0.2008 to align # Constraint # added constraint: constraint((T0376)E219.CB, (T0376)L242.CB) [> 3.2805 = 5.4674 < 7.1077] w=0.2008 to align # Constraint # added constraint: constraint((T0376)L216.CB, (T0376)A247.CB) [> 3.8080 = 6.3466 < 8.2506] w=0.2008 to align # Constraint # added constraint: constraint((T0376)V215.CB, (T0376)M268.CB) [> 3.6446 = 6.0743 < 7.8965] w=0.2008 to align # Constraint # added constraint: constraint((T0376)N214.CB, (T0376)M268.CB) [> 3.7179 = 6.1965 < 8.0554] w=0.2008 to align # Constraint # added constraint: constraint((T0376)L54.CB, (T0376)H279.CB) [> 2.5997 = 4.3329 < 5.6327] w=0.2008 to align # Constraint # added constraint: constraint((T0376)A208.CB, (T0376)C224.CB) [> 4.0111 = 6.6851 < 8.6906] w=0.2008 to align # Constraint # added constraint: constraint((T0376)G100.CA, (T0376)V161.CB) [> 4.4768 = 7.4614 < 9.6998] w=0.2007 to align # Constraint # added constraint: constraint((T0376)E165.CB, (T0376)A205.CB) [> 4.4268 = 7.3779 < 9.5913] w=0.2007 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)L248.CB) [> 3.3071 = 5.5118 < 7.1654] w=0.2006 to align # Constraint # added constraint: constraint((T0376)E165.CB, (T0376)F200.CB) [> 4.4769 = 7.4614 < 9.6999] w=0.2006 to align # Constraint # added constraint: constraint((T0376)N137.CB, (T0376)R146.CB) [> 3.3339 = 5.5566 < 7.2235] w=0.1997 to align # Constraint # added constraint: constraint((T0376)I75.CB, (T0376)I209.CB) [> 4.7372 = 7.8954 < 10.2640] w=0.1996 to align # Constraint # added constraint: constraint((T0376)N137.CB, (T0376)G162.CA) [> 4.3340 = 7.2233 < 9.3903] w=0.1994 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)L223.CB) [> 3.4262 = 5.7103 < 7.4234] w=0.1994 to align # Constraint # added constraint: constraint((T0376)D193.CB, (T0376)G211.CA) [> 3.6725 = 6.1208 < 7.9571] w=0.1990 to align # Constraint # added constraint: constraint((T0376)L223.CB, (T0376)L244.CB) [> 3.9159 = 6.5266 < 8.4845] w=0.1930 to align # Constraint # added constraint: constraint((T0376)V250.CB, (T0376)Q297.CB) [> 3.2076 = 5.3460 < 6.9498] w=0.1930 to align # Constraint # added constraint: constraint((T0376)L216.CB, (T0376)F301.CB) [> 3.8077 = 6.3462 < 8.2500] w=0.1930 to align # Constraint # added constraint: constraint((T0376)P105.CB, (T0376)T145.CB) [> 3.8142 = 6.3570 < 8.2641] w=0.1930 to align # Constraint # added constraint: constraint((T0376)M49.CB, (T0376)V261.CB) [> 3.8092 = 6.3487 < 8.2533] w=0.1930 to align # Constraint # added constraint: constraint((T0376)R110.CB, (T0376)F143.CB) [> 3.4782 = 5.7970 < 7.5361] w=0.1930 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)G213.CA) [> 4.4284 = 7.3806 < 9.5948] w=0.1929 to align # Constraint # added constraint: constraint((T0376)G191.CA, (T0376)A205.CB) [> 3.6861 = 6.1434 < 7.9865] w=0.1918 to align # Constraint # added constraint: constraint((T0376)F150.CB, (T0376)V186.CB) [> 4.1949 = 6.9915 < 9.0889] w=0.1909 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)G47.CA) [> 4.3050 = 7.1750 < 9.3276] w=0.1890 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)Y45.CB) [> 3.7015 = 6.1692 < 8.0199] w=0.1868 to align # Constraint # added constraint: constraint((T0376)S48.CB, (T0376)S138.CB) [> 4.4821 = 7.4702 < 9.7113] w=0.1853 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)K265.CB) [> 4.4972 = 7.4954 < 9.7440] w=0.1853 to align # Constraint # added constraint: constraint((T0376)R18.CB, (T0376)T277.CB) [> 4.0340 = 6.7234 < 8.7404] w=0.1853 to align # Constraint # added constraint: constraint((T0376)P105.CB, (T0376)F143.CB) [> 2.9136 = 4.8560 < 6.3128] w=0.1853 to align # Constraint # added constraint: constraint((T0376)Q117.CB, (T0376)F143.CB) [> 4.3794 = 7.2990 < 9.4888] w=0.1853 to align # Constraint # added constraint: constraint((T0376)K265.CB, (T0376)T277.CB) [> 4.4878 = 7.4797 < 9.7236] w=0.1853 to align # Constraint # added constraint: constraint((T0376)L270.CB, (T0376)V294.CB) [> 4.2765 = 7.1276 < 9.2659] w=0.1853 to align # Constraint # added constraint: constraint((T0376)L54.CB, (T0376)E282.CB) [> 4.3624 = 7.2706 < 9.4518] w=0.1853 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)P132.CB) [> 4.2563 = 7.0939 < 9.2220] w=0.1853 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)G162.CA) [> 4.0658 = 6.7764 < 8.8093] w=0.1853 to align # Constraint # added constraint: constraint((T0376)H198.CB, (T0376)A235.CB) [> 3.7441 = 6.2401 < 8.1121] w=0.1850 to align # Constraint # added constraint: constraint((T0376)S227.CB, (T0376)A237.CB) [> 3.1781 = 5.2969 < 6.8860] w=0.1846 to align # Constraint # added constraint: constraint((T0376)V107.CB, (T0376)S138.CB) [> 4.0476 = 6.7460 < 8.7698] w=0.1842 to align # Constraint # added constraint: constraint((T0376)T187.CB, (T0376)A205.CB) [> 3.6878 = 6.1463 < 7.9901] w=0.1837 to align # Constraint # added constraint: constraint((T0376)P105.CB, (T0376)P139.CB) [> 4.1136 = 6.8561 < 8.9129] w=0.1831 to align # Constraint # added constraint: constraint((T0376)V161.CB, (T0376)M189.CB) [> 3.1319 = 5.2199 < 6.7859] w=0.1812 to align # Constraint # added constraint: constraint((T0376)S48.CB, (T0376)G77.CA) [> 3.7929 = 6.3215 < 8.2179] w=0.1776 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)M268.CB) [> 3.6810 = 6.1350 < 7.9756] w=0.1776 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)V261.CB) [> 3.8897 = 6.4829 < 8.4277] w=0.1776 to align # Constraint # added constraint: constraint((T0376)R106.CB, (T0376)F143.CB) [> 4.4178 = 7.3630 < 9.5719] w=0.1776 to align # Constraint # added constraint: constraint((T0376)A80.CB, (T0376)V107.CB) [> 4.2160 = 7.0267 < 9.1347] w=0.1771 to align # Constraint # added constraint: constraint((T0376)G79.CA, (T0376)A90.CB) [> 4.2991 = 7.1651 < 9.3146] w=0.1770 to align # Constraint # added constraint: constraint((T0376)I104.CB, (T0376)N137.CB) [> 4.3032 = 7.1720 < 9.3236] w=0.1765 to align # Constraint # added constraint: constraint((T0376)P139.CB, (T0376)G168.CA) [> 4.0324 = 6.7207 < 8.7369] w=0.1745 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)S41.CB) [> 3.8439 = 6.4065 < 8.3284] w=0.1719 to align # Constraint # added constraint: constraint((T0376)V81.CB, (T0376)H120.CB) [> 4.2536 = 7.0892 < 9.2160] w=0.1713 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)A208.CB) [> 4.0704 = 6.7841 < 8.8193] w=0.1699 to align # Constraint # added constraint: constraint((T0376)L55.CB, (T0376)H279.CB) [> 4.5831 = 7.6386 < 9.9302] w=0.1699 to align # Constraint # added constraint: constraint((T0376)Q19.CB, (T0376)T277.CB) [> 3.7442 = 6.2403 < 8.1124] w=0.1699 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)T187.CB) [> 3.2158 = 5.3597 < 6.9676] w=0.1699 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)D51.CB) [> 4.7593 = 7.9323 < 10.3119] w=0.1698 to align # Constraint # added constraint: constraint((T0376)V107.CB, (T0376)N137.CB) [> 4.1147 = 6.8578 < 8.9151] w=0.1691 to align # Constraint # added constraint: constraint((T0376)D193.CB, (T0376)G213.CA) [> 4.3845 = 7.3074 < 9.4997] w=0.1691 to align # Constraint # added constraint: constraint((T0376)L226.CB, (T0376)A237.CB) [> 2.9570 = 4.9283 < 6.4068] w=0.1688 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)G32.CA) [> 4.3133 = 7.1888 < 9.3455] w=0.1684 to align # Constraint # added constraint: constraint((T0376)C46.CB, (T0376)M102.CB) [> 4.6460 = 7.7434 < 10.0664] w=0.1682 to align # Constraint # added constraint: constraint((T0376)S7.CB, (T0376)A42.CB) [> 3.5742 = 5.9570 < 7.7441] w=0.1678 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)K99.CB) [> 4.1700 = 6.9499 < 9.0349] w=0.1622 to align # Constraint # added constraint: constraint((T0376)V215.CB, (T0376)F264.CB) [> 3.7160 = 6.1934 < 8.0514] w=0.1622 to align # Constraint # added constraint: constraint((T0376)A86.CB, (T0376)R106.CB) [> 4.6480 = 7.7467 < 10.0708] w=0.1622 to align # Constraint # added constraint: constraint((T0376)M49.CB, (T0376)N214.CB) [> 4.3717 = 7.2862 < 9.4721] w=0.1622 to align # Constraint # added constraint: constraint((T0376)F254.CB, (T0376)Y263.CB) [> 2.6989 = 4.4982 < 5.8477] w=0.1622 to align # Constraint # added constraint: constraint((T0376)H222.CB, (T0376)R238.CB) [> 3.7445 = 6.2408 < 8.1130] w=0.1621 to align # Constraint # added constraint: constraint((T0376)G162.CA, (T0376)I190.CB) [> 3.9883 = 6.6472 < 8.6413] w=0.1619 to align # Constraint # added constraint: constraint((T0376)M102.CB, (T0376)I209.CB) [> 4.5564 = 7.5941 < 9.8723] w=0.1613 to align # Constraint # added constraint: constraint((T0376)D193.CB, (T0376)I209.CB) [> 4.0145 = 6.6908 < 8.6981] w=0.1613 to align # Constraint # added constraint: constraint((T0376)L251.CB, (T0376)L260.CB) [> 3.3408 = 5.5680 < 7.2384] w=0.1608 to align # Constraint # added constraint: constraint((T0376)P139.CB, (T0376)Y174.CB) [> 3.1831 = 5.3052 < 6.8968] w=0.1604 to align # Constraint # added constraint: constraint((T0376)G191.CA, (T0376)G211.CA) [> 4.3740 = 7.2900 < 9.4769] w=0.1597 to align # Constraint # added constraint: constraint((T0376)Y140.CB, (T0376)G168.CA) [> 4.5313 = 7.5522 < 9.8178] w=0.1584 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)V44.CB) [> 3.5191 = 5.8651 < 7.6247] w=0.1582 to align # Constraint # added constraint: constraint((T0376)G47.CA, (T0376)I104.CB) [> 4.5344 = 7.5573 < 9.8245] w=0.1569 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)T210.CB) [> 4.0660 = 6.7767 < 8.8097] w=0.1568 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)K31.CB) [> 4.2268 = 7.0446 < 9.1580] w=0.1565 to align # Constraint # added constraint: constraint((T0376)S7.CB, (T0376)T187.CB) [> 3.7879 = 6.3132 < 8.2071] w=0.1544 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)F264.CB) [> 3.6957 = 6.1596 < 8.0074] w=0.1544 to align # Constraint # added constraint: constraint((T0376)G211.CA, (T0376)F264.CB) [> 3.9118 = 6.5197 < 8.4756] w=0.1544 to align # Constraint # added constraint: constraint((T0376)N214.CB, (T0376)F264.CB) [> 3.2494 = 5.4157 < 7.0404] w=0.1544 to align # Constraint # added constraint: constraint((T0376)L262.CB, (T0376)L278.CB) [> 3.3247 = 5.5412 < 7.2036] w=0.1544 to align # Constraint # added constraint: constraint((T0376)L262.CB, (T0376)L286.CB) [> 2.9786 = 4.9644 < 6.4537] w=0.1544 to align # Constraint # added constraint: constraint((T0376)Y263.CB, (T0376)L286.CB) [> 3.9773 = 6.6287 < 8.6174] w=0.1544 to align # Constraint # added constraint: constraint((T0376)Y266.CB, (T0376)Q290.CB) [> 4.4101 = 7.3502 < 9.5552] w=0.1544 to align # Constraint # added constraint: constraint((T0376)K271.CB, (T0376)F298.CB) [> 3.8249 = 6.3748 < 8.2872] w=0.1544 to align # Constraint # added constraint: constraint((T0376)I190.CB, (T0376)T210.CB) [> 4.5837 = 7.6396 < 9.9314] w=0.1544 to align # Constraint # added constraint: constraint((T0376)V134.CB, (T0376)I190.CB) [> 4.2301 = 7.0502 < 9.1653] w=0.1543 to align # Constraint # added constraint: constraint((T0376)V197.CB, (T0376)V220.CB) [> 3.5917 = 5.9861 < 7.7819] w=0.1543 to align # Constraint # added constraint: constraint((T0376)D193.CB, (T0376)V220.CB) [> 4.3562 = 7.2603 < 9.4383] w=0.1543 to align # Constraint # added constraint: constraint((T0376)M172.CB, (T0376)V196.CB) [> 3.8914 = 6.4857 < 8.4314] w=0.1542 to align # Constraint # added constraint: constraint((T0376)V196.CB, (T0376)L223.CB) [> 3.8519 = 6.4198 < 8.3457] w=0.1542 to align # Constraint # added constraint: constraint((T0376)H198.CB, (T0376)R238.CB) [> 3.8059 = 6.3431 < 8.2460] w=0.1541 to align # Constraint # added constraint: constraint((T0376)P258.CB, (T0376)E282.CB) [> 4.0350 = 6.7250 < 8.7425] w=0.1541 to align # Constraint # added constraint: constraint((T0376)L188.CB, (T0376)F200.CB) [> 4.1172 = 6.8620 < 8.9206] w=0.1538 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)Q246.CB) [> 3.2899 = 5.4832 < 7.1282] w=0.1536 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)L226.CB) [> 3.0041 = 5.0069 < 6.5090] w=0.1534 to align # Constraint # added constraint: constraint((T0376)H198.CB, (T0376)L226.CB) [> 4.1433 = 6.9055 < 8.9772] w=0.1531 to align # Constraint # added constraint: constraint((T0376)V161.CB, (T0376)T206.CB) [> 4.3346 = 7.2243 < 9.3916] w=0.1528 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)G211.CA) [> 3.7677 = 6.2795 < 8.1634] w=0.1512 to align # Constraint # added constraint: constraint((T0376)M172.CB, (T0376)V192.CB) [> 3.9209 = 6.5348 < 8.4952] w=0.1509 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)Y45.CB) [> 4.1533 = 6.9221 < 8.9987] w=0.1493 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)A42.CB) [> 4.0154 = 6.6923 < 8.7000] w=0.1490 to align # Constraint # added constraint: constraint((T0376)V215.CB, (T0376)V261.CB) [> 3.1993 = 5.3322 < 6.9319] w=0.1467 to align # Constraint # added constraint: constraint((T0376)D51.CB, (T0376)V261.CB) [> 4.1403 = 6.9005 < 8.9707] w=0.1467 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)L223.CB) [> 4.2787 = 7.1312 < 9.2705] w=0.1467 to align # Constraint # added constraint: constraint((T0376)M189.CB, (T0376)G204.CA) [> 4.1741 = 6.9569 < 9.0440] w=0.1466 to align # Constraint # added constraint: constraint((T0376)A170.CB, (T0376)V196.CB) [> 3.9369 = 6.5616 < 8.5301] w=0.1466 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)L251.CB) [> 3.3161 = 5.5269 < 7.1850] w=0.1462 to align # Constraint # added constraint: constraint((T0376)K31.CB, (T0376)V43.CB) [> 3.7206 = 6.2010 < 8.0613] w=0.1461 to align # Constraint # added constraint: constraint((T0376)L226.CB, (T0376)R240.CB) [> 3.9279 = 6.5465 < 8.5105] w=0.1459 to align # Constraint # added constraint: constraint((T0376)M172.CB, (T0376)A195.CB) [> 3.9541 = 6.5901 < 8.5672] w=0.1455 to align # Constraint # added constraint: constraint((T0376)G211.CA, (T0376)S227.CB) [> 3.3919 = 5.6532 < 7.3491] w=0.1455 to align # Constraint # added constraint: constraint((T0376)L188.CB, (T0376)I209.CB) [> 3.5710 = 5.9517 < 7.7372] w=0.1453 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)C46.CB) [> 3.9343 = 6.5572 < 8.5244] w=0.1446 to align # Constraint # added constraint: constraint((T0376)L101.CB, (T0376)P129.CB) [> 4.0818 = 6.8030 < 8.8439] w=0.1421 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)I209.CB) [> 3.0066 = 5.0111 < 6.5144] w=0.1419 to align # Constraint # added constraint: constraint((T0376)C17.CB, (T0376)L28.CB) [> 3.7391 = 6.2319 < 8.1015] w=0.1418 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)I209.CB) [> 3.6944 = 6.1574 < 8.0046] w=0.1404 to align # Constraint # added constraint: constraint((T0376)V261.CB, (T0376)L278.CB) [> 3.7086 = 6.1809 < 8.0352] w=0.1390 to align # Constraint # added constraint: constraint((T0376)F254.CB, (T0376)V294.CB) [> 4.1329 = 6.8881 < 8.9546] w=0.1390 to align # Constraint # added constraint: constraint((T0376)R18.CB, (T0376)E275.CB) [> 4.0151 = 6.6919 < 8.6994] w=0.1390 to align # Constraint # added constraint: constraint((T0376)V215.CB, (T0376)F298.CB) [> 4.3672 = 7.2786 < 9.4622] w=0.1390 to align # Constraint # added constraint: constraint((T0376)Y266.CB, (T0376)Y276.CB) [> 2.7407 = 4.5678 < 5.9381] w=0.1390 to align # Constraint # added constraint: constraint((T0376)Y276.CB, (T0376)L286.CB) [> 4.2303 = 7.0506 < 9.1657] w=0.1390 to align # Constraint # added constraint: constraint((T0376)N214.CB, (T0376)V261.CB) [> 3.9951 = 6.6585 < 8.6560] w=0.1390 to align # Constraint # added constraint: constraint((T0376)N214.CB, (T0376)M267.CB) [> 4.4839 = 7.4732 < 9.7151] w=0.1390 to align # Constraint # added constraint: constraint((T0376)G79.CA, (T0376)L101.CB) [> 4.6117 = 7.6862 < 9.9920] w=0.1390 to align # Constraint # added constraint: constraint((T0376)G111.CA, (T0376)F143.CB) [> 3.6861 = 6.1436 < 7.9866] w=0.1389 to align # Constraint # added constraint: constraint((T0376)H198.CB, (T0376)L244.CB) [> 3.0651 = 5.1085 < 6.6410] w=0.1388 to align # Constraint # added constraint: constraint((T0376)D38.CB, (T0376)G213.CA) [> 4.2553 = 7.0921 < 9.2198] w=0.1388 to align # Constraint # added constraint: constraint((T0376)L223.CB, (T0376)A237.CB) [> 3.2296 = 5.3827 < 6.9975] w=0.1388 to align # Constraint # added constraint: constraint((T0376)L223.CB, (T0376)A235.CB) [> 3.1972 = 5.3288 < 6.9274] w=0.1387 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)V43.CB) [> 3.5606 = 5.9344 < 7.7147] w=0.1387 to align # Constraint # added constraint: constraint((T0376)G207.CA, (T0376)S227.CB) [> 4.2647 = 7.1079 < 9.2402] w=0.1384 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)G47.CA) [> 3.3909 = 5.6515 < 7.3470] w=0.1384 to align # Constraint # added constraint: constraint((T0376)A208.CB, (T0376)L223.CB) [> 4.1515 = 6.9192 < 8.9949] w=0.1380 to align # Constraint # added constraint: constraint((T0376)L188.CB, (T0376)A208.CB) [> 3.8667 = 6.4444 < 8.3778] w=0.1376 to align # Constraint # added constraint: constraint((T0376)M102.CB, (T0376)M189.CB) [> 4.5585 = 7.5975 < 9.8767] w=0.1375 to align # Constraint # added constraint: constraint((T0376)A80.CB, (T0376)M102.CB) [> 4.2847 = 7.1412 < 9.2835] w=0.1372 to align # Constraint # added constraint: constraint((T0376)I75.CB, (T0376)P132.CB) [> 4.4605 = 7.4341 < 9.6643] w=0.1368 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)G211.CA) [> 4.0456 = 6.7426 < 8.7654] w=0.1367 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)A208.CB) [> 3.9388 = 6.5647 < 8.5342] w=0.1364 to align # Constraint # added constraint: constraint((T0376)C46.CB, (T0376)L55.CB) [> 4.0330 = 6.7216 < 8.7381] w=0.1361 to align # Constraint # added constraint: constraint((T0376)M49.CB, (T0376)G79.CA) [> 3.8046 = 6.3409 < 8.2432] w=0.1317 to align # Constraint # added constraint: constraint((T0376)I190.CB, (T0376)G199.CA) [> 4.2235 = 7.0391 < 9.1508] w=0.1313 to align # Constraint # added constraint: constraint((T0376)Q246.CB, (T0376)F301.CB) [> 3.8379 = 6.3965 < 8.3155] w=0.1313 to align # Constraint # added constraint: constraint((T0376)S253.CB, (T0376)Y263.CB) [> 4.2306 = 7.0510 < 9.1664] w=0.1313 to align # Constraint # added constraint: constraint((T0376)V201.CB, (T0376)L223.CB) [> 4.3139 = 7.1898 < 9.3468] w=0.1313 to align # Constraint # added constraint: constraint((T0376)G8.CA, (T0376)M189.CB) [> 4.6194 = 7.6990 < 10.0087] w=0.1313 to align # Constraint # added constraint: constraint((T0376)I190.CB, (T0376)T206.CB) [> 4.0413 = 6.7354 < 8.7561] w=0.1312 to align # Constraint # added constraint: constraint((T0376)V107.CB, (T0376)A144.CB) [> 4.1204 = 6.8674 < 8.9276] w=0.1310 to align # Constraint # added constraint: constraint((T0376)L108.CB, (T0376)F143.CB) [> 3.5896 = 5.9826 < 7.7774] w=0.1307 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)G211.CA) [> 3.0633 = 5.1055 < 6.6371] w=0.1295 to align # Constraint # added constraint: constraint((T0376)T83.CB, (T0376)A116.CB) [> 4.0107 = 6.6845 < 8.6899] w=0.1294 to align # Constraint # added constraint: constraint((T0376)S7.CB, (T0376)A208.CB) [> 4.4238 = 7.3729 < 9.5848] w=0.1293 to align # Constraint # added constraint: constraint((T0376)G162.CA, (T0376)T206.CB) [> 4.4299 = 7.3831 < 9.5980] w=0.1292 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)L149.CB) [> 4.3139 = 7.1898 < 9.3468] w=0.1291 to align # Constraint # added constraint: constraint((T0376)V250.CB, (T0376)L260.CB) [> 3.4219 = 5.7032 < 7.4142] w=0.1257 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)Y45.CB) [> 3.6345 = 6.0576 < 7.8748] w=0.1245 to align # Constraint # added constraint: constraint((T0376)L54.CB, (T0376)N281.CB) [> 4.6761 = 7.7936 < 10.1316] w=0.1235 to align # Constraint # added constraint: constraint((T0376)G191.CA, (T0376)G207.CA) [> 3.7763 = 6.2938 < 8.1820] w=0.1235 to align # Constraint # added constraint: constraint((T0376)I212.CB, (T0376)L242.CB) [> 3.8836 = 6.4727 < 8.4145] w=0.1235 to align # Constraint # added constraint: constraint((T0376)A195.CB, (T0376)E243.CB) [> 3.6124 = 6.0207 < 7.8269] w=0.1234 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)T145.CB) [> 3.9982 = 6.6636 < 8.6627] w=0.1233 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)Y45.CB) [> 3.9244 = 6.5406 < 8.5028] w=0.1231 to align # Constraint # added constraint: constraint((T0376)V87.CB, (T0376)H120.CB) [> 3.3596 = 5.5994 < 7.2792] w=0.1229 to align # Constraint # added constraint: constraint((T0376)S227.CB, (T0376)A239.CB) [> 3.0035 = 5.0058 < 6.5075] w=0.1226 to align # Constraint # added constraint: constraint((T0376)V186.CB, (T0376)T206.CB) [> 3.0335 = 5.0558 < 6.5725] w=0.1223 to align # Constraint # added constraint: constraint((T0376)P139.CB, (T0376)D171.CB) [> 3.8398 = 6.3996 < 8.3195] w=0.1198 to align # Constraint # added constraint: constraint((T0376)C17.CB, (T0376)V44.CB) [> 3.8286 = 6.3810 < 8.2953] w=0.1191 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)V261.CB) [> 4.1913 = 6.9856 < 9.0812] w=0.1175 to align # Constraint # added constraint: constraint((T0376)G8.CA, (T0376)K225.CB) [> 4.4573 = 7.4289 < 9.6576] w=0.1158 to align # Constraint # added constraint: constraint((T0376)V250.CB, (T0376)V294.CB) [> 4.0165 = 6.6942 < 8.7025] w=0.1158 to align # Constraint # added constraint: constraint((T0376)P23.CB, (T0376)L55.CB) [> 4.6877 = 7.8128 < 10.1566] w=0.1158 to align # Constraint # added constraint: constraint((T0376)E219.CB, (T0376)L244.CB) [> 3.5567 = 5.9279 < 7.7062] w=0.1158 to align # Constraint # added constraint: constraint((T0376)L223.CB, (T0376)R240.CB) [> 2.8651 = 4.7752 < 6.2077] w=0.1158 to align # Constraint # added constraint: constraint((T0376)E219.CB, (T0376)A247.CB) [> 3.5586 = 5.9310 < 7.7103] w=0.1158 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)I190.CB) [> 4.0829 = 6.8049 < 8.8463] w=0.1158 to align # Constraint # added constraint: constraint((T0376)T78.CB, (T0376)H92.CB) [> 4.4128 = 7.3547 < 9.5611] w=0.1158 to align # Constraint # added constraint: constraint((T0376)I212.CB, (T0376)S227.CB) [> 3.8620 = 6.4366 < 8.3676] w=0.1157 to align # Constraint # added constraint: constraint((T0376)L260.CB, (T0376)T283.CB) [> 4.2140 = 7.0234 < 9.1304] w=0.1149 to align # Constraint # added constraint: constraint((T0376)A80.CB, (T0376)P105.CB) [> 3.8304 = 6.3840 < 8.2992] w=0.1146 to align # Constraint # added constraint: constraint((T0376)T145.CB, (T0376)Y174.CB) [> 4.0034 = 6.6724 < 8.6741] w=0.1145 to align # Constraint # added constraint: constraint((T0376)S138.CB, (T0376)L149.CB) [> 3.8221 = 6.3702 < 8.2812] w=0.1138 to align # Constraint # added constraint: constraint((T0376)V103.CB, (T0376)L160.CB) [> 4.6648 = 7.7746 < 10.1070] w=0.1131 to align # Constraint # added constraint: constraint((T0376)L54.CB, (T0376)F280.CB) [> 4.5309 = 7.5515 < 9.8169] w=0.1081 to align # Constraint # added constraint: constraint((T0376)L54.CB, (T0376)L278.CB) [> 4.6285 = 7.7142 < 10.0284] w=0.1081 to align # Constraint # added constraint: constraint((T0376)Q117.CB, (T0376)T145.CB) [> 3.5607 = 5.9345 < 7.7148] w=0.1081 to align # Constraint # added constraint: constraint((T0376)E219.CB, (T0376)R240.CB) [> 3.2394 = 5.3990 < 7.0187] w=0.1081 to align # Constraint # added constraint: constraint((T0376)F254.CB, (T0376)F264.CB) [> 3.6077 = 6.0128 < 7.8166] w=0.1081 to align # Constraint # added constraint: constraint((T0376)I104.CB, (T0376)Y141.CB) [> 4.5493 = 7.5822 < 9.8568] w=0.1081 to align # Constraint # added constraint: constraint((T0376)D259.CB, (T0376)L270.CB) [> 3.2984 = 5.4973 < 7.1465] w=0.1081 to align # Constraint # added constraint: constraint((T0376)V215.CB, (T0376)L262.CB) [> 3.7370 = 6.2283 < 8.0968] w=0.1081 to align # Constraint # added constraint: constraint((T0376)I212.CB, (T0376)L248.CB) [> 3.3546 = 5.5910 < 7.2683] w=0.1081 to align # Constraint # added constraint: constraint((T0376)V220.CB, (T0376)A247.CB) [> 4.2689 = 7.1149 < 9.2493] w=0.1081 to align # Constraint # added constraint: constraint((T0376)G77.CA, (T0376)V134.CB) [> 4.6930 = 7.8217 < 10.1682] w=0.1081 to align # Constraint # added constraint: constraint((T0376)T210.CB, (T0376)E219.CB) [> 3.9687 = 6.6145 < 8.5989] w=0.1079 to align # Constraint # added constraint: constraint((T0376)P139.CB, (T0376)P169.CB) [> 3.4239 = 5.7066 < 7.4186] w=0.1077 to align # Constraint # added constraint: constraint((T0376)C17.CB, (T0376)C46.CB) [> 3.5989 = 5.9982 < 7.7977] w=0.1077 to align # Constraint # added constraint: constraint((T0376)V107.CB, (T0376)I135.CB) [> 3.4410 = 5.7350 < 7.4555] w=0.1076 to align # Constraint # added constraint: constraint((T0376)C46.CB, (T0376)G79.CA) [> 4.3524 = 7.2539 < 9.4301] w=0.1076 to align # Constraint # added constraint: constraint((T0376)A80.CB, (T0376)S109.CB) [> 4.3176 = 7.1961 < 9.3549] w=0.1072 to align # Constraint # added constraint: constraint((T0376)R110.CB, (T0376)Y141.CB) [> 3.6499 = 6.0832 < 7.9082] w=0.1072 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)A205.CB) [> 4.3561 = 7.2601 < 9.4381] w=0.1059 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)V201.CB) [> 3.3058 = 5.5096 < 7.1625] w=0.1058 to align # Constraint # added constraint: constraint((T0376)M102.CB, (T0376)V161.CB) [> 4.3640 = 7.2733 < 9.4553] w=0.1037 to align # Constraint # added constraint: constraint((T0376)A249.CB, (T0376)V261.CB) [> 4.0545 = 6.7575 < 8.7848] w=0.1035 to align # Constraint # added constraint: constraint((T0376)V250.CB, (T0376)Y263.CB) [> 4.0899 = 6.8165 < 8.8615] w=0.1035 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)T210.CB) [> 4.2834 = 7.1390 < 9.2807] w=0.1035 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)A208.CB) [> 3.9064 = 6.5107 < 8.4639] w=0.1028 to align # Constraint # added constraint: constraint((T0376)M49.CB, (T0376)T78.CB) [> 3.9166 = 6.5276 < 8.4859] w=0.1012 to align # Constraint # added constraint: constraint((T0376)K31.CB, (T0376)L262.CB) [> 4.2735 = 7.1225 < 9.2592] w=0.1004 to align # Constraint # added constraint: constraint((T0376)H198.CB, (T0376)D236.CB) [> 3.9619 = 6.6032 < 8.5841] w=0.1004 to align # Constraint # added constraint: constraint((T0376)N214.CB, (T0376)L262.CB) [> 3.7325 = 6.2208 < 8.0871] w=0.1004 to align # Constraint # added constraint: constraint((T0376)V215.CB, (T0376)K265.CB) [> 3.9055 = 6.5091 < 8.4619] w=0.1004 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)V269.CB) [> 3.8372 = 6.3953 < 8.3139] w=0.1004 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)L262.CB) [> 3.9850 = 6.6417 < 8.6342] w=0.1004 to align # Constraint # added constraint: constraint((T0376)I212.CB, (T0376)F264.CB) [> 4.1628 = 6.9381 < 9.0195] w=0.1004 to align # Constraint # added constraint: constraint((T0376)E219.CB, (T0376)F301.CB) [> 4.3095 = 7.1825 < 9.3372] w=0.1004 to align # Constraint # added constraint: constraint((T0376)G211.CA, (T0376)V261.CB) [> 4.0639 = 6.7731 < 8.8050] w=0.1004 to align # Constraint # added constraint: constraint((T0376)G50.CA, (T0376)V261.CB) [> 4.2502 = 7.0838 < 9.2089] w=0.1004 to align # Constraint # added constraint: constraint((T0376)F264.CB, (T0376)R291.CB) [> 3.1914 = 5.3189 < 6.9146] w=0.1004 to align # Constraint # added constraint: constraint((T0376)L260.CB, (T0376)H279.CB) [> 3.0516 = 5.0859 < 6.6117] w=0.1004 to align # Constraint # added constraint: constraint((T0376)G257.CA, (T0376)H279.CB) [> 3.4745 = 5.7909 < 7.5281] w=0.1004 to align # Constraint # added constraint: constraint((T0376)S253.CB, (T0376)Y293.CB) [> 3.6257 = 6.0429 < 7.8558] w=0.1004 to align # Constraint # added constraint: constraint((T0376)L248.CB, (T0376)Q290.CB) [> 3.1092 = 5.1820 < 6.7365] w=0.1004 to align # Constraint # added constraint: constraint((T0376)E219.CB, (T0376)Q246.CB) [> 4.0245 = 6.7075 < 8.7198] w=0.1004 to align # Constraint # added constraint: constraint((T0376)E219.CB, (T0376)E243.CB) [> 4.0175 = 6.6958 < 8.7045] w=0.1004 to align # Constraint # added constraint: constraint((T0376)E219.CB, (T0376)A241.CB) [> 4.0195 = 6.6992 < 8.7089] w=0.1004 to align # Constraint # added constraint: constraint((T0376)L216.CB, (T0376)V250.CB) [> 3.8237 = 6.3728 < 8.2847] w=0.1004 to align # Constraint # added constraint: constraint((T0376)L216.CB, (T0376)L242.CB) [> 3.8084 = 6.3473 < 8.2515] w=0.1004 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)T210.CB) [> 3.2161 = 5.3602 < 6.9682] w=0.1004 to align # Constraint # added constraint: constraint((T0376)S252.CB, (T0376)T283.CB) [> 2.9228 = 4.8713 < 6.3327] w=0.1004 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)V44.CB) [> 3.3395 = 5.5659 < 7.2356] w=0.1003 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)A42.CB) [> 3.3916 = 5.6526 < 7.3484] w=0.1003 to align # Constraint # added constraint: constraint((T0376)G213.CA, (T0376)S227.CB) [> 3.1264 = 5.2106 < 6.7738] w=0.1003 to align # Constraint # added constraint: constraint((T0376)T210.CB, (T0376)S227.CB) [> 3.5242 = 5.8737 < 7.6358] w=0.1000 to align # Constraint # added constraint: constraint((T0376)V44.CB, (T0376)V134.CB) [> 4.7251 = 7.8752 < 10.2377] w=0.0995 to align # Constraint # added constraint: constraint((T0376)S109.CB, (T0376)Y141.CB) [> 3.0451 = 5.0751 < 6.5977] w=0.0994 to align # Constraint # added constraint: constraint((T0376)I104.CB, (T0376)E165.CB) [> 4.4239 = 7.3731 < 9.5850] w=0.0993 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)K31.CB) [> 3.7675 = 6.2792 < 8.1629] w=0.0990 to align # Constraint # added constraint: constraint((T0376)G8.CA, (T0376)T210.CB) [> 3.7802 = 6.3004 < 8.1905] w=0.0944 to align # Constraint # added constraint: constraint((T0376)G8.CA, (T0376)I209.CB) [> 4.3139 = 7.1898 < 9.3468] w=0.0944 to align # Constraint # added constraint: constraint((T0376)L108.CB, (T0376)Y140.CB) [> 3.5738 = 5.9563 < 7.7433] w=0.0932 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)I75.CB) [> 3.9440 = 6.5734 < 8.5454] w=0.0931 to align # Constraint # added constraint: constraint((T0376)I190.CB, (T0376)G204.CA) [> 4.5687 = 7.6144 < 9.8988] w=0.0929 to align # Constraint # added constraint: constraint((T0376)D51.CB, (T0376)Y276.CB) [> 4.2591 = 7.0985 < 9.2281] w=0.0927 to align # Constraint # added constraint: constraint((T0376)M49.CB, (T0376)D255.CB) [> 3.5471 = 5.9118 < 7.6854] w=0.0927 to align # Constraint # added constraint: constraint((T0376)K31.CB, (T0376)M267.CB) [> 3.5131 = 5.8551 < 7.6116] w=0.0927 to align # Constraint # added constraint: constraint((T0376)V196.CB, (T0376)V220.CB) [> 3.5910 = 5.9851 < 7.7806] w=0.0927 to align # Constraint # added constraint: constraint((T0376)M267.CB, (T0376)Q297.CB) [> 3.5697 = 5.9495 < 7.7344] w=0.0927 to align # Constraint # added constraint: constraint((T0376)T78.CB, (T0376)A128.CB) [> 4.5720 = 7.6200 < 9.9059] w=0.0927 to align # Constraint # added constraint: constraint((T0376)Q246.CB, (T0376)L300.CB) [> 3.8157 = 6.3596 < 8.2675] w=0.0927 to align # Constraint # added constraint: constraint((T0376)L54.CB, (T0376)Y276.CB) [> 4.3541 = 7.2568 < 9.4338] w=0.0927 to align # Constraint # added constraint: constraint((T0376)F264.CB, (T0376)T287.CB) [> 4.2821 = 7.1369 < 9.2779] w=0.0927 to align # Constraint # added constraint: constraint((T0376)V250.CB, (T0376)Y293.CB) [> 3.5053 = 5.8422 < 7.5948] w=0.0927 to align # Constraint # added constraint: constraint((T0376)V197.CB, (T0376)A239.CB) [> 4.0856 = 6.8093 < 8.8521] w=0.0926 to align # Constraint # added constraint: constraint((T0376)V201.CB, (T0376)A235.CB) [> 4.5597 = 7.5995 < 9.8793] w=0.0925 to align # Constraint # added constraint: constraint((T0376)V201.CB, (T0376)A239.CB) [> 4.3830 = 7.3050 < 9.4965] w=0.0925 to align # Constraint # added constraint: constraint((T0376)V87.CB, (T0376)R110.CB) [> 2.8269 = 4.7115 < 6.1249] w=0.0922 to align # Constraint # added constraint: constraint((T0376)V87.CB, (T0376)G111.CA) [> 4.1450 = 6.9083 < 8.9809] w=0.0922 to align # Constraint # added constraint: constraint((T0376)R106.CB, (T0376)I135.CB) [> 2.1759 = 3.6265 < 4.7144] w=0.0922 to align # Constraint # added constraint: constraint((T0376)A208.CB, (T0376)S227.CB) [> 4.0739 = 6.7899 < 8.8269] w=0.0918 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)M267.CB) [> 3.6516 = 6.0859 < 7.9117] w=0.0912 to align # Constraint # added constraint: constraint((T0376)N137.CB, (T0376)V161.CB) [> 3.7885 = 6.3141 < 8.2084] w=0.0891 to align # Constraint # added constraint: constraint((T0376)C46.CB, (T0376)I75.CB) [> 4.1407 = 6.9011 < 8.9715] w=0.0880 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)G207.CA) [> 4.0361 = 6.7269 < 8.7449] w=0.0875 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)T206.CB) [> 3.9737 = 6.6228 < 8.6096] w=0.0874 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)G191.CA) [> 3.7522 = 6.2537 < 8.1298] w=0.0873 to align # Constraint # added constraint: constraint((T0376)G213.CA, (T0376)A229.CB) [> 2.9450 = 4.9083 < 6.3808] w=0.0865 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)S48.CB) [> 4.0064 = 6.6774 < 8.6806] w=0.0858 to align # Constraint # added constraint: constraint((T0376)R106.CB, (T0376)Y140.CB) [> 3.3140 = 5.5234 < 7.1804] w=0.0855 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)L188.CB) [> 3.2115 = 5.3526 < 6.9584] w=0.0849 to align # Constraint # added constraint: constraint((T0376)L55.CB, (T0376)D273.CB) [> 4.5886 = 7.6477 < 9.9420] w=0.0849 to align # Constraint # added constraint: constraint((T0376)P105.CB, (T0376)R146.CB) [> 3.6583 = 6.0971 < 7.9262] w=0.0849 to align # Constraint # added constraint: constraint((T0376)V215.CB, (T0376)A247.CB) [> 4.4213 = 7.3688 < 9.5794] w=0.0849 to align # Constraint # added constraint: constraint((T0376)S253.CB, (T0376)Y276.CB) [> 4.1203 = 6.8671 < 8.9273] w=0.0849 to align # Constraint # added constraint: constraint((T0376)S7.CB, (T0376)L188.CB) [> 3.8874 = 6.4791 < 8.4228] w=0.0849 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)W52.CB) [> 4.5092 = 7.5153 < 9.7700] w=0.0849 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)A208.CB) [> 3.3884 = 5.6474 < 7.3416] w=0.0848 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)G207.CA) [> 4.0906 = 6.8177 < 8.8630] w=0.0848 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)V44.CB) [> 4.3538 = 7.2564 < 9.4333] w=0.0848 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)T210.CB) [> 3.7220 = 6.2033 < 8.0643] w=0.0848 to align # Constraint # added constraint: constraint((T0376)A147.CB, (T0376)M172.CB) [> 3.7615 = 6.2692 < 8.1500] w=0.0847 to align # Constraint # added constraint: constraint((T0376)I114.CB, (T0376)T145.CB) [> 4.2558 = 7.0931 < 9.2210] w=0.0846 to align # Constraint # added constraint: constraint((T0376)S138.CB, (T0376)P169.CB) [> 3.3338 = 5.5563 < 7.2231] w=0.0846 to align # Constraint # added constraint: constraint((T0376)L160.CB, (T0376)E185.CB) [> 3.6933 = 6.1554 < 8.0021] w=0.0845 to align # Constraint # added constraint: constraint((T0376)G162.CA, (T0376)E185.CB) [> 3.4185 = 5.6976 < 7.4068] w=0.0844 to align # Constraint # added constraint: constraint((T0376)V76.CB, (T0376)G97.CA) [> 4.5973 = 7.6622 < 9.9609] w=0.0841 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)Y266.CB) [> 4.4927 = 7.4878 < 9.7341] w=0.0835 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)Y263.CB) [> 1.9772 = 3.2953 < 4.2839] w=0.0835 to align # Constraint # added constraint: constraint((T0376)V44.CB, (T0376)G211.CA) [> 3.6092 = 6.0153 < 7.8199] w=0.0832 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)G47.CA) [> 3.0789 = 5.1315 < 6.6710] w=0.0832 to align # Constraint # added constraint: constraint((T0376)L67.CB, (T0376)G97.CA) [> 4.5094 = 7.5157 < 9.7704] w=0.0829 to align # Constraint # added constraint: constraint((T0376)L160.CB, (T0376)L188.CB) [> 3.5716 = 5.9527 < 7.7385] w=0.0814 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)G191.CA) [> 3.8911 = 6.4852 < 8.4308] w=0.0806 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)V43.CB) [> 3.9695 = 6.6159 < 8.6006] w=0.0789 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)V43.CB) [> 4.1090 = 6.8483 < 8.9028] w=0.0778 to align # Constraint # added constraint: constraint((T0376)I5.CB, (T0376)P73.CB) [> 3.8291 = 6.3818 < 8.2964] w=0.0772 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)M189.CB) [> 4.2999 = 7.1665 < 9.3164] w=0.0772 to align # Constraint # added constraint: constraint((T0376)D20.CB, (T0376)T277.CB) [> 4.6372 = 7.7287 < 10.0473] w=0.0772 to align # Constraint # added constraint: constraint((T0376)L251.CB, (T0376)M267.CB) [> 4.1979 = 6.9965 < 9.0954] w=0.0772 to align # Constraint # added constraint: constraint((T0376)R106.CB, (T0376)G142.CA) [> 4.5496 = 7.5827 < 9.8575] w=0.0772 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)A42.CB) [> 3.9996 = 6.6660 < 8.6658] w=0.0771 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)I209.CB) [> 3.2753 = 5.4589 < 7.0965] w=0.0771 to align # Constraint # added constraint: constraint((T0376)H198.CB, (T0376)A237.CB) [> 3.3128 = 5.5213 < 7.1777] w=0.0771 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)M49.CB) [> 4.1126 = 6.8544 < 8.9108] w=0.0768 to align # Constraint # added constraint: constraint((T0376)I5.CB, (T0376)S41.CB) [> 4.1468 = 6.9114 < 8.9848] w=0.0767 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)K31.CB) [> 4.2648 = 7.1079 < 9.2403] w=0.0767 to align # Constraint # added constraint: constraint((T0376)R106.CB, (T0376)Y141.CB) [> 3.3047 = 5.5078 < 7.1602] w=0.0766 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)C46.CB) [> 3.5442 = 5.9069 < 7.6790] w=0.0766 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)S227.CB) [> 2.8305 = 4.7176 < 6.1328] w=0.0766 to align # Constraint # added constraint: constraint((T0376)V186.CB, (T0376)G207.CA) [> 4.4425 = 7.4042 < 9.6254] w=0.0763 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)F264.CB) [> 2.4969 = 4.1616 < 5.4100] w=0.0758 to align # Constraint # added constraint: constraint((T0376)A195.CB, (T0376)Y263.CB) [> 3.9731 = 6.6218 < 8.6084] w=0.0758 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)L262.CB) [> 4.4596 = 7.4326 < 9.6624] w=0.0758 to align # Constraint # added constraint: constraint((T0376)P139.CB, (T0376)L149.CB) [> 3.4705 = 5.7842 < 7.5194] w=0.0752 to align # Constraint # added constraint: constraint((T0376)C46.CB, (T0376)V74.CB) [> 4.0286 = 6.7144 < 8.7287] w=0.0726 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)M189.CB) [> 4.0329 = 6.7216 < 8.7380] w=0.0721 to align # Constraint # added constraint: constraint((T0376)G213.CA, (T0376)A237.CB) [> 3.8078 = 6.3464 < 8.2503] w=0.0718 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)C46.CB) [> 4.2141 = 7.0235 < 9.1306] w=0.0717 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)S227.CB) [> 3.7127 = 6.1878 < 8.0442] w=0.0713 to align # Constraint # added constraint: constraint((T0376)N202.CB, (T0376)A235.CB) [> 3.8703 = 6.4504 < 8.3856] w=0.0695 to align # Constraint # added constraint: constraint((T0376)L260.CB, (T0376)L270.CB) [> 2.7561 = 4.5935 < 5.9716] w=0.0695 to align # Constraint # added constraint: constraint((T0376)V76.CB, (T0376)H92.CB) [> 4.7307 = 7.8844 < 10.2498] w=0.0695 to align # Constraint # added constraint: constraint((T0376)G199.CA, (T0376)S227.CB) [> 4.2097 = 7.0162 < 9.1210] w=0.0695 to align # Constraint # added constraint: constraint((T0376)M49.CB, (T0376)F254.CB) [> 3.8847 = 6.4745 < 8.4168] w=0.0695 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)G39.CA) [> 4.4532 = 7.4220 < 9.6487] w=0.0695 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)M189.CB) [> 4.3937 = 7.3228 < 9.5196] w=0.0694 to align # Constraint # added constraint: constraint((T0376)K31.CB, (T0376)Y45.CB) [> 4.2839 = 7.1399 < 9.2818] w=0.0694 to align # Constraint # added constraint: constraint((T0376)I104.CB, (T0376)V134.CB) [> 3.8965 = 6.4941 < 8.4424] w=0.0694 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)S48.CB) [> 3.0794 = 5.1323 < 6.6720] w=0.0691 to align # Constraint # added constraint: constraint((T0376)R106.CB, (T0376)G162.CA) [> 4.5966 = 7.6610 < 9.9592] w=0.0690 to align # Constraint # added constraint: constraint((T0376)D171.CB, (T0376)C203.CB) [> 4.6315 = 7.7191 < 10.0348] w=0.0690 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)I75.CB) [> 4.1147 = 6.8578 < 8.9151] w=0.0689 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)M189.CB) [> 4.2336 = 7.0560 < 9.1727] w=0.0687 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)S227.CB) [> 3.4002 = 5.6671 < 7.3672] w=0.0686 to align # Constraint # added constraint: constraint((T0376)K31.CB, (T0376)V215.CB) [> 3.7789 = 6.2983 < 8.1877] w=0.0684 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)M189.CB) [> 3.2920 = 5.4868 < 7.1328] w=0.0683 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)L260.CB) [> 3.7294 = 6.2157 < 8.0804] w=0.0681 to align # Constraint # added constraint: constraint((T0376)G39.CA, (T0376)V261.CB) [> 4.5194 = 7.5324 < 9.7921] w=0.0681 to align # Constraint # added constraint: constraint((T0376)M49.CB, (T0376)G77.CA) [> 3.9661 = 6.6102 < 8.5932] w=0.0678 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)G77.CA) [> 3.7268 = 6.2113 < 8.0747] w=0.0644 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)I75.CB) [> 4.5461 = 7.5768 < 9.8498] w=0.0634 to align # Constraint # added constraint: constraint((T0376)Y263.CB, (T0376)Y293.CB) [> 4.6193 = 7.6989 < 10.0085] w=0.0618 to align # Constraint # added constraint: constraint((T0376)K31.CB, (T0376)E275.CB) [> 3.7247 = 6.2079 < 8.0702] w=0.0618 to align # Constraint # added constraint: constraint((T0376)D24.CB, (T0376)Y276.CB) [> 3.2489 = 5.4148 < 7.0392] w=0.0618 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)Y276.CB) [> 2.5867 = 4.3112 < 5.6045] w=0.0618 to align # Constraint # added constraint: constraint((T0376)L262.CB, (T0376)Y276.CB) [> 3.9524 = 6.5873 < 8.5634] w=0.0618 to align # Constraint # added constraint: constraint((T0376)L262.CB, (T0376)T277.CB) [> 4.5215 = 7.5358 < 9.7965] w=0.0618 to align # Constraint # added constraint: constraint((T0376)M268.CB, (T0376)F298.CB) [> 4.7084 = 7.8473 < 10.2015] w=0.0618 to align # Constraint # added constraint: constraint((T0376)M49.CB, (T0376)F264.CB) [> 4.0007 = 6.6678 < 8.6682] w=0.0618 to align # Constraint # added constraint: constraint((T0376)S109.CB, (T0376)L149.CB) [> 4.0148 = 6.6913 < 8.6987] w=0.0617 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)A208.CB) [> 4.0559 = 6.7598 < 8.7877] w=0.0617 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)G207.CA) [> 3.9820 = 6.6366 < 8.6276] w=0.0617 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)V43.CB) [> 4.5207 = 7.5346 < 9.7949] w=0.0617 to align # Constraint # added constraint: constraint((T0376)P73.CB, (T0376)P132.CB) [> 4.5128 = 7.5213 < 9.7777] w=0.0616 to align # Constraint # added constraint: constraint((T0376)I104.CB, (T0376)A133.CB) [> 4.4651 = 7.4419 < 9.6744] w=0.0616 to align # Constraint # added constraint: constraint((T0376)V87.CB, (T0376)S112.CB) [> 2.3264 = 3.8773 < 5.0405] w=0.0614 to align # Constraint # added constraint: constraint((T0376)L54.CB, (T0376)G79.CA) [> 3.6719 = 6.1198 < 7.9557] w=0.0614 to align # Constraint # added constraint: constraint((T0376)I212.CB, (T0376)L223.CB) [> 3.4458 = 5.7431 < 7.4660] w=0.0612 to align # Constraint # added constraint: constraint((T0376)A133.CB, (T0376)L188.CB) [> 4.0858 = 6.8097 < 8.8526] w=0.0611 to align # Constraint # added constraint: constraint((T0376)S138.CB, (T0376)I190.CB) [> 4.0650 = 6.7750 < 8.8075] w=0.0608 to align # Constraint # added constraint: constraint((T0376)A133.CB, (T0376)V186.CB) [> 3.7720 = 6.2866 < 8.1726] w=0.0606 to align # Constraint # added constraint: constraint((T0376)S7.CB, (T0376)G71.CA) [> 3.7995 = 6.3325 < 8.2323] w=0.0603 to align # Constraint # added constraint: constraint((T0376)M49.CB, (T0376)V76.CB) [> 4.3426 = 7.2376 < 9.4089] w=0.0601 to align # Constraint # added constraint: constraint((T0376)V44.CB, (T0376)T210.CB) [> 4.4756 = 7.4594 < 9.6972] w=0.0601 to align # Constraint # added constraint: constraint((T0376)C46.CB, (T0376)G211.CA) [> 3.1142 = 5.1904 < 6.7475] w=0.0601 to align # Constraint # added constraint: constraint((T0376)C46.CB, (T0376)I212.CB) [> 3.3340 = 5.5567 < 7.2236] w=0.0601 to align # Constraint # added constraint: constraint((T0376)A86.CB, (T0376)L101.CB) [> 3.7368 = 6.2280 < 8.0964] w=0.0599 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)S227.CB) [> 4.3728 = 7.2881 < 9.4745] w=0.0595 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)V201.CB) [> 3.8302 = 6.3837 < 8.2988] w=0.0567 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)G47.CA) [> 3.8849 = 6.4748 < 8.4172] w=0.0567 to align # Constraint # added constraint: constraint((T0376)W52.CB, (T0376)I104.CB) [> 4.5773 = 7.6287 < 9.9174] w=0.0549 to align # Constraint # added constraint: constraint((T0376)L251.CB, (T0376)Y263.CB) [> 2.5986 = 4.3310 < 5.6303] w=0.0541 to align # Constraint # added constraint: constraint((T0376)S4.CB, (T0376)K99.CB) [> 3.1096 = 5.1827 < 6.7375] w=0.0541 to align # Constraint # added constraint: constraint((T0376)S4.CB, (T0376)P73.CB) [> 3.4481 = 5.7468 < 7.4708] w=0.0541 to align # Constraint # added constraint: constraint((T0376)G191.CA, (T0376)V201.CB) [> 4.7056 = 7.8426 < 10.1954] w=0.0541 to align # Constraint # added constraint: constraint((T0376)K99.CB, (T0376)E130.CB) [> 4.5072 = 7.5119 < 9.7655] w=0.0540 to align # Constraint # added constraint: constraint((T0376)A170.CB, (T0376)N202.CB) [> 3.9486 = 6.5811 < 8.5554] w=0.0536 to align # Constraint # added constraint: constraint((T0376)E185.CB, (T0376)T206.CB) [> 2.8430 = 4.7384 < 6.1599] w=0.0534 to align # Constraint # added constraint: constraint((T0376)G162.CA, (T0376)I209.CB) [> 4.0655 = 6.7759 < 8.8086] w=0.0533 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)I209.CB) [> 4.1692 = 6.9486 < 9.0332] w=0.0527 to align # Constraint # added constraint: constraint((T0376)S112.CB, (T0376)S138.CB) [> 3.7048 = 6.1747 < 8.0271] w=0.0502 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)A239.CB) [> 3.6612 = 6.1020 < 7.9326] w=0.0496 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)P73.CB) [> 4.3770 = 7.2950 < 9.4835] w=0.0490 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)I75.CB) [> 4.5689 = 7.6148 < 9.8992] w=0.0489 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)V215.CB) [> 3.9783 = 6.6304 < 8.6195] w=0.0488 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)S227.CB) [> 4.2007 = 7.0012 < 9.1016] w=0.0488 to align # Constraint # added constraint: constraint((T0376)Y266.CB, (T0376)E295.CB) [> 4.6196 = 7.6994 < 10.0092] w=0.0463 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)R146.CB) [> 3.9111 = 6.5185 < 8.4741] w=0.0463 to align # Constraint # added constraint: constraint((T0376)S48.CB, (T0376)V261.CB) [> 4.6273 = 7.7121 < 10.0258] w=0.0463 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)L262.CB) [> 4.4282 = 7.3804 < 9.5945] w=0.0463 to align # Constraint # added constraint: constraint((T0376)R106.CB, (T0376)E165.CB) [> 4.7341 = 7.8903 < 10.2573] w=0.0463 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)I36.CB) [> 4.4896 = 7.4827 < 9.7275] w=0.0463 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)P73.CB) [> 4.5966 = 7.6611 < 9.9594] w=0.0463 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)P23.CB) [> 3.8220 = 6.3700 < 8.2810] w=0.0463 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)L223.CB) [> 4.0863 = 6.8106 < 8.8537] w=0.0463 to align # Constraint # added constraint: constraint((T0376)Y140.CB, (T0376)V192.CB) [> 3.7494 = 6.2491 < 8.1238] w=0.0463 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)L188.CB) [> 3.9914 = 6.6524 < 8.6481] w=0.0463 to align # Constraint # added constraint: constraint((T0376)I75.CB, (T0376)V103.CB) [> 3.7023 = 6.1705 < 8.0216] w=0.0463 to align # Constraint # added constraint: constraint((T0376)A42.CB, (T0376)G207.CA) [> 4.4867 = 7.4778 < 9.7212] w=0.0462 to align # Constraint # added constraint: constraint((T0376)G191.CA, (T0376)I212.CB) [> 4.5117 = 7.5194 < 9.7753] w=0.0459 to align # Constraint # added constraint: constraint((T0376)A90.CB, (T0376)M102.CB) [> 4.2429 = 7.0715 < 9.1930] w=0.0459 to align # Constraint # added constraint: constraint((T0376)L101.CB, (T0376)I135.CB) [> 3.8313 = 6.3855 < 8.3011] w=0.0459 to align # Constraint # added constraint: constraint((T0376)G97.CA, (T0376)A127.CB) [> 4.4747 = 7.4578 < 9.6952] w=0.0458 to align # Constraint # added constraint: constraint((T0376)K31.CB, (T0376)L216.CB) [> 3.5621 = 5.9369 < 7.7179] w=0.0458 to align # Constraint # added constraint: constraint((T0376)T83.CB, (T0376)L101.CB) [> 3.3918 = 5.6530 < 7.3489] w=0.0458 to align # Constraint # added constraint: constraint((T0376)A84.CB, (T0376)K95.CB) [> 4.0398 = 6.7329 < 8.7528] w=0.0458 to align # Constraint # added constraint: constraint((T0376)N214.CB, (T0376)L223.CB) [> 4.2642 = 7.1069 < 9.2390] w=0.0458 to align # Constraint # added constraint: constraint((T0376)N137.CB, (T0376)I190.CB) [> 3.7819 = 6.3032 < 8.1942] w=0.0457 to align # Constraint # added constraint: constraint((T0376)R146.CB, (T0376)E165.CB) [> 3.9882 = 6.6469 < 8.6410] w=0.0457 to align # Constraint # added constraint: constraint((T0376)V44.CB, (T0376)P73.CB) [> 4.2435 = 7.0725 < 9.1942] w=0.0456 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)G77.CA) [> 3.2669 = 5.4448 < 7.0782] w=0.0420 to align # Constraint # added constraint: constraint((T0376)Y45.CB, (T0376)I209.CB) [> 4.1800 = 6.9666 < 9.0566] w=0.0418 to align # Constraint # added constraint: constraint((T0376)Y45.CB, (T0376)M102.CB) [> 3.5214 = 5.8690 < 7.6297] w=0.0418 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)S227.CB) [> 3.2117 = 5.3529 < 6.9588] w=0.0413 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)I104.CB) [> 4.3541 = 7.2569 < 9.4340] w=0.0412 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)M102.CB) [> 3.9553 = 6.5921 < 8.5698] w=0.0412 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)V261.CB) [> 4.2330 = 7.0550 < 9.1715] w=0.0412 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)G211.CA) [> 3.8955 = 6.4925 < 8.4402] w=0.0407 to align # Constraint # added constraint: constraint((T0376)D171.CB, (T0376)I190.CB) [> 3.9908 = 6.6514 < 8.6468] w=0.0395 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)I209.CB) [> 3.8853 = 6.4754 < 8.4181] w=0.0393 to align # Constraint # added constraint: constraint((T0376)D184.CB, (T0376)G204.CA) [> 4.1740 = 6.9567 < 9.0437] w=0.0389 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)I190.CB) [> 4.2918 = 7.1530 < 9.2989] w=0.0386 to align # Constraint # added constraint: constraint((T0376)I212.CB, (T0376)V261.CB) [> 4.7500 = 7.9167 < 10.2917] w=0.0386 to align # Constraint # added constraint: constraint((T0376)G77.CA, (T0376)P105.CB) [> 4.0438 = 6.7397 < 8.7616] w=0.0386 to align # Constraint # added constraint: constraint((T0376)G77.CA, (T0376)A90.CB) [> 4.3282 = 7.2137 < 9.3777] w=0.0386 to align # Constraint # added constraint: constraint((T0376)Y45.CB, (T0376)T56.CB) [> 3.7178 = 6.1964 < 8.0553] w=0.0385 to align # Constraint # added constraint: constraint((T0376)T56.CB, (T0376)G77.CA) [> 4.2161 = 7.0269 < 9.1349] w=0.0385 to align # Constraint # added constraint: constraint((T0376)L55.CB, (T0376)G79.CA) [> 4.2480 = 7.0800 < 9.2040] w=0.0385 to align # Constraint # added constraint: constraint((T0376)A90.CB, (T0376)I104.CB) [> 4.2417 = 7.0695 < 9.1903] w=0.0385 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)E219.CB) [> 3.2027 = 5.3378 < 6.9392] w=0.0384 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)L188.CB) [> 3.6936 = 6.1560 < 8.0028] w=0.0384 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)G213.CA) [> 3.8160 = 6.3600 < 8.2680] w=0.0384 to align # Constraint # added constraint: constraint((T0376)A133.CB, (T0376)T206.CB) [> 4.0679 = 6.7799 < 8.8138] w=0.0383 to align # Constraint # added constraint: constraint((T0376)T56.CB, (T0376)G79.CA) [> 4.4073 = 7.3456 < 9.5492] w=0.0383 to align # Constraint # added constraint: constraint((T0376)I5.CB, (T0376)A42.CB) [> 3.6884 = 6.1473 < 7.9915] w=0.0383 to align # Constraint # added constraint: constraint((T0376)M49.CB, (T0376)I104.CB) [> 4.6651 = 7.7751 < 10.1076] w=0.0383 to align # Constraint # added constraint: constraint((T0376)K31.CB, (T0376)S227.CB) [> 4.3337 = 7.2229 < 9.3897] w=0.0382 to align # Constraint # added constraint: constraint((T0376)N137.CB, (T0376)G191.CA) [> 3.3683 = 5.6139 < 7.2980] w=0.0380 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)L188.CB) [> 4.5132 = 7.5219 < 9.7785] w=0.0380 to align # Constraint # added constraint: constraint((T0376)M102.CB, (T0376)G162.CA) [> 4.5818 = 7.6363 < 9.9272] w=0.0380 to align # Constraint # added constraint: constraint((T0376)G213.CA, (T0376)D236.CB) [> 2.9657 = 4.9428 < 6.4256] w=0.0378 to align # Constraint # added constraint: constraint((T0376)V134.CB, (T0376)I209.CB) [> 3.7839 = 6.3065 < 8.1985] w=0.0378 to align # Constraint # added constraint: constraint((T0376)P53.CB, (T0376)N82.CB) [> 3.7666 = 6.2777 < 8.1610] w=0.0375 to align # Constraint # added constraint: constraint((T0376)Y45.CB, (T0376)T78.CB) [> 4.5596 = 7.5993 < 9.8791] w=0.0369 to align # Constraint # added constraint: constraint((T0376)P53.CB, (T0376)L108.CB) [> 3.5186 = 5.8644 < 7.6237] w=0.0369 to align # Constraint # added constraint: constraint((T0376)W52.CB, (T0376)G111.CA) [> 4.2880 = 7.1467 < 9.2907] w=0.0364 to align # Constraint # added constraint: constraint((T0376)V161.CB, (T0376)I190.CB) [> 4.2933 = 7.1555 < 9.3022] w=0.0353 to align # Constraint # added constraint: constraint((T0376)N281.CB, (T0376)F298.CB) [> 3.5357 = 5.8928 < 7.6606] w=0.0340 to align # Constraint # added constraint: constraint((T0376)A239.CB, (T0376)V261.CB) [> 3.7165 = 6.1942 < 8.0525] w=0.0340 to align # Constraint # added constraint: constraint((T0376)F280.CB, (T0376)R291.CB) [> 4.6035 = 7.6725 < 9.9743] w=0.0333 to align # Constraint # added constraint: constraint((T0376)F280.CB, (T0376)V294.CB) [> 3.3684 = 5.6141 < 7.2983] w=0.0333 to align # Constraint # added constraint: constraint((T0376)P53.CB, (T0376)I212.CB) [> 4.5497 = 7.5828 < 9.8577] w=0.0322 to align # Constraint # added constraint: constraint((T0376)W52.CB, (T0376)R106.CB) [> 3.6828 = 6.1381 < 7.9795] w=0.0320 to align # Constraint # added constraint: constraint((T0376)D171.CB, (T0376)G191.CA) [> 3.3367 = 5.5612 < 7.2295] w=0.0318 to align # Constraint # added constraint: constraint((T0376)M1.CB, (T0376)K99.CB) [> 3.8363 = 6.3939 < 8.3120] w=0.0309 to align # Constraint # added constraint: constraint((T0376)Y263.CB, (T0376)Q297.CB) [> 4.2285 = 7.0475 < 9.1618] w=0.0309 to align # Constraint # added constraint: constraint((T0376)S7.CB, (T0376)V201.CB) [> 4.2934 = 7.1556 < 9.3023] w=0.0309 to align # Constraint # added constraint: constraint((T0376)N202.CB, (T0376)L278.CB) [> 4.0985 = 6.8309 < 8.8802] w=0.0309 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)I190.CB) [> 3.7980 = 6.3301 < 8.2291] w=0.0309 to align # Constraint # added constraint: constraint((T0376)T78.CB, (T0376)P105.CB) [> 3.7889 = 6.3148 < 8.2093] w=0.0308 to align # Constraint # added constraint: constraint((T0376)V103.CB, (T0376)N137.CB) [> 3.2157 = 5.3595 < 6.9673] w=0.0308 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)I190.CB) [> 3.8887 = 6.4812 < 8.4256] w=0.0308 to align # Constraint # added constraint: constraint((T0376)V76.CB, (T0376)V103.CB) [> 3.6786 = 6.1311 < 7.9704] w=0.0308 to align # Constraint # added constraint: constraint((T0376)M189.CB, (T0376)V201.CB) [> 4.5664 = 7.6106 < 9.8938] w=0.0308 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)I190.CB) [> 3.7303 = 6.2172 < 8.0824] w=0.0308 to align # Constraint # added constraint: constraint((T0376)V74.CB, (T0376)L101.CB) [> 3.6334 = 6.0557 < 7.8725] w=0.0308 to align # Constraint # added constraint: constraint((T0376)N82.CB, (T0376)P105.CB) [> 4.0401 = 6.7335 < 8.7535] w=0.0308 to align # Constraint # added constraint: constraint((T0376)R106.CB, (T0376)L149.CB) [> 3.1069 = 5.1782 < 6.7316] w=0.0307 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)S227.CB) [> 4.1995 = 6.9991 < 9.0989] w=0.0307 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)L108.CB) [> 4.3092 = 7.1819 < 9.3365] w=0.0307 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)G79.CA) [> 4.1417 = 6.9029 < 8.9737] w=0.0307 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)L188.CB) [> 4.1533 = 6.9222 < 8.9989] w=0.0307 to align # Constraint # added constraint: constraint((T0376)I190.CB, (T0376)G211.CA) [> 4.3661 = 7.2768 < 9.4598] w=0.0306 to align # Constraint # added constraint: constraint((T0376)A37.CB, (T0376)P217.CB) [> 3.5426 = 5.9042 < 7.6755] w=0.0305 to align # Constraint # added constraint: constraint((T0376)A176.CB, (T0376)N202.CB) [> 4.6157 = 7.6928 < 10.0006] w=0.0305 to align # Constraint # added constraint: constraint((T0376)K31.CB, (T0376)L223.CB) [> 4.2396 = 7.0659 < 9.1857] w=0.0305 to align # Constraint # added constraint: constraint((T0376)V76.CB, (T0376)K99.CB) [> 4.0310 = 6.7183 < 8.7338] w=0.0305 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)P73.CB) [> 4.4408 = 7.4013 < 9.6217] w=0.0304 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)E165.CB) [> 4.6789 = 7.7982 < 10.1376] w=0.0303 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)M189.CB) [> 4.5681 = 7.6135 < 9.8976] w=0.0303 to align # Constraint # added constraint: constraint((T0376)A133.CB, (T0376)M189.CB) [> 4.0210 = 6.7017 < 8.7123] w=0.0303 to align # Constraint # added constraint: constraint((T0376)P105.CB, (T0376)L149.CB) [> 3.8351 = 6.3919 < 8.3095] w=0.0299 to align # Constraint # added constraint: constraint((T0376)V44.CB, (T0376)I135.CB) [> 4.6321 = 7.7202 < 10.0363] w=0.0298 to align # Constraint # added constraint: constraint((T0376)I75.CB, (T0376)I135.CB) [> 4.7372 = 7.8953 < 10.2638] w=0.0298 to align # Constraint # added constraint: constraint((T0376)F150.CB, (T0376)G204.CA) [> 3.5001 = 5.8334 < 7.5834] w=0.0298 to align # Constraint # added constraint: constraint((T0376)P53.CB, (T0376)G79.CA) [> 4.0682 = 6.7804 < 8.8145] w=0.0298 to align # Constraint # added constraint: constraint((T0376)N281.CB, (T0376)F301.CB) [> 4.1928 = 6.9880 < 9.0845] w=0.0282 to align # Constraint # added constraint: constraint((T0376)V161.CB, (T0376)I209.CB) [> 3.9840 = 6.6400 < 8.6320] w=0.0276 to align # Constraint # added constraint: constraint((T0376)V161.CB, (T0376)G191.CA) [> 4.1388 = 6.8979 < 8.9673] w=0.0276 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)V261.CB) [> 4.2378 = 7.0630 < 9.1819] w=0.0268 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)M102.CB) [> 3.9197 = 6.5329 < 8.4927] w=0.0268 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)I104.CB) [> 4.2429 = 7.0715 < 9.1929] w=0.0268 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)T210.CB) [> 4.7421 = 7.9035 < 10.2746] w=0.0268 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)S227.CB) [> 4.7536 = 7.9226 < 10.2994] w=0.0261 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)Y45.CB) [> 3.3966 = 5.6610 < 7.3593] w=0.0260 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)Y45.CB) [> 4.2261 = 7.0435 < 9.1565] w=0.0254 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)N214.CB) [> 4.6784 = 7.7973 < 10.1365] w=0.0239 to align # Constraint # added constraint: constraint((T0376)I5.CB, (T0376)I75.CB) [> 3.8677 = 6.4462 < 8.3800] w=0.0232 to align # Constraint # added constraint: constraint((T0376)S4.CB, (T0376)G100.CA) [> 4.2450 = 7.0751 < 9.1976] w=0.0232 to align # Constraint # added constraint: constraint((T0376)M1.CB, (T0376)S41.CB) [> 3.9861 = 6.6434 < 8.6365] w=0.0232 to align # Constraint # added constraint: constraint((T0376)P53.CB, (T0376)V107.CB) [> 3.9030 = 6.5050 < 8.4565] w=0.0232 to align # Constraint # added constraint: constraint((T0376)V43.CB, (T0376)G71.CA) [> 4.6365 = 7.7274 < 10.0457] w=0.0232 to align # Constraint # added constraint: constraint((T0376)I36.CB, (T0376)P73.CB) [> 4.0740 = 6.7900 < 8.8270] w=0.0232 to align # Constraint # added constraint: constraint((T0376)I5.CB, (T0376)G162.CA) [> 4.7654 = 7.9424 < 10.3251] w=0.0232 to align # Constraint # added constraint: constraint((T0376)I5.CB, (T0376)V161.CB) [> 3.7896 = 6.3160 < 8.2108] w=0.0232 to align # Constraint # added constraint: constraint((T0376)I5.CB, (T0376)V134.CB) [> 4.3324 = 7.2206 < 9.3868] w=0.0232 to align # Constraint # added constraint: constraint((T0376)N202.CB, (T0376)A230.CB) [> 4.2543 = 7.0906 < 9.2177] w=0.0232 to align # Constraint # added constraint: constraint((T0376)R106.CB, (T0376)V134.CB) [> 4.2762 = 7.1270 < 9.2651] w=0.0232 to align # Constraint # added constraint: constraint((T0376)A42.CB, (T0376)I209.CB) [> 4.7356 = 7.8926 < 10.2604] w=0.0232 to align # Constraint # added constraint: constraint((T0376)K31.CB, (T0376)A42.CB) [> 3.5470 = 5.9117 < 7.6852] w=0.0232 to align # Constraint # added constraint: constraint((T0376)N82.CB, (T0376)V103.CB) [> 4.1255 = 6.8759 < 8.9386] w=0.0232 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)M102.CB) [> 4.7569 = 7.9281 < 10.3065] w=0.0232 to align # Constraint # added constraint: constraint((T0376)V103.CB, (T0376)M189.CB) [> 4.4261 = 7.3769 < 9.5899] w=0.0231 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)T206.CB) [> 4.0890 = 6.8150 < 8.8595] w=0.0231 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)I75.CB) [> 4.2013 = 7.0021 < 9.1027] w=0.0231 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)I36.CB) [> 4.6960 = 7.8266 < 10.1746] w=0.0231 to align # Constraint # added constraint: constraint((T0376)W52.CB, (T0376)V76.CB) [> 3.8743 = 6.4571 < 8.3943] w=0.0231 to align # Constraint # added constraint: constraint((T0376)A247.CB, (T0376)K265.CB) [> 3.9196 = 6.5327 < 8.4925] w=0.0231 to align # Constraint # added constraint: constraint((T0376)M102.CB, (T0376)I190.CB) [> 4.6136 = 7.6893 < 9.9961] w=0.0231 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)I135.CB) [> 4.7901 = 7.9835 < 10.3785] w=0.0231 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)V161.CB) [> 3.6119 = 6.0198 < 7.8258] w=0.0231 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)A133.CB) [> 4.6835 = 7.8058 < 10.1475] w=0.0231 to align # Constraint # added constraint: constraint((T0376)A3.CB, (T0376)C203.CB) [> 4.5286 = 7.5476 < 9.8119] w=0.0231 to align # Constraint # added constraint: constraint((T0376)S138.CB, (T0376)G162.CA) [> 4.2106 = 7.0176 < 9.1229] w=0.0231 to align # Constraint # added constraint: constraint((T0376)L101.CB, (T0376)V161.CB) [> 4.3217 = 7.2029 < 9.3638] w=0.0231 to align # Constraint # added constraint: constraint((T0376)A42.CB, (T0376)L101.CB) [> 4.5957 = 7.6596 < 9.9574] w=0.0231 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)I190.CB) [> 4.2409 = 7.0682 < 9.1886] w=0.0231 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)V161.CB) [> 3.5982 = 5.9970 < 7.7961] w=0.0231 to align # Constraint # added constraint: constraint((T0376)V201.CB, (T0376)A230.CB) [> 4.0696 = 6.7826 < 8.8174] w=0.0231 to align # Constraint # added constraint: constraint((T0376)N82.CB, (T0376)I104.CB) [> 4.1449 = 6.9082 < 8.9807] w=0.0231 to align # Constraint # added constraint: constraint((T0376)K99.CB, (T0376)P129.CB) [> 4.5430 = 7.5717 < 9.8432] w=0.0231 to align # Constraint # added constraint: constraint((T0376)A195.CB, (T0376)S227.CB) [> 4.6657 = 7.7762 < 10.1091] w=0.0231 to align # Constraint # added constraint: constraint((T0376)K31.CB, (T0376)I212.CB) [> 4.5915 = 7.6525 < 9.9483] w=0.0231 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)G191.CA) [> 4.3909 = 7.3181 < 9.5135] w=0.0231 to align # Constraint # added constraint: constraint((T0376)I36.CB, (T0376)V74.CB) [> 4.4153 = 7.3589 < 9.5665] w=0.0231 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)G213.CA) [> 3.1339 = 5.2232 < 6.7901] w=0.0231 to align # Constraint # added constraint: constraint((T0376)A42.CB, (T0376)T206.CB) [> 4.7256 = 7.8760 < 10.2387] w=0.0231 to align # Constraint # added constraint: constraint((T0376)G211.CA, (T0376)L223.CB) [> 3.5183 = 5.8638 < 7.6230] w=0.0230 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)I212.CB) [> 2.5770 = 4.2951 < 5.5836] w=0.0230 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)I212.CB) [> 3.7798 = 6.2997 < 8.1896] w=0.0229 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)A208.CB) [> 3.2287 = 5.3811 < 6.9954] w=0.0229 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)G207.CA) [> 3.8176 = 6.3626 < 8.2714] w=0.0229 to align # Constraint # added constraint: constraint((T0376)V134.CB, (T0376)G207.CA) [> 3.0405 = 5.0674 < 6.5877] w=0.0229 to align # Constraint # added constraint: constraint((T0376)V134.CB, (T0376)T206.CB) [> 4.1056 = 6.8426 < 8.8954] w=0.0229 to align # Constraint # added constraint: constraint((T0376)A133.CB, (T0376)G207.CA) [> 4.5249 = 7.5415 < 9.8040] w=0.0229 to align # Constraint # added constraint: constraint((T0376)M102.CB, (T0376)L188.CB) [> 4.5644 = 7.6073 < 9.8895] w=0.0229 to align # Constraint # added constraint: constraint((T0376)G191.CA, (T0376)G213.CA) [> 4.0765 = 6.7942 < 8.8325] w=0.0228 to align # Constraint # added constraint: constraint((T0376)K99.CB, (T0376)A133.CB) [> 4.3983 = 7.3305 < 9.5296] w=0.0228 to align # Constraint # added constraint: constraint((T0376)K99.CB, (T0376)V134.CB) [> 4.1804 = 6.9673 < 9.0575] w=0.0228 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)K31.CB) [> 3.9312 = 6.5521 < 8.5177] w=0.0227 to align # Constraint # added constraint: constraint((T0376)N137.CB, (T0376)M189.CB) [> 2.7155 = 4.5258 < 5.8835] w=0.0226 to align # Constraint # added constraint: constraint((T0376)S138.CB, (T0376)M189.CB) [> 4.4976 = 7.4959 < 9.7447] w=0.0226 to align # Constraint # added constraint: constraint((T0376)P53.CB, (T0376)S109.CB) [> 3.3608 = 5.6013 < 7.2817] w=0.0222 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)G211.CA) [> 3.7904 = 6.3173 < 8.2125] w=0.0184 to align # Constraint # added constraint: constraint((T0376)V43.CB, (T0376)G207.CA) [> 4.6990 = 7.8316 < 10.1811] w=0.0167 to align # Constraint # added constraint: constraint((T0376)A3.CB, (T0376)P73.CB) [> 3.8784 = 6.4640 < 8.4032] w=0.0154 to align # Constraint # added constraint: constraint((T0376)A3.CB, (T0376)S41.CB) [> 4.5070 = 7.5117 < 9.7652] w=0.0154 to align # Constraint # added constraint: constraint((T0376)M1.CB, (T0376)P132.CB) [> 4.3414 = 7.2357 < 9.4065] w=0.0154 to align # Constraint # added constraint: constraint((T0376)E219.CB, (T0376)Y305.CB) [> 4.0007 = 6.6678 < 8.6682] w=0.0154 to align # Constraint # added constraint: constraint((T0376)L216.CB, (T0376)W304.CB) [> 4.7975 = 7.9959 < 10.3947] w=0.0154 to align # Constraint # added constraint: constraint((T0376)E219.CB, (T0376)W304.CB) [> 4.7909 = 7.9848 < 10.3803] w=0.0154 to align # Constraint # added constraint: constraint((T0376)V43.CB, (T0376)I209.CB) [> 3.8285 = 6.3808 < 8.2950] w=0.0154 to align # Constraint # added constraint: constraint((T0376)V43.CB, (T0376)M102.CB) [> 3.5823 = 5.9706 < 7.7617] w=0.0154 to align # Constraint # added constraint: constraint((T0376)V43.CB, (T0376)G77.CA) [> 4.2362 = 7.0604 < 9.1785] w=0.0154 to align # Constraint # added constraint: constraint((T0376)K271.CB, (T0376)F280.CB) [> 3.1193 = 5.1988 < 6.7585] w=0.0154 to align # Constraint # added constraint: constraint((T0376)T206.CB, (T0376)L278.CB) [> 4.7497 = 7.9161 < 10.2910] w=0.0154 to align # Constraint # added constraint: constraint((T0376)V201.CB, (T0376)L278.CB) [> 3.5640 = 5.9401 < 7.7221] w=0.0154 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)P53.CB) [> 4.5392 = 7.5653 < 9.8349] w=0.0154 to align # Constraint # added constraint: constraint((T0376)G47.CA, (T0376)P105.CB) [> 4.5541 = 7.5902 < 9.8673] w=0.0154 to align # Constraint # added constraint: constraint((T0376)C46.CB, (T0376)P105.CB) [> 4.4133 = 7.3556 < 9.5622] w=0.0154 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)V201.CB) [> 4.6788 = 7.7980 < 10.1374] w=0.0154 to align # Constraint # added constraint: constraint((T0376)V134.CB, (T0376)A208.CB) [> 4.1949 = 6.9914 < 9.0889] w=0.0154 to align # Constraint # added constraint: constraint((T0376)T194.CB, (T0376)A230.CB) [> 4.4445 = 7.4075 < 9.6297] w=0.0154 to align # Constraint # added constraint: constraint((T0376)G213.CA, (T0376)L223.CB) [> 2.6531 = 4.4218 < 5.7484] w=0.0154 to align # Constraint # added constraint: constraint((T0376)G50.CA, (T0376)N82.CB) [> 3.3761 = 5.6269 < 7.3150] w=0.0154 to align # Constraint # added constraint: constraint((T0376)M189.CB, (T0376)T210.CB) [> 4.6998 = 7.8330 < 10.1830] w=0.0154 to align # Constraint # added constraint: constraint((T0376)V201.CB, (T0376)V261.CB) [> 3.6140 = 6.0234 < 7.8305] w=0.0154 to align # Constraint # added constraint: constraint((T0376)T206.CB, (T0376)V261.CB) [> 4.0793 = 6.7988 < 8.8384] w=0.0154 to align # Constraint # added constraint: constraint((T0376)P53.CB, (T0376)R106.CB) [> 4.5090 = 7.5150 < 9.7695] w=0.0154 to align # Constraint # added constraint: constraint((T0376)L125.CB, (T0376)D183.CB) [> 4.2260 = 7.0433 < 9.1562] w=0.0154 to align # Constraint # added constraint: constraint((T0376)C46.CB, (T0376)V103.CB) [> 4.7876 = 7.9794 < 10.3732] w=0.0154 to align # Constraint # added constraint: constraint((T0376)V44.CB, (T0376)V103.CB) [> 3.4663 = 5.7772 < 7.5103] w=0.0154 to align # Constraint # added constraint: constraint((T0376)P105.CB, (T0376)E165.CB) [> 4.2121 = 7.0201 < 9.1261] w=0.0154 to align # Constraint # added constraint: constraint((T0376)V103.CB, (T0376)V161.CB) [> 4.5345 = 7.5575 < 9.8247] w=0.0154 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)I190.CB) [> 4.2030 = 7.0050 < 9.1065] w=0.0154 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)L223.CB) [> 3.6083 = 6.0138 < 7.8179] w=0.0154 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)A195.CB) [> 3.7669 = 6.2782 < 8.1617] w=0.0154 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)A195.CB) [> 3.7550 = 6.2584 < 8.1359] w=0.0154 to align # Constraint # added constraint: constraint((T0376)V44.CB, (T0376)M189.CB) [> 4.4257 = 7.3762 < 9.5891] w=0.0154 to align # Constraint # added constraint: constraint((T0376)G199.CA, (T0376)L278.CB) [> 4.6858 = 7.8096 < 10.1525] w=0.0154 to align # Constraint # added constraint: constraint((T0376)I75.CB, (T0376)A90.CB) [> 4.4049 = 7.3416 < 9.5440] w=0.0154 to align # Constraint # added constraint: constraint((T0376)G47.CA, (T0376)A90.CB) [> 4.4357 = 7.3928 < 9.6107] w=0.0154 to align # Constraint # added constraint: constraint((T0376)C46.CB, (T0376)A90.CB) [> 3.6944 = 6.1573 < 8.0045] w=0.0154 to align # Constraint # added constraint: constraint((T0376)V43.CB, (T0376)L101.CB) [> 4.7875 = 7.9792 < 10.3730] w=0.0154 to align # Constraint # added constraint: constraint((T0376)V43.CB, (T0376)V76.CB) [> 3.7871 = 6.3118 < 8.2053] w=0.0154 to align # Constraint # added constraint: constraint((T0376)V134.CB, (T0376)G191.CA) [> 4.1225 = 6.8709 < 8.9321] w=0.0154 to align # Constraint # added constraint: constraint((T0376)V76.CB, (T0376)V134.CB) [> 3.1326 = 5.2210 < 6.7873] w=0.0154 to align # Constraint # added constraint: constraint((T0376)V76.CB, (T0376)M189.CB) [> 4.7080 = 7.8466 < 10.2005] w=0.0154 to align # Constraint # added constraint: constraint((T0376)T78.CB, (T0376)V134.CB) [> 4.4731 = 7.4552 < 9.6917] w=0.0154 to align # Constraint # added constraint: constraint((T0376)A84.CB, (T0376)M102.CB) [> 4.7330 = 7.8883 < 10.2548] w=0.0154 to align # Constraint # added constraint: constraint((T0376)L101.CB, (T0376)M189.CB) [> 3.8674 = 6.4457 < 8.3794] w=0.0154 to align # Constraint # added constraint: constraint((T0376)M102.CB, (T0376)S138.CB) [> 4.1289 = 6.8815 < 8.9459] w=0.0154 to align # Constraint # added constraint: constraint((T0376)G47.CA, (T0376)I75.CB) [> 2.3214 = 3.8690 < 5.0297] w=0.0154 to align # Constraint # added constraint: constraint((T0376)G47.CA, (T0376)V74.CB) [> 3.1627 = 5.2711 < 6.8525] w=0.0154 to align # Constraint # added constraint: constraint((T0376)Y45.CB, (T0376)P73.CB) [> 4.1126 = 6.8544 < 8.9107] w=0.0154 to align # Constraint # added constraint: constraint((T0376)M49.CB, (T0376)I75.CB) [> 3.9768 = 6.6281 < 8.6165] w=0.0154 to align # Constraint # added constraint: constraint((T0376)P73.CB, (T0376)L101.CB) [> 4.0253 = 6.7089 < 8.7216] w=0.0154 to align # Constraint # added constraint: constraint((T0376)P73.CB, (T0376)M102.CB) [> 3.2118 = 5.3530 < 6.9589] w=0.0154 to align # Constraint # added constraint: constraint((T0376)P73.CB, (T0376)V134.CB) [> 3.4196 = 5.6993 < 7.4091] w=0.0154 to align # Constraint # added constraint: constraint((T0376)V74.CB, (T0376)M102.CB) [> 4.1599 = 6.9332 < 9.0132] w=0.0154 to align # Constraint # added constraint: constraint((T0376)I75.CB, (T0376)I104.CB) [> 4.3846 = 7.3076 < 9.4999] w=0.0154 to align # Constraint # added constraint: constraint((T0376)L55.CB, (T0376)T78.CB) [> 4.5045 = 7.5075 < 9.7598] w=0.0154 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)M102.CB) [> 4.6554 = 7.7589 < 10.0866] w=0.0153 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)G77.CA) [> 3.7156 = 6.1927 < 8.0505] w=0.0153 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)S227.CB) [> 3.3367 = 5.5612 < 7.2295] w=0.0153 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)L223.CB) [> 3.7637 = 6.2728 < 8.1546] w=0.0153 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)L101.CB) [> 3.9688 = 6.6146 < 8.5990] w=0.0152 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)V103.CB) [> 3.9861 = 6.6435 < 8.6365] w=0.0152 to align # Constraint # added constraint: constraint((T0376)V44.CB, (T0376)L101.CB) [> 3.7055 = 6.1758 < 8.0286] w=0.0152 to align # Constraint # added constraint: constraint((T0376)G47.CA, (T0376)V103.CB) [> 3.4217 = 5.7028 < 7.4137] w=0.0152 to align # Constraint # added constraint: constraint((T0376)G47.CA, (T0376)S227.CB) [> 4.1807 = 6.9678 < 9.0581] w=0.0152 to align # Constraint # added constraint: constraint((T0376)C46.CB, (T0376)S227.CB) [> 4.5122 = 7.5203 < 9.7764] w=0.0152 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)T210.CB) [> 3.8254 = 6.3757 < 8.2884] w=0.0151 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)L223.CB) [> 3.5890 = 5.9816 < 7.7761] w=0.0151 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)G191.CA) [> 4.1861 = 6.9769 < 9.0700] w=0.0149 to align # Constraint # added constraint: constraint((T0376)G162.CA, (T0376)G207.CA) [> 3.3497 = 5.5829 < 7.2577] w=0.0149 to align # Constraint # added constraint: constraint((T0376)V161.CB, (T0376)G207.CA) [> 4.3281 = 7.2135 < 9.3776] w=0.0149 to align # Constraint # added constraint: constraint((T0376)L55.CB, (T0376)I212.CB) [> 4.3257 = 7.2095 < 9.3724] w=0.0131 to align # Constraint # added constraint: constraint((T0376)N214.CB, (T0376)A231.CB) [> 3.7480 = 6.2467 < 8.1207] w=0.0118 to align # Constraint # added constraint: constraint((T0376)G191.CA, (T0376)T206.CB) [> 4.7431 = 7.9051 < 10.2767] w=0.0077 to align # Constraint # added constraint: constraint((T0376)F6.CB, (T0376)A230.CB) [> 4.1566 = 6.9277 < 9.0060] w=0.0077 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)V201.CB) [> 3.8068 = 6.3447 < 8.2482] w=0.0077 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)T206.CB) [> 4.4918 = 7.4863 < 9.7321] w=0.0077 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)V261.CB) [> 3.9062 = 6.5103 < 8.4633] w=0.0077 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)L223.CB) [> 3.1648 = 5.2746 < 6.8570] w=0.0077 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)G191.CA) [> 4.4839 = 7.4732 < 9.7151] w=0.0077 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)A42.CB) [> 3.9108 = 6.5180 < 8.4734] w=0.0077 to align # Constraint # added constraint: constraint((T0376)P53.CB, (T0376)T78.CB) [> 3.2445 = 5.4076 < 7.0299] w=0.0077 to align # Constraint # added constraint: constraint((T0376)G191.CA, (T0376)V261.CB) [> 4.6336 = 7.7226 < 10.0394] w=0.0077 to align # Constraint # added constraint: constraint((T0376)G191.CA, (T0376)L262.CB) [> 4.3078 = 7.1797 < 9.3337] w=0.0077 to align # Constraint # added constraint: constraint((T0376)V192.CB, (T0376)F280.CB) [> 4.6604 = 7.7673 < 10.0975] w=0.0077 to align # Constraint # added constraint: constraint((T0376)P16.CB, (T0376)M49.CB) [> 3.8942 = 6.4903 < 8.4373] w=0.0077 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)G213.CA) [> 3.3404 = 5.5674 < 7.2376] w=0.0077 to align # Constraint # added constraint: constraint((T0376)S138.CB, (T0376)T194.CB) [> 4.7044 = 7.8407 < 10.1929] w=0.0077 to align # Constraint # added constraint: constraint((T0376)C46.CB, (T0376)I104.CB) [> 4.4095 = 7.3492 < 9.5539] w=0.0077 to align # Constraint # added constraint: constraint((T0376)P105.CB, (T0376)V134.CB) [> 4.5725 = 7.6209 < 9.9072] w=0.0077 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)T78.CB) [> 4.3607 = 7.2678 < 9.4481] w=0.0077 to align # Constraint # added constraint: constraint((T0376)I104.CB, (T0376)A128.CB) [> 4.4073 = 7.3455 < 9.5492] w=0.0077 to align # Constraint # added constraint: constraint((T0376)G50.CA, (T0376)G111.CA) [> 3.6999 = 6.1665 < 8.0164] w=0.0077 to align # Constraint # added constraint: constraint((T0376)I135.CB, (T0376)T206.CB) [> 4.6080 = 7.6801 < 9.9841] w=0.0077 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)E165.CB) [> 4.7528 = 7.9213 < 10.2977] w=0.0077 to align # Constraint # added constraint: constraint((T0376)E165.CB, (T0376)A208.CB) [> 4.5252 = 7.5421 < 9.8047] w=0.0077 to align # Constraint # added constraint: constraint((T0376)E165.CB, (T0376)I209.CB) [> 2.2509 = 3.7515 < 4.8769] w=0.0077 to align # Constraint # added constraint: constraint((T0376)E165.CB, (T0376)T210.CB) [> 4.7997 = 7.9995 < 10.3994] w=0.0077 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)T194.CB) [> 4.3283 = 7.2139 < 9.3780] w=0.0077 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)T194.CB) [> 3.6820 = 6.1367 < 7.9777] w=0.0077 to align # Constraint # added constraint: constraint((T0376)K31.CB, (T0376)T194.CB) [> 4.0339 = 6.7232 < 8.7402] w=0.0077 to align # Constraint # added constraint: constraint((T0376)V44.CB, (T0376)G79.CA) [> 3.3014 = 5.5023 < 7.1530] w=0.0077 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)T194.CB) [> 3.3469 = 5.5782 < 7.2517] w=0.0077 to align # Constraint # added constraint: constraint((T0376)T2.CB, (T0376)C203.CB) [> 4.6753 = 7.7921 < 10.1298] w=0.0077 to align # Constraint # added constraint: constraint((T0376)Y45.CB, (T0376)G79.CA) [> 3.8921 = 6.4868 < 8.4329] w=0.0077 to align # Constraint # added constraint: constraint((T0376)V44.CB, (T0376)G191.CA) [> 4.1876 = 6.9793 < 9.0731] w=0.0077 to align # Constraint # added constraint: constraint((T0376)V44.CB, (T0376)I190.CB) [> 4.6101 = 7.6834 < 9.9885] w=0.0077 to align # Constraint # added constraint: constraint((T0376)G207.CA, (T0376)V261.CB) [> 4.6767 = 7.7946 < 10.1329] w=0.0077 to align # Constraint # added constraint: constraint((T0376)G111.CA, (T0376)N281.CB) [> 3.8487 = 6.4145 < 8.3389] w=0.0077 to align # Constraint # added constraint: constraint((T0376)S109.CB, (T0376)N281.CB) [> 4.3459 = 7.2431 < 9.4160] w=0.0077 to align # Constraint # added constraint: constraint((T0376)M49.CB, (T0376)F280.CB) [> 4.1955 = 6.9925 < 9.0903] w=0.0077 to align # Constraint # added constraint: constraint((T0376)M49.CB, (T0376)L278.CB) [> 3.6749 = 6.1248 < 7.9623] w=0.0077 to align # Constraint # added constraint: constraint((T0376)M49.CB, (T0376)A90.CB) [> 4.0365 = 6.7274 < 8.7457] w=0.0077 to align # Constraint # added constraint: constraint((T0376)V81.CB, (T0376)F280.CB) [> 3.7623 = 6.2705 < 8.1516] w=0.0077 to align # Constraint # added constraint: constraint((T0376)A247.CB, (T0376)Y263.CB) [> 2.8695 = 4.7826 < 6.2173] w=0.0077 to align # Constraint # added constraint: constraint((T0376)Y305.CB, (T0376)A314.CB) [> 3.3933 = 5.6556 < 7.3522] w=0.0077 to align # Constraint # added constraint: constraint((T0376)N302.CB, (T0376)A314.CB) [> 3.7357 = 6.2261 < 8.0940] w=0.0077 to align # Constraint # added constraint: constraint((T0376)V261.CB, (T0376)A314.CB) [> 4.4820 = 7.4700 < 9.7110] w=0.0077 to align # Constraint # added constraint: constraint((T0376)V261.CB, (T0376)W304.CB) [> 3.2618 = 5.4364 < 7.0673] w=0.0077 to align # Constraint # added constraint: constraint((T0376)V261.CB, (T0376)N302.CB) [> 3.2732 = 5.4553 < 7.0919] w=0.0077 to align # Constraint # added constraint: constraint((T0376)L223.CB, (T0376)Y263.CB) [> 4.6385 = 7.7309 < 10.0501] w=0.0077 to align # Constraint # added constraint: constraint((T0376)E219.CB, (T0376)V261.CB) [> 4.7509 = 7.9182 < 10.2936] w=0.0077 to align # Constraint # added constraint: constraint((T0376)N214.CB, (T0376)S227.CB) [> 2.7215 = 4.5358 < 5.8965] w=0.0077 to align # Constraint # added constraint: constraint((T0376)G47.CA, (T0376)I212.CB) [> 4.1592 = 6.9321 < 9.0117] w=0.0077 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)I190.CB) [> 4.6401 = 7.7335 < 10.0535] w=0.0077 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)I212.CB) [> 4.0141 = 6.6902 < 8.6972] w=0.0077 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)I212.CB) [> 2.2847 = 3.8079 < 4.9502] w=0.0077 to align # Constraint # added constraint: constraint((T0376)L13.CB, (T0376)I212.CB) [> 3.9425 = 6.5708 < 8.5421] w=0.0077 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)V74.CB) [> 4.6818 = 7.8030 < 10.1439] w=0.0077 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)M189.CB) [> 4.6476 = 7.7461 < 10.0699] w=0.0077 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)G213.CA) [> 3.8994 = 6.4990 < 8.4488] w=0.0077 to align # Constraint # added constraint: constraint((T0376)G162.CA, (T0376)G191.CA) [> 4.1204 = 6.8674 < 8.9276] w=0.0077 to align # Constraint # added constraint: constraint((T0376)L188.CB, (T0376)V201.CB) [> 3.2022 = 5.3370 < 6.9381] w=0.0077 to align # Constraint # added constraint: constraint((T0376)T15.CB, (T0376)R106.CB) [> 3.7107 = 6.1845 < 8.0398] w=0.0076 to align # Constraint # added constraint: constraint((T0376)M14.CB, (T0376)R106.CB) [> 4.6654 = 7.7757 < 10.1084] w=0.0076 to align # Constraint # added constraint: constraint((T0376)S138.CB, (T0376)I209.CB) [> 4.5784 = 7.6307 < 9.9199] w=0.0074 to align # Constraint # added constraint: constraint((T0376)N137.CB, (T0376)T210.CB) [> 3.3347 = 5.5578 < 7.2252] w=0.0074 to align # Constraint # added constraint: constraint((T0376)N137.CB, (T0376)I209.CB) [> 3.7735 = 6.2891 < 8.1759] w=0.0074 to align # Constraint # added constraint: constraint((T0376)N137.CB, (T0376)A208.CB) [> 3.4358 = 5.7264 < 7.4443] w=0.0074 to align # Constraint # added constraint: constraint((T0376)S138.CB, (T0376)G213.CA) [> 4.5729 = 7.6215 < 9.9080] w=0.0074 to align # Constraint # added constraint: constraint((T0376)S138.CB, (T0376)I212.CB) [> 3.5087 = 5.8478 < 7.6021] w=0.0074 to align # Constraint # added constraint: constraint((T0376)S138.CB, (T0376)G211.CA) [> 3.5602 = 5.9337 < 7.7139] w=0.0074 to align # Constraint # added constraint: constraint((T0376)S138.CB, (T0376)T210.CB) [> 4.2626 = 7.1043 < 9.2356] w=0.0074 to align # Constraint # added constraint: constraint((T0376)A12.CB, (T0376)V74.CB) [> 4.5114 = 7.5191 < 9.7748] w=0.0073 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)I212.CB) [> 3.3507 = 5.5845 < 7.2598] w=0.0073 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)G162.CA) [> 4.3415 = 7.2359 < 9.4067] w=0.0072 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)N214.CB) [> 3.2698 = 5.4496 < 7.0845] w=0.0072 to align # Constraint # added constraint: constraint((T0376)G162.CA, (T0376)A208.CB) [> 4.0200 = 6.7000 < 8.7100] w=0.0072 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)Y45.CB) [> 3.7650 = 6.2751 < 8.1576] w=0.0032 to align # Constraint # added constraint: constraint((T0376)V9.CB, (T0376)N214.CB) [> 4.1142 = 6.8570 < 8.9141] w=0.0032 to align # Constraint # added constraint: constraint((T0376)I10.CB, (T0376)G191.CA) [> 4.0008 = 6.6681 < 8.6685] w=0.0032 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)G47.CA) [> 2.9905 = 4.9842 < 6.4794] w=0.0032 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)G77.CA) [> 3.4587 = 5.7645 < 7.4938] w=0.0032 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)M102.CB) [> 3.8358 = 6.3930 < 8.3108] w=0.0032 to align # Constraint # added constraint: constraint((T0376)P11.CB, (T0376)I104.CB) [> 4.1632 = 6.9387 < 9.0203] w=0.0032 to align # Constraint # added constraint: constraint((T0376)F280.CB, (T0376)Q297.CB) [> 3.8939 = 6.4898 < 8.4367] w=0.0008 to align # Constraint # added constraint: constraint((T0376)F280.CB, (T0376)F301.CB) [> 2.8556 = 4.7593 < 6.1870] w=0.0008 to align # SetCost created cost = # ( 1.0000 * align ) # command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0376/ # command:# reading script from file servers-clean.under # Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0376/decoys/ # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 280 # 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 252 # 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 291 # 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 272 # 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 272 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS5 # ReadConformPDB reading from PDB file servers/BayesHH_TS1.pdb.gz looking for model 1 # Found a chain break before 316 # 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 320 # 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 286 # 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 274 # 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 274 # 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 320 # 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 320 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS1 # ReadConformPDB reading from PDB file servers/CIRCLE_TS2.pdb.gz looking for model 1 # Found a chain break before 313 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS2 # ReadConformPDB reading from PDB file servers/CIRCLE_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS3 # ReadConformPDB reading from PDB file servers/CIRCLE_TS4.pdb.gz looking for model 1 # Found a chain break before 291 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS4 # ReadConformPDB reading from PDB file servers/CIRCLE_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS5 # ReadConformPDB reading from PDB file servers/CPHmodels_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 can't currently be optimized by undertaker # naming current conformation CPHmodels_TS1 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 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: incomplete conformation T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 can't currently be optimized by undertaker # naming current conformation Distill_TS5 # ReadConformPDB reading from PDB file servers/FAMSD_TS1.pdb.gz looking for model 1 # Found a chain break before 315 # copying to AlignedFragments data structure # naming current conformation FAMSD_TS1 # ReadConformPDB reading from PDB file servers/FAMSD_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 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 T0376 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 T0376 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 T0376 can't currently be optimized by undertaker # naming current conformation FAMSD_TS5 # ReadConformPDB reading from PDB file servers/FAMS_TS1.pdb.gz looking for model 1 # Found a chain break before 303 # 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 320 # 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 313 # 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 310 # copying to AlignedFragments data structure # naming current conformation FAMS_TS4 # ReadConformPDB reading from PDB file servers/FAMS_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 can't currently be optimized by undertaker # naming current conformation FAMS_TS5 # ReadConformPDB reading from PDB file servers/FOLDpro_TS1.pdb.gz looking for model 1 # Found a chain break before 299 # 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 275 # 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 281 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS3 # ReadConformPDB reading from PDB file servers/FOLDpro_TS4.pdb.gz looking for model 1 # Found a chain break before 281 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS4 # ReadConformPDB reading from PDB file servers/FOLDpro_TS5.pdb.gz looking for model 1 # Found a chain break before 281 # 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 T0376 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 97, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 98, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 99, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 100, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 333, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 334, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 335, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 336, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 433, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 434, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 435, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 436, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 645, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 646, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 647, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 648, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 733, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 734, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 735, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 736, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 773, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 774, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 775, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 776, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 881, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 882, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 883, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz Skipped atom 884, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL2.pdb.gz # WARNING: incomplete conformation T0376 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 Skipped atom 986, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL3.pdb.gz Skipped atom 988, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL3.pdb.gz Skipped atom 990, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL3.pdb.gz Skipped atom 992, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL3.pdb.gz # WARNING: incomplete conformation T0376 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 Skipped atom 886, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL4.pdb.gz Skipped atom 888, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL4.pdb.gz Skipped atom 890, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL4.pdb.gz Skipped atom 892, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL4.pdb.gz # WARNING: incomplete conformation T0376 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 T0376 can't currently be optimized by undertaker # naming current conformation FORTE1_AL5 # ReadConformPDB reading from PDB file servers/FORTE2_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 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 Skipped atom 986, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL2.pdb.gz Skipped atom 988, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL2.pdb.gz Skipped atom 990, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL2.pdb.gz Skipped atom 992, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL2.pdb.gz # WARNING: incomplete conformation T0376 can't currently be optimized by undertaker # naming current conformation FORTE2_AL2 # ReadConformPDB reading from PDB file servers/FORTE2_AL3.pdb.gz looking for model 1 Skipped atom 882, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL3.pdb.gz Skipped atom 884, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL3.pdb.gz Skipped atom 886, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL3.pdb.gz Skipped atom 888, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL3.pdb.gz # WARNING: incomplete conformation T0376 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 Skipped atom 97, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 98, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 99, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 100, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 333, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 334, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 335, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 336, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 433, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 434, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 435, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 436, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 645, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 646, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 647, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 648, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 733, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 734, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 735, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 736, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 773, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 774, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 775, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 776, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 881, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 882, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 883, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz Skipped atom 884, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL4.pdb.gz # WARNING: incomplete conformation T0376 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 T0376 can't currently be optimized by undertaker # naming current conformation FORTE2_AL5 # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS1.pdb.gz looking for model 1 # Found a chain break before 151 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS1 # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS2.pdb.gz looking for model 1 # Found a chain break before 224 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS2 # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS3.pdb.gz looking for model 1 # Found a chain break before 272 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS3 # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS4.pdb.gz looking for model 1 # Found a chain break before 286 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS4 # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS5.pdb.gz looking for model 1 # Found a chain break before 256 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS5 # ReadConformPDB reading from PDB file servers/FUGMOD_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 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 T0376 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 T0376 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 T0376 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 # Found a chain break before 303 # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS5 # ReadConformPDB reading from PDB file servers/FUGUE_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 can't currently be optimized by undertaker # naming current conformation FUGUE_AL1 # ReadConformPDB reading from PDB file servers/FUGUE_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 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 T0376 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 T0376 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 T0376 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 319 # 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 312 # 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 320 # 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 313 # 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 310 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS5 # ReadConformPDB reading from PDB file servers/Frankenstein_TS1.pdb.gz looking for model 1 # Found a chain break before 310 # copying to AlignedFragments data structure # naming current conformation Frankenstein_TS1 # ReadConformPDB reading from PDB file servers/Frankenstein_TS2.pdb.gz looking for model 1 # Found a chain break before 307 # copying to AlignedFragments data structure # naming current conformation Frankenstein_TS2 # ReadConformPDB reading from PDB file servers/Frankenstein_TS3.pdb.gz looking for model 1 # Found a chain break before 311 # copying to AlignedFragments data structure # naming current conformation Frankenstein_TS3 # ReadConformPDB reading from PDB file servers/Frankenstein_TS4.pdb.gz looking for model 1 # Found a chain break before 284 # copying to AlignedFragments data structure # naming current conformation Frankenstein_TS4 # ReadConformPDB reading from PDB file servers/Frankenstein_TS5.pdb.gz looking for model 1 # Found a chain break before 281 # copying to AlignedFragments data structure # naming current conformation Frankenstein_TS5 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 can't currently be optimized by undertaker # naming current conformation GeneSilicoMetaServer_TS1 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 can't currently be optimized by undertaker # naming current conformation GeneSilicoMetaServer_TS3 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 can't currently be optimized by undertaker # naming current conformation GeneSilicoMetaServer_TS4 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 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 260 # 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 260 # 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 281 # 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 can't currently be optimized by undertaker # naming current conformation LOOPP_TS5 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS1.pdb.gz looking for model 1 # Found a chain break before 260 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS1 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS2.pdb.gz looking for model 1 # Found a chain break before 301 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS2 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS3.pdb.gz looking for model 1 # Found a chain break before 190 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS3 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS4.pdb.gz looking for model 1 # Found a chain break before 274 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS4 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS5.pdb.gz looking for model 1 # Found a chain break before 281 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS5 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS1.pdb.gz looking for model 1 # Found a chain break before 301 # 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 310 # 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 241 # 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 190 # 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 310 # 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 317 # 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 320 # 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 320 # 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 319 # 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 319 # 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 300 # copying to AlignedFragments data structure # naming current conformation NN_PUT_lab_TS1 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS1.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS1 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS2.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS2 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS3.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS3 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS4.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS4 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS5.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS5 # ReadConformPDB reading from PDB file servers/PROTINFO_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 can't currently be optimized by undertaker # naming current conformation PROTINFO_TS1 # ReadConformPDB reading from PDB file servers/PROTINFO_TS2.pdb.gz looking for model 1 # naming current conformation PROTINFO_TS2 # ReadConformPDB reading from PDB file servers/PROTINFO_TS3.pdb.gz looking for model 1 # 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 128 # 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 T0376 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 T0376 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 T0376 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 # WARNING: incomplete conformation T0376 can't currently be optimized by undertaker # naming current conformation Pcons6_TS4 # ReadConformPDB reading from PDB file servers/Pcons6_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 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 T0376 can't currently be optimized by undertaker # naming current conformation Phyre-1_TS1 # ReadConformPDB reading from PDB file servers/Phyre-2_TS1.pdb.gz looking for model 1 # Found a chain break before 319 # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS1 # ReadConformPDB reading from PDB file servers/Phyre-2_TS2.pdb.gz looking for model 1 # Found a chain break before 318 # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS2 # ReadConformPDB reading from PDB file servers/Phyre-2_TS3.pdb.gz looking for model 1 # Found a chain break before 319 # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS3 # ReadConformPDB reading from PDB file servers/Phyre-2_TS4.pdb.gz looking for model 1 # Found a chain break before 282 # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS4 # ReadConformPDB reading from PDB file servers/Phyre-2_TS5.pdb.gz looking for model 1 # Found a chain break before 319 # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS5 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS1 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS2.pdb.gz looking for model 1 # Found a chain break before 209 # 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 T0376 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 T0376 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 # Found a chain break before 251 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS5 # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS1.pdb.gz looking for model 1 # Found a chain break before 281 # 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 281 # 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 306 # 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 277 # 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 280 # 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 320 # 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 311 # 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 305 # 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 314 # 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 315 # 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 215 # 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 260 # 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 301 # 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 260 # 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 281 # 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 251 # 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 282 # 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 209 # 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 209 # 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 276 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS5 # ReadConformPDB reading from PDB file servers/ROKKY_TS1.pdb.gz looking for model 1 # Found a chain break before 274 # copying to AlignedFragments data structure # naming current conformation ROKKY_TS1 # ReadConformPDB reading from PDB file servers/ROKKY_TS2.pdb.gz looking for model 1 # Found a chain break before 280 # 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 281 # 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 281 # 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 281 # 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 Skipped atom 890, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL1.pdb.gz Skipped atom 892, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL1.pdb.gz Skipped atom 894, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL1.pdb.gz Skipped atom 896, because occupancy 1.000 <= existing 1.000 in servers/SAM-T02_AL1.pdb.gz # WARNING: incomplete conformation T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 Skipped atom 1095, because occupancy 1.000 <= existing 1.000 in servers/SAM-T99_AL2.pdb.gz # WARNING: incomplete conformation T0376 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 T0376 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 Skipped atom 327, because occupancy 1.000 <= existing 1.000 in servers/SAM-T99_AL4.pdb.gz # WARNING: incomplete conformation T0376 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 T0376 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 284 # 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 T0376 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 T0376 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 T0376 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 T0376 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 280 # 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 274 # 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 215 # 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 215 # 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 260 # 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 274 # 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 280 # 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 260 # 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 215 # 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 281 # 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 300 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS1 # ReadConformPDB reading from PDB file servers/SPARKS2_TS2.pdb.gz looking for model 1 # Found a chain break before 280 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS2 # ReadConformPDB reading from PDB file servers/SPARKS2_TS3.pdb.gz looking for model 1 # Found a chain break before 272 # 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 215 # 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 260 # 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 T0376 can't currently be optimized by undertaker # naming current conformation UNI-EID_expm_TS1 # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 314 # 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 310 # 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 311 # 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 319 # 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 305 # 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 T0376 can't currently be optimized by undertaker # naming current conformation beautshot_TS1 # ReadConformPDB reading from PDB file servers/beautshotbase_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 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 Skipped atom 986, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 988, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 990, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz Skipped atom 992, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL1.pdb.gz # WARNING: incomplete conformation T0376 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 T0376 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 882, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL3.pdb.gz Skipped atom 884, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL3.pdb.gz Skipped atom 886, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL3.pdb.gz Skipped atom 888, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL3.pdb.gz # WARNING: incomplete conformation T0376 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 T0376 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 T0376 can't currently be optimized by undertaker # naming current conformation forecast-s_AL5 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS1.pdb.gz looking for model 1 # Found a chain break before 227 # 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 303 # 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 227 # 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 227 # 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 227 # 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 318 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS1 # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS2.pdb.gz looking for model 1 # Found a chain break before 320 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS2 # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS3.pdb.gz looking for model 1 WARNING: atoms too close: (T0376)M189.O and (T0376)I190.N only 0.000 apart, marking (T0376)I190.N as missing # WARNING: incomplete conformation T0376 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS3 # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS4.pdb.gz looking for model 1 # Found a chain break before 318 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS4 # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS5.pdb.gz looking for model 1 # Found a chain break before 318 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS5 # ReadConformPDB reading from PDB file servers/karypis.srv_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 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 T0376 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 T0376 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 T0376 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 T0376 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 # 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 134 # 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 136 # 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 # naming current conformation keasar-server_TS4 # ReadConformPDB reading from PDB file servers/keasar-server_TS5.pdb.gz looking for model 1 # naming current conformation keasar-server_TS5 # ReadConformPDB reading from PDB file servers/mGen-3D_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 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 T0376 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 T0376 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 T0376 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: atom 1 has residue number 5 < previous residue 256 in servers/nFOLD_TS4.pdb.gz # WARNING: incomplete conformation T0376 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 T0376 can't currently be optimized by undertaker # naming current conformation nFOLD_TS5 # ReadConformPDB reading from PDB file servers/panther2_TS1.pdb.gz looking for model 1 WARNING: atoms too close: (T0376)I5.N and (T0376)A119.N only 0.000 apart, marking (T0376)A119.N as missing WARNING: atoms too close: (T0376)I5.CA and (T0376)A119.CA only 0.000 apart, marking (T0376)A119.CA as missing WARNING: atoms too close: (T0376)I5.CB and (T0376)A119.CB only 0.000 apart, marking (T0376)A119.CB as missing WARNING: atoms too close: (T0376)I5.O and (T0376)A119.O only 0.000 apart, marking (T0376)A119.O as missing WARNING: atoms too close: (T0376)I5.C and (T0376)A119.C only 0.000 apart, marking (T0376)A119.C as missing WARNING: atoms too close: (T0376)A119.N and (T0376)A127.N only 0.000 apart, marking (T0376)A119.N as missing WARNING: atoms too close: (T0376)I5.N and (T0376)A127.N only 0.000 apart, marking (T0376)A127.N as missing WARNING: atoms too close: (T0376)A119.CA and (T0376)A127.CA only 0.000 apart, marking (T0376)A127.CA as missing WARNING: atoms too close: (T0376)I5.CA and (T0376)A127.CA only 0.000 apart, marking (T0376)A127.CA as missing WARNING: atoms too close: (T0376)A119.CB and (T0376)A127.CB only 0.000 apart, marking (T0376)A127.CB as missing WARNING: atoms too close: (T0376)I5.CB and (T0376)A127.CB only 0.000 apart, marking (T0376)A127.CB as missing WARNING: atoms too close: (T0376)A119.O and (T0376)A127.O only 0.000 apart, marking (T0376)A127.O as missing WARNING: atoms too close: (T0376)I5.O and (T0376)A127.O only 0.000 apart, marking (T0376)A127.O as missing WARNING: atoms too close: (T0376)A119.C and (T0376)A127.C only 0.000 apart, marking (T0376)A127.C as missing WARNING: atoms too close: (T0376)I5.C and (T0376)A127.C only 0.000 apart, marking (T0376)A127.C as missing WARNING: atoms too close: (T0376)A127.N and (T0376)P169.N only 0.000 apart, marking (T0376)A127.N as missing WARNING: atoms too close: (T0376)A119.N and (T0376)P169.N only 0.000 apart, marking (T0376)A119.N as missing WARNING: atoms too close: (T0376)I5.N and (T0376)P169.N only 0.000 apart, marking (T0376)P169.N as missing WARNING: atoms too close: (T0376)A127.CA and (T0376)P169.CA only 0.000 apart, marking (T0376)P169.CA as missing WARNING: atoms too close: (T0376)A119.CA and (T0376)P169.CA only 0.000 apart, marking (T0376)P169.CA as missing WARNING: atoms too close: (T0376)I5.CA and (T0376)P169.CA only 0.000 apart, marking (T0376)P169.CA as missing WARNING: atoms too close: (T0376)A127.CB and (T0376)P169.CB only 0.000 apart, marking (T0376)P169.CB as missing WARNING: atoms too close: (T0376)A119.CB and (T0376)P169.CB only 0.000 apart, marking (T0376)P169.CB as missing WARNING: atoms too close: (T0376)I5.CB and (T0376)P169.CB only 0.000 apart, marking (T0376)P169.CB as missing WARNING: atoms too close: (T0376)A127.O and (T0376)P169.O only 0.000 apart, marking (T0376)P169.O as missing WARNING: atoms too close: (T0376)A119.O and (T0376)P169.O only 0.000 apart, marking (T0376)P169.O as missing WARNING: atoms too close: (T0376)I5.O and (T0376)P169.O only 0.000 apart, marking (T0376)P169.O as missing WARNING: atoms too close: (T0376)A127.C and (T0376)P169.C only 0.000 apart, marking (T0376)P169.C as missing WARNING: atoms too close: (T0376)A119.C and (T0376)P169.C only 0.000 apart, marking (T0376)P169.C as missing WARNING: atoms too close: (T0376)I5.C and (T0376)P169.C only 0.000 apart, marking (T0376)P169.C as missing WARNING: atoms too close: (T0376)P169.N and (T0376)A170.N only 0.000 apart, marking (T0376)P169.N as missing WARNING: atoms too close: (T0376)A127.N and (T0376)A170.N only 0.000 apart, marking (T0376)A127.N as missing WARNING: atoms too close: (T0376)A119.N and (T0376)A170.N only 0.000 apart, marking (T0376)A119.N as missing WARNING: atoms too close: (T0376)I5.N and (T0376)A170.N only 0.000 apart, marking (T0376)A170.N as missing WARNING: atoms too close: (T0376)P169.CA and (T0376)A170.CA only 0.000 apart, marking (T0376)A170.CA as missing WARNING: atoms too close: (T0376)A127.CA and (T0376)A170.CA only 0.000 apart, marking (T0376)A170.CA as missing WARNING: atoms too close: (T0376)A119.CA and (T0376)A170.CA only 0.000 apart, marking (T0376)A170.CA as missing WARNING: atoms too close: (T0376)I5.CA and (T0376)A170.CA only 0.000 apart, marking (T0376)A170.CA as missing WARNING: atoms too close: (T0376)P169.CB and (T0376)A170.CB only 0.000 apart, marking (T0376)A170.CB as missing WARNING: atoms too close: (T0376)A127.CB and (T0376)A170.CB only 0.000 apart, marking (T0376)A170.CB as missing WARNING: atoms too close: (T0376)A119.CB and (T0376)A170.CB only 0.000 apart, marking (T0376)A170.CB as missing WARNING: atoms too close: (T0376)I5.CB and (T0376)A170.CB only 0.000 apart, marking (T0376)A170.CB as missing WARNING: atoms too close: (T0376)P169.O and (T0376)A170.O only 0.000 apart, marking (T0376)A170.O as missing WARNING: atoms too close: (T0376)A127.O and (T0376)A170.O only 0.000 apart, marking (T0376)A170.O as missing WARNING: atoms too close: (T0376)A119.O and (T0376)A170.O only 0.000 apart, marking (T0376)A170.O as missing WARNING: atoms too close: (T0376)I5.O and (T0376)A170.O only 0.000 apart, marking (T0376)A170.O as missing WARNING: atoms too close: (T0376)P169.C and (T0376)A170.C only 0.000 apart, marking (T0376)A170.C as missing WARNING: atoms too close: (T0376)A127.C and (T0376)A170.C only 0.000 apart, marking (T0376)A170.C as missing WARNING: atoms too close: (T0376)A119.C and (T0376)A170.C only 0.000 apart, marking (T0376)A170.C as missing WARNING: atoms too close: (T0376)I5.C and (T0376)A170.C only 0.000 apart, marking (T0376)A170.C as missing WARNING: atoms too close: (T0376)A170.N and (T0376)G199.N only 0.000 apart, marking (T0376)A170.N as missing WARNING: atoms too close: (T0376)P169.N and (T0376)G199.N only 0.000 apart, marking (T0376)P169.N as missing WARNING: atoms too close: (T0376)A127.N and (T0376)G199.N only 0.000 apart, marking (T0376)A127.N as missing WARNING: atoms too close: (T0376)A119.N and (T0376)G199.N only 0.000 apart, marking (T0376)A119.N as missing WARNING: atoms too close: (T0376)I5.N and (T0376)G199.N only 0.000 apart, marking (T0376)G199.N as missing WARNING: atoms too close: (T0376)A170.CA and (T0376)G199.CA only 0.000 apart, marking (T0376)G199.CA as missing WARNING: atoms too close: (T0376)P169.CA and (T0376)G199.CA only 0.000 apart, marking (T0376)G199.CA as missing WARNING: atoms too close: (T0376)A127.CA and (T0376)G199.CA only 0.000 apart, marking (T0376)G199.CA as missing WARNING: atoms too close: (T0376)A119.CA and (T0376)G199.CA only 0.000 apart, marking (T0376)G199.CA as missing WARNING: atoms too close: (T0376)I5.CA and (T0376)G199.CA only 0.000 apart, marking (T0376)G199.CA as missing WARNING: atoms too close: (T0376)A170.O and (T0376)G199.O only 0.000 apart, marking (T0376)G199.O as missing WARNING: atoms too close: (T0376)P169.O and (T0376)G199.O only 0.000 apart, marking (T0376)G199.O as missing WARNING: atoms too close: (T0376)A127.O and (T0376)G199.O only 0.000 apart, marking (T0376)G199.O as missing WARNING: atoms too close: (T0376)A119.O and (T0376)G199.O only 0.000 apart, marking (T0376)G199.O as missing WARNING: atoms too close: (T0376)I5.O and (T0376)G199.O only 0.000 apart, marking (T0376)G199.O as missing WARNING: atoms too close: (T0376)A170.C and (T0376)G199.C only 0.000 apart, marking (T0376)G199.C as missing WARNING: atoms too close: (T0376)P169.C and (T0376)G199.C only 0.000 apart, marking (T0376)G199.C as missing WARNING: atoms too close: (T0376)A127.C and (T0376)G199.C only 0.000 apart, marking (T0376)G199.C as missing WARNING: atoms too close: (T0376)A119.C and (T0376)G199.C only 0.000 apart, marking (T0376)G199.C as missing WARNING: atoms too close: (T0376)I5.C and (T0376)G199.C only 0.000 apart, marking (T0376)G199.C as missing WARNING: atoms too close: (T0376)G199.N and (T0376)L251.N only 0.000 apart, marking (T0376)G199.N as missing WARNING: atoms too close: (T0376)A170.N and (T0376)L251.N only 0.000 apart, marking (T0376)A170.N as missing WARNING: atoms too close: (T0376)P169.N and (T0376)L251.N only 0.000 apart, marking (T0376)P169.N as missing WARNING: atoms too close: (T0376)A127.N and (T0376)L251.N only 0.000 apart, marking (T0376)A127.N as missing WARNING: atoms too close: (T0376)A119.N and (T0376)L251.N only 0.000 apart, marking (T0376)A119.N as missing WARNING: atoms too close: (T0376)I5.N and (T0376)L251.N only 0.000 apart, marking (T0376)L251.N as missing WARNING: atoms too close: (T0376)G199.CA and (T0376)L251.CA only 0.000 apart, marking (T0376)L251.CA as missing WARNING: atoms too close: (T0376)A170.CA and (T0376)L251.CA only 0.000 apart, marking (T0376)L251.CA as missing WARNING: atoms too close: (T0376)P169.CA and (T0376)L251.CA only 0.000 apart, marking (T0376)L251.CA as missing WARNING: atoms too close: (T0376)A127.CA and (T0376)L251.CA only 0.000 apart, marking (T0376)L251.CA as missing WARNING: atoms too close: (T0376)A119.CA and (T0376)L251.CA only 0.000 apart, marking (T0376)L251.CA as missing WARNING: atoms too close: (T0376)I5.CA and (T0376)L251.CA only 0.000 apart, marking (T0376)L251.CA as missing WARNING: atoms too close: (T0376)A170.CB and (T0376)L251.CB only 0.000 apart, marking (T0376)L251.CB as missing WARNING: atoms too close: (T0376)P169.CB and (T0376)L251.CB only 0.000 apart, marking (T0376)L251.CB as missing WARNING: atoms too close: (T0376)A127.CB and (T0376)L251.CB only 0.000 apart, marking (T0376)L251.CB as missing WARNING: atoms too close: (T0376)A119.CB and (T0376)L251.CB only 0.000 apart, marking (T0376)L251.CB as missing WARNING: atoms too close: (T0376)I5.CB and (T0376)L251.CB only 0.000 apart, marking (T0376)L251.CB as missing WARNING: atoms too close: (T0376)I5.CG1 and (T0376)L251.CG only 0.000 apart, marking (T0376)L251.CG as missing WARNING: atoms too close: (T0376)G199.O and (T0376)L251.O only 0.000 apart, marking (T0376)L251.O as missing WARNING: atoms too close: (T0376)A170.O and (T0376)L251.O only 0.000 apart, marking (T0376)L251.O as missing WARNING: atoms too close: (T0376)P169.O and (T0376)L251.O only 0.000 apart, marking (T0376)L251.O as missing WARNING: atoms too close: (T0376)A127.O and (T0376)L251.O only 0.000 apart, marking (T0376)L251.O as missing WARNING: atoms too close: (T0376)A119.O and (T0376)L251.O only 0.000 apart, marking (T0376)L251.O as missing WARNING: atoms too close: (T0376)I5.O and (T0376)L251.O only 0.000 apart, marking (T0376)L251.O as missing WARNING: atoms too close: (T0376)G199.C and (T0376)L251.C only 0.000 apart, marking (T0376)L251.C as missing WARNING: atoms too close: (T0376)A170.C and (T0376)L251.C only 0.000 apart, marking (T0376)L251.C as missing WARNING: atoms too close: (T0376)P169.C and (T0376)L251.C only 0.000 apart, marking (T0376)L251.C as missing WARNING: atoms too close: (T0376)A127.C and (T0376)L251.C only 0.000 apart, marking (T0376)L251.C as missing WARNING: atoms too close: (T0376)A119.C and (T0376)L251.C only 0.000 apart, marking (T0376)L251.C as missing WARNING: atoms too close: (T0376)I5.C and (T0376)L251.C only 0.000 apart, marking (T0376)L251.C as missing WARNING: atoms too close: (T0376)L251.N and (T0376)S252.N only 0.000 apart, marking (T0376)L251.N as missing WARNING: atoms too close: (T0376)G199.N and (T0376)S252.N only 0.000 apart, marking (T0376)G199.N as missing WARNING: atoms too close: (T0376)A170.N and (T0376)S252.N only 0.000 apart, marking (T0376)A170.N as missing WARNING: atoms too close: (T0376)P169.N and (T0376)S252.N only 0.000 apart, marking (T0376)P169.N as missing WARNING: atoms too close: (T0376)A127.N and (T0376)S252.N only 0.000 apart, marking (T0376)A127.N as missing WARNING: atoms too close: (T0376)A119.N and (T0376)S252.N only 0.000 apart, marking (T0376)A119.N as missing WARNING: atoms too close: (T0376)I5.N and (T0376)S252.N only 0.000 apart, marking (T0376)S252.N as missing WARNING: atoms too close: (T0376)L251.CA and (T0376)S252.CA only 0.000 apart, marking (T0376)S252.CA as missing WARNING: atoms too close: (T0376)G199.CA and (T0376)S252.CA only 0.000 apart, marking (T0376)S252.CA as missing WARNING: atoms too close: (T0376)A170.CA and (T0376)S252.CA only 0.000 apart, marking (T0376)S252.CA as missing WARNING: atoms too close: (T0376)P169.CA and (T0376)S252.CA only 0.000 apart, marking (T0376)S252.CA as missing WARNING: atoms too close: (T0376)A127.CA and (T0376)S252.CA only 0.000 apart, marking (T0376)S252.CA as missing WARNING: atoms too close: (T0376)A119.CA and (T0376)S252.CA only 0.000 apart, marking (T0376)S252.CA as missing WARNING: atoms too close: (T0376)I5.CA and (T0376)S252.CA only 0.000 apart, marking (T0376)S252.CA as missing WARNING: atoms too close: (T0376)L251.CB and (T0376)S252.CB only 0.000 apart, marking (T0376)S252.CB as missing WARNING: atoms too close: (T0376)A170.CB and (T0376)S252.CB only 0.000 apart, marking (T0376)S252.CB as missing WARNING: atoms too close: (T0376)P169.CB and (T0376)S252.CB only 0.000 apart, marking (T0376)S252.CB as missing WARNING: atoms too close: (T0376)A127.CB and (T0376)S252.CB only 0.000 apart, marking (T0376)S252.CB as missing WARNING: atoms too close: (T0376)A119.CB and (T0376)S252.CB only 0.000 apart, marking (T0376)S252.CB as missing WARNING: atoms too close: (T0376)I5.CB and (T0376)S252.CB only 0.000 apart, marking (T0376)S252.CB as missing WARNING: atoms too close: (T0376)L251.O and (T0376)S252.O only 0.000 apart, marking (T0376)S252.O as missing WARNING: atoms too close: (T0376)G199.O and (T0376)S252.O only 0.000 apart, marking (T0376)S252.O as missing WARNING: atoms too close: (T0376)A170.O and (T0376)S252.O only 0.000 apart, marking (T0376)S252.O as missing WARNING: atoms too close: (T0376)P169.O and (T0376)S252.O only 0.000 apart, marking (T0376)S252.O as missing WARNING: atoms too close: (T0376)A127.O and (T0376)S252.O only 0.000 apart, marking (T0376)S252.O as missing WARNING: atoms too close: (T0376)A119.O and (T0376)S252.O only 0.000 apart, marking (T0376)S252.O as missing WARNING: atoms too close: (T0376)I5.O and (T0376)S252.O only 0.000 apart, marking (T0376)S252.O as missing WARNING: atoms too close: (T0376)L251.C and (T0376)S252.C only 0.000 apart, marking (T0376)S252.C as missing WARNING: atoms too close: (T0376)G199.C and (T0376)S252.C only 0.000 apart, marking (T0376)S252.C as missing WARNING: atoms too close: (T0376)A170.C and (T0376)S252.C only 0.000 apart, marking (T0376)S252.C as missing WARNING: atoms too close: (T0376)P169.C and (T0376)S252.C only 0.000 apart, marking (T0376)S252.C as missing WARNING: atoms too close: (T0376)A127.C and (T0376)S252.C only 0.000 apart, marking (T0376)S252.C as missing WARNING: atoms too close: (T0376)A119.C and (T0376)S252.C only 0.000 apart, marking (T0376)S252.C as missing WARNING: atoms too close: (T0376)I5.C and (T0376)S252.C only 0.000 apart, marking (T0376)S252.C as missing WARNING: atoms too close: (T0376)S252.N and (T0376)S253.N only 0.000 apart, marking (T0376)S252.N as missing WARNING: atoms too close: (T0376)L251.N and (T0376)S253.N only 0.000 apart, marking (T0376)L251.N as missing WARNING: atoms too close: (T0376)G199.N and (T0376)S253.N only 0.000 apart, marking (T0376)G199.N as missing WARNING: atoms too close: (T0376)A170.N and (T0376)S253.N only 0.000 apart, marking (T0376)A170.N as missing WARNING: atoms too close: (T0376)P169.N and (T0376)S253.N only 0.000 apart, marking (T0376)P169.N as missing WARNING: atoms too close: (T0376)A127.N and (T0376)S253.N only 0.000 apart, marking (T0376)A127.N as missing WARNING: atoms too close: (T0376)A119.N and (T0376)S253.N only 0.000 apart, marking (T0376)A119.N as missing WARNING: atoms too close: (T0376)I5.N and (T0376)S253.N only 0.000 apart, marking (T0376)S253.N as missing WARNING: atoms too close: (T0376)S252.CA and (T0376)S253.CA only 0.000 apart, marking (T0376)S253.CA as missing WARNING: atoms too close: (T0376)L251.CA and (T0376)S253.CA only 0.000 apart, marking (T0376)S253.CA as missing WARNING: atoms too close: (T0376)G199.CA and (T0376)S253.CA only 0.000 apart, marking (T0376)S253.CA as missing WARNING: atoms too close: (T0376)A170.CA and (T0376)S253.CA only 0.000 apart, marking (T0376)S253.CA as missing WARNING: atoms too close: (T0376)P169.CA and (T0376)S253.CA only 0.000 apart, marking (T0376)S253.CA as missing WARNING: atoms too close: (T0376)A127.CA and (T0376)S253.CA only 0.000 apart, marking (T0376)S253.CA as missing WARNING: atoms too close: (T0376)A119.CA and (T0376)S253.CA only 0.000 apart, marking (T0376)S253.CA as missing WARNING: atoms too close: (T0376)I5.CA and (T0376)S253.CA only 0.000 apart, marking (T0376)S253.CA as missing WARNING: atoms too close: (T0376)S252.CB and (T0376)S253.CB only 0.000 apart, marking (T0376)S253.CB as missing WARNING: atoms too close: (T0376)L251.CB and (T0376)S253.CB only 0.000 apart, marking (T0376)S253.CB as missing WARNING: atoms too close: (T0376)A170.CB and (T0376)S253.CB only 0.000 apart, marking (T0376)S253.CB as missing WARNING: atoms too close: (T0376)P169.CB and (T0376)S253.CB only 0.000 apart, marking (T0376)S253.CB as missing WARNING: atoms too close: (T0376)A127.CB and (T0376)S253.CB only 0.000 apart, marking (T0376)S253.CB as missing WARNING: atoms too close: (T0376)A119.CB and (T0376)S253.CB only 0.000 apart, marking (T0376)S253.CB as missing WARNING: atoms too close: (T0376)I5.CB and (T0376)S253.CB only 0.000 apart, marking (T0376)S253.CB as missing WARNING: atoms too close: (T0376)S252.O and (T0376)S253.O only 0.000 apart, marking (T0376)S253.O as missing WARNING: atoms too close: (T0376)L251.O and (T0376)S253.O only 0.000 apart, marking (T0376)S253.O as missing WARNING: atoms too close: (T0376)G199.O and (T0376)S253.O only 0.000 apart, marking (T0376)S253.O as missing WARNING: atoms too close: (T0376)A170.O and (T0376)S253.O only 0.000 apart, marking (T0376)S253.O as missing WARNING: atoms too close: (T0376)P169.O and (T0376)S253.O only 0.000 apart, marking (T0376)S253.O as missing WARNING: atoms too close: (T0376)A127.O and (T0376)S253.O only 0.000 apart, marking (T0376)S253.O as missing WARNING: atoms too close: (T0376)A119.O and (T0376)S253.O only 0.000 apart, marking (T0376)S253.O as missing WARNING: atoms too close: (T0376)I5.O and (T0376)S253.O only 0.000 apart, marking (T0376)S253.O as missing WARNING: atoms too close: (T0376)S252.C and (T0376)S253.C only 0.000 apart, marking (T0376)S253.C as missing WARNING: atoms too close: (T0376)L251.C and (T0376)S253.C only 0.000 apart, marking (T0376)S253.C as missing WARNING: atoms too close: (T0376)G199.C and (T0376)S253.C only 0.000 apart, marking (T0376)S253.C as missing WARNING: atoms too close: (T0376)A170.C and (T0376)S253.C only 0.000 apart, marking (T0376)S253.C as missing WARNING: atoms too close: (T0376)P169.C and (T0376)S253.C only 0.000 apart, marking (T0376)S253.C as missing WARNING: atoms too close: (T0376)A127.C and (T0376)S253.C only 0.000 apart, marking (T0376)S253.C as missing WARNING: atoms too close: (T0376)A119.C and (T0376)S253.C only 0.000 apart, marking (T0376)S253.C as missing WARNING: atoms too close: (T0376)I5.C and (T0376)S253.C only 0.000 apart, marking (T0376)S253.C as missing WARNING: atoms too close: (T0376)S253.N and (T0376)F254.N only 0.000 apart, marking (T0376)S253.N as missing WARNING: atoms too close: (T0376)S252.N and (T0376)F254.N only 0.000 apart, marking (T0376)S252.N as missing WARNING: atoms too close: (T0376)L251.N and (T0376)F254.N only 0.000 apart, marking (T0376)L251.N as missing WARNING: atoms too close: (T0376)G199.N and (T0376)F254.N only 0.000 apart, marking (T0376)G199.N as missing WARNING: atoms too close: (T0376)A170.N and (T0376)F254.N only 0.000 apart, marking (T0376)A170.N as missing WARNING: atoms too close: (T0376)P169.N and (T0376)F254.N only 0.000 apart, marking (T0376)P169.N as missing WARNING: atoms too close: (T0376)A127.N and (T0376)F254.N only 0.000 apart, marking (T0376)A127.N as missing WARNING: atoms too close: (T0376)A119.N and (T0376)F254.N only 0.000 apart, marking (T0376)A119.N as missing WARNING: atoms too close: (T0376)I5.N and (T0376)F254.N only 0.000 apart, marking (T0376)F254.N as missing WARNING: atoms too close: (T0376)S253.CA and (T0376)F254.CA only 0.000 apart, marking (T0376)F254.CA as missing WARNING: atoms too close: (T0376)S252.CA and (T0376)F254.CA only 0.000 apart, marking (T0376)F254.CA as missing WARNING: atoms too close: (T0376)L251.CA and (T0376)F254.CA only 0.000 apart, marking (T0376)F254.CA as missing WARNING: atoms too close: (T0376)G199.CA and (T0376)F254.CA only 0.000 apart, marking (T0376)F254.CA as missing WARNING: atoms too close: (T0376)A170.CA and (T0376)F254.CA only 0.000 apart, marking (T0376)F254.CA as missing WARNING: atoms too close: (T0376)P169.CA and (T0376)F254.CA only 0.000 apart, marking (T0376)F254.CA as missing WARNING: atoms too close: (T0376)A127.CA and (T0376)F254.CA only 0.000 apart, marking (T0376)F254.CA as missing WARNING: atoms too close: (T0376)A119.CA and (T0376)F254.CA only 0.000 apart, marking (T0376)F254.CA as missing WARNING: atoms too close: (T0376)I5.CA and (T0376)F254.CA only 0.000 apart, marking (T0376)F254.CA as missing WARNING: atoms too close: (T0376)S253.CB and (T0376)F254.CB only 0.000 apart, marking (T0376)F254.CB as missing WARNING: atoms too close: (T0376)S252.CB and (T0376)F254.CB only 0.000 apart, marking (T0376)F254.CB as missing WARNING: atoms too close: (T0376)L251.CB and (T0376)F254.CB only 0.000 apart, marking (T0376)F254.CB as missing WARNING: atoms too close: (T0376)A170.CB and (T0376)F254.CB only 0.000 apart, marking (T0376)F254.CB as missing WARNING: atoms too close: (T0376)P169.CB and (T0376)F254.CB only 0.000 apart, marking (T0376)F254.CB as missing WARNING: atoms too close: (T0376)A127.CB and (T0376)F254.CB only 0.000 apart, marking (T0376)F254.CB as missing WARNING: atoms too close: (T0376)A119.CB and (T0376)F254.CB only 0.000 apart, marking (T0376)F254.CB as missing WARNING: atoms too close: (T0376)I5.CB and (T0376)F254.CB only 0.000 apart, marking (T0376)F254.CB as missing WARNING: atoms too close: (T0376)L251.CG and (T0376)F254.CG only 0.000 apart, marking (T0376)F254.CG as missing WARNING: atoms too close: (T0376)I5.CG1 and (T0376)F254.CG only 0.000 apart, marking (T0376)F254.CG as missing WARNING: atoms too close: (T0376)S253.O and (T0376)F254.O only 0.000 apart, marking (T0376)F254.O as missing WARNING: atoms too close: (T0376)S252.O and (T0376)F254.O only 0.000 apart, marking (T0376)F254.O as missing WARNING: atoms too close: (T0376)L251.O and (T0376)F254.O only 0.000 apart, marking (T0376)F254.O as missing WARNING: atoms too close: (T0376)G199.O and (T0376)F254.O only 0.000 apart, marking (T0376)F254.O as missing WARNING: atoms too close: (T0376)A170.O and (T0376)F254.O only 0.000 apart, marking (T0376)F254.O as missing WARNING: atoms too close: (T0376)P169.O and (T0376)F254.O only 0.000 apart, marking (T0376)F254.O as missing WARNING: atoms too close: (T0376)A127.O and (T0376)F254.O only 0.000 apart, marking (T0376)F254.O as missing WARNING: atoms too close: (T0376)A119.O and (T0376)F254.O only 0.000 apart, marking (T0376)F254.O as missing WARNING: atoms too close: (T0376)I5.O and (T0376)F254.O only 0.000 apart, marking (T0376)F254.O as missing WARNING: atoms too close: (T0376)S253.C and (T0376)F254.C only 0.000 apart, marking (T0376)F254.C as missing WARNING: atoms too close: (T0376)S252.C and (T0376)F254.C only 0.000 apart, marking (T0376)F254.C as missing WARNING: atoms too close: (T0376)L251.C and (T0376)F254.C only 0.000 apart, marking (T0376)F254.C as missing WARNING: atoms too close: (T0376)G199.C and (T0376)F254.C only 0.000 apart, marking (T0376)F254.C as missing WARNING: atoms too close: (T0376)A170.C and (T0376)F254.C only 0.000 apart, marking (T0376)F254.C as missing WARNING: atoms too close: (T0376)P169.C and (T0376)F254.C only 0.000 apart, marking (T0376)F254.C as missing WARNING: atoms too close: (T0376)A127.C and (T0376)F254.C only 0.000 apart, marking (T0376)F254.C as missing WARNING: atoms too close: (T0376)A119.C and (T0376)F254.C only 0.000 apart, marking (T0376)F254.C as missing WARNING: atoms too close: (T0376)I5.C and (T0376)F254.C only 0.000 apart, marking (T0376)F254.C as missing WARNING: atoms too close: (T0376)F254.N and (T0376)G272.N only 0.000 apart, marking (T0376)F254.N as missing WARNING: atoms too close: (T0376)S253.N and (T0376)G272.N only 0.000 apart, marking (T0376)S253.N as missing WARNING: atoms too close: (T0376)S252.N and (T0376)G272.N only 0.000 apart, marking (T0376)S252.N as missing WARNING: atoms too close: (T0376)L251.N and (T0376)G272.N only 0.000 apart, marking (T0376)L251.N as missing WARNING: atoms too close: (T0376)G199.N and (T0376)G272.N only 0.000 apart, marking (T0376)G199.N as missing WARNING: atoms too close: (T0376)A170.N and (T0376)G272.N only 0.000 apart, marking (T0376)A170.N as missing WARNING: atoms too close: (T0376)P169.N and (T0376)G272.N only 0.000 apart, marking (T0376)P169.N as missing WARNING: atoms too close: (T0376)A127.N and (T0376)G272.N only 0.000 apart, marking (T0376)A127.N as missing WARNING: atoms too close: (T0376)A119.N and (T0376)G272.N only 0.000 apart, marking (T0376)A119.N as missing WARNING: atoms too close: (T0376)I5.N and (T0376)G272.N only 0.000 apart, marking (T0376)G272.N as missing WARNING: atoms too close: (T0376)F254.CA and (T0376)G272.CA only 0.000 apart, marking (T0376)G272.CA as missing WARNING: atoms too close: (T0376)S253.CA and (T0376)G272.CA only 0.000 apart, marking (T0376)G272.CA as missing WARNING: atoms too close: (T0376)S252.CA and (T0376)G272.CA only 0.000 apart, marking (T0376)G272.CA as missing WARNING: atoms too close: (T0376)L251.CA and (T0376)G272.CA only 0.000 apart, marking (T0376)G272.CA as missing WARNING: atoms too close: (T0376)G199.CA and (T0376)G272.CA only 0.000 apart, marking (T0376)G272.CA as missing WARNING: atoms too close: (T0376)A170.CA and (T0376)G272.CA only 0.000 apart, marking (T0376)G272.CA as missing WARNING: atoms too close: (T0376)P169.CA and (T0376)G272.CA only 0.000 apart, marking (T0376)G272.CA as missing WARNING: atoms too close: (T0376)A127.CA and (T0376)G272.CA only 0.000 apart, marking (T0376)G272.CA as missing WARNING: atoms too close: (T0376)A119.CA and (T0376)G272.CA only 0.000 apart, marking (T0376)G272.CA as missing WARNING: atoms too close: (T0376)I5.CA and (T0376)G272.CA only 0.000 apart, marking (T0376)G272.CA as missing WARNING: atoms too close: (T0376)F254.O and (T0376)G272.O only 0.000 apart, marking (T0376)G272.O as missing WARNING: atoms too close: (T0376)S253.O and (T0376)G272.O only 0.000 apart, marking (T0376)G272.O as missing WARNING: atoms too close: (T0376)S252.O and (T0376)G272.O only 0.000 apart, marking (T0376)G272.O as missing WARNING: atoms too close: (T0376)L251.O and (T0376)G272.O only 0.000 apart, marking (T0376)G272.O as missing WARNING: atoms too close: (T0376)G199.O and (T0376)G272.O only 0.000 apart, marking (T0376)G272.O as missing WARNING: atoms too close: (T0376)A170.O and (T0376)G272.O only 0.000 apart, marking (T0376)G272.O as missing WARNING: atoms too close: (T0376)P169.O and (T0376)G272.O only 0.000 apart, marking (T0376)G272.O as missing WARNING: atoms too close: (T0376)A127.O and (T0376)G272.O only 0.000 apart, marking (T0376)G272.O as missing WARNING: atoms too close: (T0376)A119.O and (T0376)G272.O only 0.000 apart, marking (T0376)G272.O as missing WARNING: atoms too close: (T0376)I5.O and (T0376)G272.O only 0.000 apart, marking (T0376)G272.O as missing WARNING: atoms too close: (T0376)F254.C and (T0376)G272.C only 0.000 apart, marking (T0376)G272.C as missing WARNING: atoms too close: (T0376)S253.C and (T0376)G272.C only 0.000 apart, marking (T0376)G272.C as missing WARNING: atoms too close: (T0376)S252.C and (T0376)G272.C only 0.000 apart, marking (T0376)G272.C as missing WARNING: atoms too close: (T0376)L251.C and (T0376)G272.C only 0.000 apart, marking (T0376)G272.C as missing WARNING: atoms too close: (T0376)G199.C and (T0376)G272.C only 0.000 apart, marking (T0376)G272.C as missing WARNING: atoms too close: (T0376)A170.C and (T0376)G272.C only 0.000 apart, marking (T0376)G272.C as missing WARNING: atoms too close: (T0376)P169.C and (T0376)G272.C only 0.000 apart, marking (T0376)G272.C as missing WARNING: atoms too close: (T0376)A127.C and (T0376)G272.C only 0.000 apart, marking (T0376)G272.C as missing WARNING: atoms too close: (T0376)A119.C and (T0376)G272.C only 0.000 apart, marking (T0376)G272.C as missing WARNING: atoms too close: (T0376)I5.C and (T0376)G272.C only 0.000 apart, marking (T0376)G272.C as missing WARNING: atoms too close: (T0376)G272.N and (T0376)D273.N only 0.000 apart, marking (T0376)G272.N as missing WARNING: atoms too close: (T0376)F254.N and (T0376)D273.N only 0.000 apart, marking (T0376)F254.N as missing WARNING: atoms too close: (T0376)S253.N and (T0376)D273.N only 0.000 apart, marking (T0376)S253.N as missing WARNING: atoms too close: (T0376)S252.N and (T0376)D273.N only 0.000 apart, marking (T0376)S252.N as missing WARNING: atoms too close: (T0376)L251.N and (T0376)D273.N only 0.000 apart, marking (T0376)L251.N as missing WARNING: atoms too close: (T0376)G199.N and (T0376)D273.N only 0.000 apart, marking (T0376)G199.N as missing WARNING: atoms too close: (T0376)A170.N and (T0376)D273.N only 0.000 apart, marking (T0376)A170.N as missing WARNING: atoms too close: (T0376)P169.N and (T0376)D273.N only 0.000 apart, marking (T0376)P169.N as missing WARNING: atoms too close: (T0376)A127.N and (T0376)D273.N only 0.000 apart, marking (T0376)A127.N as missing WARNING: atoms too close: (T0376)A119.N and (T0376)D273.N only 0.000 apart, marking (T0376)A119.N as missing WARNING: atoms too close: (T0376)I5.N and (T0376)D273.N only 0.000 apart, marking (T0376)D273.N as missing WARNING: atoms too close: (T0376)G272.CA and (T0376)D273.CA only 0.000 apart, marking (T0376)D273.CA as missing WARNING: atoms too close: (T0376)F254.CA and (T0376)D273.CA only 0.000 apart, marking (T0376)D273.CA as missing WARNING: atoms too close: (T0376)S253.CA and (T0376)D273.CA only 0.000 apart, marking (T0376)D273.CA as missing WARNING: atoms too close: (T0376)S252.CA and (T0376)D273.CA only 0.000 apart, marking (T0376)D273.CA as missing WARNING: atoms too close: (T0376)L251.CA and (T0376)D273.CA only 0.000 apart, marking (T0376)D273.CA as missing WARNING: atoms too close: (T0376)G199.CA and (T0376)D273.CA only 0.000 apart, marking (T0376)D273.CA as missing WARNING: atoms too close: (T0376)A170.CA and (T0376)D273.CA only 0.000 apart, marking (T0376)D273.CA as missing WARNING: atoms too close: (T0376)P169.CA and (T0376)D273.CA only 0.000 apart, marking (T0376)D273.CA as missing WARNING: atoms too close: (T0376)A127.CA and (T0376)D273.CA only 0.000 apart, marking (T0376)D273.CA as missing WARNING: atoms too close: (T0376)A119.CA and (T0376)D273.CA only 0.000 apart, marking (T0376)D273.CA as missing WARNING: atoms too close: (T0376)I5.CA and (T0376)D273.CA only 0.000 apart, marking (T0376)D273.CA as missing WARNING: atoms too close: (T0376)F254.CB and (T0376)D273.CB only 0.000 apart, marking (T0376)D273.CB as missing WARNING: atoms too close: (T0376)S253.CB and (T0376)D273.CB only 0.000 apart, marking (T0376)D273.CB as missing WARNING: atoms too close: (T0376)S252.CB and (T0376)D273.CB only 0.000 apart, marking (T0376)D273.CB as missing WARNING: atoms too close: (T0376)L251.CB and (T0376)D273.CB only 0.000 apart, marking (T0376)D273.CB as missing WARNING: atoms too close: (T0376)A170.CB and (T0376)D273.CB only 0.000 apart, marking (T0376)D273.CB as missing WARNING: atoms too close: (T0376)P169.CB and (T0376)D273.CB only 0.000 apart, marking (T0376)D273.CB as missing WARNING: atoms too close: (T0376)A127.CB and (T0376)D273.CB only 0.000 apart, marking (T0376)D273.CB as missing WARNING: atoms too close: (T0376)A119.CB and (T0376)D273.CB only 0.000 apart, marking (T0376)D273.CB as missing WARNING: atoms too close: (T0376)I5.CB and (T0376)D273.CB only 0.000 apart, marking (T0376)D273.CB as missing WARNING: atoms too close: (T0376)F254.CG and (T0376)D273.CG only 0.000 apart, marking (T0376)D273.CG as missing WARNING: atoms too close: (T0376)L251.CG and (T0376)D273.CG only 0.000 apart, marking (T0376)D273.CG as missing WARNING: atoms too close: (T0376)I5.CG1 and (T0376)D273.CG only 0.000 apart, marking (T0376)D273.CG as missing WARNING: atoms too close: (T0376)G272.O and (T0376)D273.O only 0.000 apart, marking (T0376)D273.O as missing WARNING: atoms too close: (T0376)F254.O and (T0376)D273.O only 0.000 apart, marking (T0376)D273.O as missing WARNING: atoms too close: (T0376)S253.O and (T0376)D273.O only 0.000 apart, marking (T0376)D273.O as missing WARNING: atoms too close: (T0376)S252.O and (T0376)D273.O only 0.000 apart, marking (T0376)D273.O as missing WARNING: atoms too close: (T0376)L251.O and (T0376)D273.O only 0.000 apart, marking (T0376)D273.O as missing WARNING: atoms too close: (T0376)G199.O and (T0376)D273.O only 0.000 apart, marking (T0376)D273.O as missing WARNING: atoms too close: (T0376)A170.O and (T0376)D273.O only 0.000 apart, marking (T0376)D273.O as missing WARNING: atoms too close: (T0376)P169.O and (T0376)D273.O only 0.000 apart, marking (T0376)D273.O as missing WARNING: atoms too close: (T0376)A127.O and (T0376)D273.O only 0.000 apart, marking (T0376)D273.O as missing WARNING: atoms too close: (T0376)A119.O and (T0376)D273.O only 0.000 apart, marking (T0376)D273.O as missing WARNING: atoms too close: (T0376)I5.O and (T0376)D273.O only 0.000 apart, marking (T0376)D273.O as missing WARNING: atoms too close: (T0376)G272.C and (T0376)D273.C only 0.000 apart, marking (T0376)D273.C as missing WARNING: atoms too close: (T0376)F254.C and (T0376)D273.C only 0.000 apart, marking (T0376)D273.C as missing WARNING: atoms too close: (T0376)S253.C and (T0376)D273.C only 0.000 apart, marking (T0376)D273.C as missing WARNING: atoms too close: (T0376)S252.C and (T0376)D273.C only 0.000 apart, marking (T0376)D273.C as missing WARNING: atoms too close: (T0376)L251.C and (T0376)D273.C only 0.000 apart, marking (T0376)D273.C as missing WARNING: atoms too close: (T0376)G199.C and (T0376)D273.C only 0.000 apart, marking (T0376)D273.C as missing WARNING: atoms too close: (T0376)A170.C and (T0376)D273.C only 0.000 apart, marking (T0376)D273.C as missing WARNING: atoms too close: (T0376)P169.C and (T0376)D273.C only 0.000 apart, marking (T0376)D273.C as missing WARNING: atoms too close: (T0376)A127.C and (T0376)D273.C only 0.000 apart, marking (T0376)D273.C as missing WARNING: atoms too close: (T0376)A119.C and (T0376)D273.C only 0.000 apart, marking (T0376)D273.C as missing WARNING: atoms too close: (T0376)I5.C and (T0376)D273.C only 0.000 apart, marking (T0376)D273.C as missing WARNING: atoms too close: (T0376)D273.N and (T0376)E282.N only 0.000 apart, marking (T0376)D273.N as missing WARNING: atoms too close: (T0376)G272.N and (T0376)E282.N only 0.000 apart, marking (T0376)G272.N as missing WARNING: atoms too close: (T0376)F254.N and (T0376)E282.N only 0.000 apart, marking (T0376)F254.N as missing WARNING: atoms too close: (T0376)S253.N and (T0376)E282.N only 0.000 apart, marking (T0376)S253.N as missing WARNING: atoms too close: (T0376)S252.N and (T0376)E282.N only 0.000 apart, marking (T0376)S252.N as missing WARNING: atoms too close: (T0376)L251.N and (T0376)E282.N only 0.000 apart, marking (T0376)L251.N as missing WARNING: atoms too close: (T0376)G199.N and (T0376)E282.N only 0.000 apart, marking (T0376)G199.N as missing WARNING: atoms too close: (T0376)A170.N and (T0376)E282.N only 0.000 apart, marking (T0376)A170.N as missing WARNING: atoms too close: (T0376)P169.N and (T0376)E282.N only 0.000 apart, marking (T0376)P169.N as missing WARNING: atoms too close: (T0376)A127.N and (T0376)E282.N only 0.000 apart, marking (T0376)A127.N as missing WARNING: atoms too close: (T0376)A119.N and (T0376)E282.N only 0.000 apart, marking (T0376)A119.N as missing WARNING: atoms too close: (T0376)I5.N and (T0376)E282.N only 0.000 apart, marking (T0376)E282.N as missing WARNING: atoms too close: (T0376)D273.CA and (T0376)E282.CA only 0.000 apart, marking (T0376)E282.CA as missing WARNING: atoms too close: (T0376)G272.CA and (T0376)E282.CA only 0.000 apart, marking (T0376)E282.CA as missing WARNING: atoms too close: (T0376)F254.CA and (T0376)E282.CA only 0.000 apart, marking (T0376)E282.CA as missing WARNING: atoms too close: (T0376)S253.CA and (T0376)E282.CA only 0.000 apart, marking (T0376)E282.CA as missing WARNING: atoms too close: (T0376)S252.CA and (T0376)E282.CA only 0.000 apart, marking (T0376)E282.CA as missing WARNING: atoms too close: (T0376)L251.CA and (T0376)E282.CA only 0.000 apart, marking (T0376)E282.CA as missing WARNING: atoms too close: (T0376)G199.CA and (T0376)E282.CA only 0.000 apart, marking (T0376)E282.CA as missing WARNING: atoms too close: (T0376)A170.CA and (T0376)E282.CA only 0.000 apart, marking (T0376)E282.CA as missing WARNING: atoms too close: (T0376)P169.CA and (T0376)E282.CA only 0.000 apart, marking (T0376)E282.CA as missing WARNING: atoms too close: (T0376)A127.CA and (T0376)E282.CA only 0.000 apart, marking (T0376)E282.CA as missing WARNING: atoms too close: (T0376)A119.CA and (T0376)E282.CA only 0.000 apart, marking (T0376)E282.CA as missing WARNING: atoms too close: (T0376)I5.CA and (T0376)E282.CA only 0.000 apart, marking (T0376)E282.CA as missing WARNING: atoms too close: (T0376)D273.CB and (T0376)E282.CB only 0.000 apart, marking (T0376)E282.CB as missing WARNING: atoms too close: (T0376)F254.CB and (T0376)E282.CB only 0.000 apart, marking (T0376)E282.CB as missing WARNING: atoms too close: (T0376)S253.CB and (T0376)E282.CB only 0.000 apart, marking (T0376)E282.CB as missing WARNING: atoms too close: (T0376)S252.CB and (T0376)E282.CB only 0.000 apart, marking (T0376)E282.CB as missing WARNING: atoms too close: (T0376)L251.CB and (T0376)E282.CB only 0.000 apart, marking (T0376)E282.CB as missing WARNING: atoms too close: (T0376)A170.CB and (T0376)E282.CB only 0.000 apart, marking (T0376)E282.CB as missing WARNING: atoms too close: (T0376)P169.CB and (T0376)E282.CB only 0.000 apart, marking (T0376)E282.CB as missing WARNING: atoms too close: (T0376)A127.CB and (T0376)E282.CB only 0.000 apart, marking (T0376)E282.CB as missing WARNING: atoms too close: (T0376)A119.CB and (T0376)E282.CB only 0.000 apart, marking (T0376)E282.CB as missing WARNING: atoms too close: (T0376)I5.CB and (T0376)E282.CB only 0.000 apart, marking (T0376)E282.CB as missing WARNING: atoms too close: (T0376)D273.CG and (T0376)E282.CG only 0.000 apart, marking (T0376)E282.CG as missing WARNING: atoms too close: (T0376)F254.CG and (T0376)E282.CG only 0.000 apart, marking (T0376)E282.CG as missing WARNING: atoms too close: (T0376)L251.CG and (T0376)E282.CG only 0.000 apart, marking (T0376)E282.CG as missing WARNING: atoms too close: (T0376)I5.CG1 and (T0376)E282.CG only 0.000 apart, marking (T0376)E282.CG as missing WARNING: atoms too close: (T0376)D273.O and (T0376)E282.O only 0.000 apart, marking (T0376)E282.O as missing WARNING: atoms too close: (T0376)G272.O and (T0376)E282.O only 0.000 apart, marking (T0376)E282.O as missing WARNING: atoms too close: (T0376)F254.O and (T0376)E282.O only 0.000 apart, marking (T0376)E282.O as missing WARNING: atoms too close: (T0376)S253.O and (T0376)E282.O only 0.000 apart, marking (T0376)E282.O as missing WARNING: atoms too close: (T0376)S252.O and (T0376)E282.O only 0.000 apart, marking (T0376)E282.O as missing WARNING: atoms too close: (T0376)L251.O and (T0376)E282.O only 0.000 apart, marking (T0376)E282.O as missing WARNING: atoms too close: (T0376)G199.O and (T0376)E282.O only 0.000 apart, marking (T0376)E282.O as missing WARNING: atoms too close: (T0376)A170.O and (T0376)E282.O only 0.000 apart, marking (T0376)E282.O as missing WARNING: atoms too close: (T0376)P169.O and (T0376)E282.O only 0.000 apart, marking (T0376)E282.O as missing WARNING: atoms too close: (T0376)A127.O and (T0376)E282.O only 0.000 apart, marking (T0376)E282.O as missing WARNING: atoms too close: (T0376)A119.O and (T0376)E282.O only 0.000 apart, marking (T0376)E282.O as missing WARNING: atoms too close: (T0376)I5.O and (T0376)E282.O only 0.000 apart, marking (T0376)E282.O as missing WARNING: atoms too close: (T0376)D273.C and (T0376)E282.C only 0.000 apart, marking (T0376)E282.C as missing WARNING: atoms too close: (T0376)G272.C and (T0376)E282.C only 0.000 apart, marking (T0376)E282.C as missing WARNING: atoms too close: (T0376)F254.C and (T0376)E282.C only 0.000 apart, marking (T0376)E282.C as missing WARNING: atoms too close: (T0376)S253.C and (T0376)E282.C only 0.000 apart, marking (T0376)E282.C as missing WARNING: atoms too close: (T0376)S252.C and (T0376)E282.C only 0.000 apart, marking (T0376)E282.C as missing WARNING: atoms too close: (T0376)L251.C and (T0376)E282.C only 0.000 apart, marking (T0376)E282.C as missing WARNING: atoms too close: (T0376)G199.C and (T0376)E282.C only 0.000 apart, marking (T0376)E282.C as missing WARNING: atoms too close: (T0376)A170.C and (T0376)E282.C only 0.000 apart, marking (T0376)E282.C as missing WARNING: atoms too close: (T0376)P169.C and (T0376)E282.C only 0.000 apart, marking (T0376)E282.C as missing WARNING: atoms too close: (T0376)A127.C and (T0376)E282.C only 0.000 apart, marking (T0376)E282.C as missing WARNING: atoms too close: (T0376)A119.C and (T0376)E282.C only 0.000 apart, marking (T0376)E282.C as missing WARNING: atoms too close: (T0376)I5.C and (T0376)E282.C only 0.000 apart, marking (T0376)E282.C as missing # WARNING: incomplete conformation T0376 can't currently be optimized by undertaker # naming current conformation panther2_TS1 # ReadConformPDB reading from PDB file servers/shub_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0376 can't currently be optimized by undertaker # naming current conformation shub_TS1 # command:Using radius: 8.0000 Using models AND alignments for constraints model score -0.2457 model score -0.2550 model score -0.2369 model score -0.2163 model score -0.1912 model score -0.2837 model score -0.2819 model score -0.2299 model score -0.2351 model score -0.2305 model score -0.2611 model score -0.2477 model score -0.2298 model score -0.2489 model score -0.2183 model score -0.3852 model score -0.3985 model score -0.3643 model score -0.3613 model score -0.3568 model score -0.4225 model score -0.3860 model score -0.3828 model score -0.3517 model score -0.3513 model score -0.3551 model score -0.3819 model score -0.3820 model score -0.3152 model score -0.3832 model score -0.2937 model score -0.1902 model score -0.3912 model score -0.3070 model score -0.3671 model score -0.3732 model score -0.2523 model score 1.2672 model score 1.2687 model score 1.2661 model score 1.2683 model score 1.2713 model score -0.3270 model score -0.3253 model score -0.3554 model score -0.3578 model score -0.3360 model score -0.3021 model score -0.3819 model score -0.3820 model score -0.3689 model score -0.2937 model score -0.4080 model score -0.3830 model score -0.3125 model score -0.3230 model score -0.3164 model score 1.2641 model score 1.2637 model score 1.2650 model score 1.2649 model score 1.2854 model score 1.2641 model score 1.2650 model score 1.2649 model score 1.2637 model score 1.2813 model score 2.4591 model score 2.1958 model score 2.3682 model score 2.3636 model score 2.1682 model score -0.3876 model score 1.8720 model score 1.1437 model score 1.1225 model score 1.8341 model score 1.2647 model score 1.2780 model score 1.2707 model score 1.2691 model score 1.2813 model score -0.2934 model score -0.2910 model score -0.3205 model score -0.3266 model score -0.3689 model score -0.2780 model score -0.2297 model score 0.0578 model score 1.7133 model score 1.8436 model score -0.3233 model score -0.3882 model score -0.3632 model score -0.2491 model score -0.3684 model score -0.4297 model score -0.4133 model score -0.3436 model score -0.2861 model score -0.3010 model score -0.3499 model score -0.0094 model score -0.3205 model score -0.3890 model score -0.2995 model score -0.2364 model score -0.2450 model score -0.3563 model score -0.3680 model score -0.3974 model score -0.3924 model score -0.3806 model score -0.3680 model score -0.3570 model score -0.4059 model score -0.3974 model score -0.3472 model score -0.4102 model score -0.3882 model score -0.3907 model score -0.4118 model score -0.3817 model score -0.4171 model score -0.1636 model score -0.1838 model score -0.1515 model score -0.1594 model score -0.1753 model score -0.3363 model score -0.1782 model score -0.1861 model score -0.2043 model score -0.1720 model score -0.3791 model score -0.3949 model score -0.3514 model score -0.3758 model score -0.4005 model score -0.3858 model score -0.3728 model score -0.3727 model score -0.3787 model score -0.3603 model score -0.3721 model score 0.1093 model score -0.3526 model score -0.4109 model score -0.2452 model score -0.2977 model score -0.3720 model score -0.3633 model score -0.3101 model score -0.3996 model score -0.2489 model score -0.3550 model score -0.3276 model score -0.3319 model score -0.3012 model score -0.3203 model score -0.4009 model score -0.3707 model score -0.3512 model score -0.3396 model score -0.3669 model score -0.2977 model score -0.2987 model score -0.3703 model score -0.3526 model score -0.2554 model score -0.3619 model score -0.3386 model score -0.3646 model score -0.3544 model score -0.3561 model score 1.2657 model score 1.2656 model score 1.2658 model score 1.2655 model score 1.2655 model score 1.2651 model score 1.2650 model score 1.2651 model score 1.2648 model score 1.2652 model score -0.2039 model score -0.1575 model score -0.0265 model score 0.2473 model score 0.0779 model score -0.4125 model score -0.4033 model score -0.3305 model score -0.3883 model score -0.4108 model score -0.4156 model score -0.3976 model score -0.4185 model score -0.3305 model score -0.3840 model score -0.4171 model score -0.3689 model score -0.3683 model score -0.2947 model score -0.4215 model score 1.2642 model score 1.2643 model score 1.2651 model score 1.2647 model score 1.2641 model score -0.3575 model score 1.2642 model score 1.2643 model score 1.2651 model score 1.2647 model score 1.2641 model score -0.4130 model score -0.4083 model score -0.4096 model score -0.4167 model score -0.2338 model score -0.3696 model score -0.3433 model score 1.2650 model score 1.2642 model score 1.2649 model score 1.2723 model score 1.2792 model score -0.1545 model score -0.1632 model score -0.1602 model score -0.1770 model score -0.1912 model score 2.1338 model score 2.3145 model score 2.0567 model score 2.4519 model score 2.2073 model score -0.4085 model score -0.2946 model score -0.3743 model score -0.2711 model score 0.3747 model score -0.3387 model score -0.3337 model score -0.3127 model score -0.3204 model score -0.2765 model score -0.3356 model score -0.3961 model score -0.2489 model score -0.2955 model score -0.1522 model score 1.5489 model score -0.3398 model score -0.3687 USE_META, weight: 0.9427 cost: -0.2457 min: -0.4297 max: 2.4591 USE_META, weight: 0.9456 cost: -0.2550 min: -0.4297 max: 2.4591 USE_META, weight: 0.9399 cost: -0.2369 min: -0.4297 max: 2.4591 USE_META, weight: 0.9335 cost: -0.2163 min: -0.4297 max: 2.4591 USE_META, weight: 0.9257 cost: -0.1912 min: -0.4297 max: 2.4591 USE_META, weight: 0.9545 cost: -0.2837 min: -0.4297 max: 2.4591 USE_META, weight: 0.9539 cost: -0.2819 min: -0.4297 max: 2.4591 USE_META, weight: 0.9378 cost: -0.2299 min: -0.4297 max: 2.4591 USE_META, weight: 0.9394 cost: -0.2351 min: -0.4297 max: 2.4591 USE_META, weight: 0.9379 cost: -0.2305 min: -0.4297 max: 2.4591 USE_META, weight: 0.9475 cost: -0.2611 min: -0.4297 max: 2.4591 USE_META, weight: 0.9433 cost: -0.2477 min: -0.4297 max: 2.4591 USE_META, weight: 0.9377 cost: -0.2298 min: -0.4297 max: 2.4591 USE_META, weight: 0.9437 cost: -0.2489 min: -0.4297 max: 2.4591 USE_META, weight: 0.9341 cost: -0.2183 min: -0.4297 max: 2.4591 USE_META, weight: 0.9861 cost: -0.3852 min: 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USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9975 eval: 0.0034 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9975 eval: 0.0034 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9975 eval: 0.0034 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9999 eval: 0.0002 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9999 eval: 0.0002 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9999 eval: 0.0002 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9653 eval: 0.0482 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9653 eval: 0.0482 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9653 eval: 0.0482 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.2293 eval: 1.0694 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.2293 eval: 1.0694 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.2293 eval: 1.0694 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.3422 eval: 0.9127 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.3422 eval: 0.9127 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.3422 eval: 0.9127 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.4113 eval: 0.8169 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.4113 eval: 0.8169 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.4113 eval: 0.8169 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.4114 eval: 0.8166 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.4114 eval: 0.8166 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.4114 eval: 0.8166 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.2155 eval: 1.0885 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.2155 eval: 1.0885 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.2155 eval: 1.0885 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9975 eval: 0.0035 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9975 eval: 0.0035 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9975 eval: 0.0035 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9994 eval: 0.0009 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9994 eval: 0.0009 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9994 eval: 0.0009 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9979 eval: 0.0029 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9979 eval: 0.0029 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9979 eval: 0.0029 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9999 eval: 0.0002 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9999 eval: 0.0002 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9999 eval: 0.0002 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9296 eval: 0.0978 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9296 eval: 0.0978 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9296 eval: 0.0978 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9997 eval: 0.0004 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9997 eval: 0.0004 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9997 eval: 0.0004 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9981 eval: 0.0026 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9981 eval: 0.0026 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9981 eval: 0.0026 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9635 eval: 0.0506 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9635 eval: 0.0506 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9635 eval: 0.0506 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9518 eval: 0.0669 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9518 eval: 0.0669 min: 0.0000 max: 1.2488 USE_EVALUE, weight: 0.9518 eval: 0.0669 min: 0.0000 max: 1.2488 Number of contacts in models: 257 Number of contacts in alignments: 153 NUMB_ALIGNS: 153 Adding 13343 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: -538.2788, CN propb: -538.2788 weights: 0.2782 constraints: 1473 # command:Found ConstraintSet # PrintContacts align.constraints_meta03 Number of constraints in align3.constraints 1473 # command:Found ConstraintSet # PrintContacts align_bonus.constraints_meta03 Number of constraints in align3.constraints.bonus 1473 # command:Found ConstraintSet # PrintContacts rejected.constraints_meta03 Number of constraints in rejected3.constraints 11870 # command:Found ConstraintSet # PrintContacts rejected_bonus.constraints_meta03 Number of constraints in rejected3.constraints.bonus 11870 # 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 13343 # command: