# 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/T0299/ # command:# Making conformation for sequence T0299 numbered 1 through 180 Created new target T0299 from T0299.a2m # command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0299/ # command:Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0299//projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0299/manyalignments-good-all.under or /projects/compbio/experiments/protein-predict/casp7/T0299//projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0299/manyalignments-good-all.under.gz for input Trying /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0299/manyalignments-good-all.under # reading script from file /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0299/manyalignments-good-all.under # Reading fragments from alignment file # Attempting to read fragment alignments from file 1z5nA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1z5nA expands to /projects/compbio/data/pdb/1z5n.pdb.gz 1z5nA:# T0299 read from 1z5nA/merged-good-all-a2m # 1z5nA read from 1z5nA/merged-good-all-a2m # adding 1z5nA to template set # found chain 1z5nA in template set T0299 22 :AELRQELTNL 1z5nA 123 :DKLIAAAEAC # choosing archetypes in rotamer library T0299 32 :GLEKVESYINSGNIFFTSIDSKAQLVEK 1z5nA 137 :NLNAVRGLIVSGDAFINGSVGLAKIRHN T0299 68 :Y 1z5nA 165 :F T0299 70 :FIQSFSLLSLEDFEAELEN 1z5nA 166 :PQAIAVEMEATAIAHVCHN T0299 95 :RDLARKDFLFYTEGLD 1z5nA 185 :FNVPFVVVRAISDVAD T0299 111 :VDQVIATVES 1z5nA 207 :FDEFLAVAAK Number of specific fragments extracted= 6 number of extra gaps= 0 total=6 Number of alignments=1 # 1z5nA read from 1z5nA/merged-good-all-a2m # found chain 1z5nA in template set T0299 5 :ALLVRG 1z5nA 43 :VALLKS T0299 15 :GKNKVVMAELRQELTNL 1z5nA 49 :GIGKVAAALGATLLLEH T0299 35 :KVESYINSGNIFFTSID 1z5nA 67 :KPDVIINTGSAGGLAPT T0299 72 :QSFSLLS 1z5nA 87 :GDIVVSD T0299 80 :EDFEAELENLPAWWSRDLARKDFLFYTEGLDVDQVIATVESLE 1z5nA 123 :DKLIAAAEACIAELNLNAVRGLIVSGDAFINGSVGLAKIRHNF T0299 124 :K 1z5nA 166 :P T0299 132 :KLGIFW 1z5nA 167 :QAIAVE T0299 145 :YSKTAYHKYLLKVPFYR 1z5nA 173 :MEATAIAHVCHNFNVPF Number of specific fragments extracted= 8 number of extra gaps= 0 total=14 Number of alignments=2 # 1z5nA read from 1z5nA/merged-good-all-a2m # found chain 1z5nA in template set T0299 54 :AQLVEKLETFFAVH 1z5nA 123 :DKLIAAAEACIAEL T0299 68 :YPFIQSFSLLS 1z5nA 138 :LNAVRGLIVSG T0299 79 :LEDFEAELENLPA 1z5nA 155 :SVGLAKIRHNFPQ T0299 102 :FLFYTE 1z5nA 168 :AIAVEM Number of specific fragments extracted= 4 number of extra gaps= 0 total=18 Number of alignments=3 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1atg/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0299 read from 1atg/merged-good-all-a2m # 1atg read from 1atg/merged-good-all-a2m # found chain 1atg in training set T0299 55 :QLVEKLETFFAVHYPFIQSFSLLSLEDFEAELEN 1atg 13 :GTLEQLAGQFAKQTGHAVVISSGSSGPVYAQIVN T0299 89 :L 1atg 48 :A T0299 99 :RKDFLFYTEG 1atg 49 :PYNVFFSADE T0299 113 :QVIATVESLEL 1atg 59 :KSPEKLDNQGF T0299 124 :KDEVLYFGKLGIFWGKFSEESYSKTAYHK 1atg 73 :GSRFTYAIGKLVLWSAKPGLVDNQGKVLA T0299 156 :KVPFYR 1atg 102 :GNGWRH T0299 163 :ITIRN 1atg 108 :IAISN T0299 168 :AKTFDKIGQMLK 1atg 119 :GLAGTQVLTHLG Number of specific fragments extracted= 8 number of extra gaps= 0 total=26 Number of alignments=4 # 1atg read from 1atg/merged-good-all-a2m # found chain 1atg in training set T0299 55 :QLVEKLETFFAVHYPFIQSFSLLSLEDFEAEL 1atg 13 :GTLEQLAGQFAKQTGHAVVISSGSSGPVYAQI T0299 87 :ENLPA 1atg 46 :NGAPY T0299 101 :DFLFYTEG 1atg 51 :NVFFSADE T0299 113 :QVIATVESLEL 1atg 59 :KSPEKLDNQGF T0299 124 :KDEVLYFGKLGIFWGKFSEESYSKTAY 1atg 73 :GSRFTYAIGKLVLWSAKPGLVDNQGKV T0299 155 :LKVPFYRHITIRN 1atg 100 :LAGNGWRHIAISN Number of specific fragments extracted= 6 number of extra gaps= 0 total=32 Number of alignments=5 # 1atg read from 1atg/merged-good-all-a2m # found chain 1atg in training set T0299 56 :LVEKLETFFAVHYPFIQSFSLLSLEDFEAELEN 1atg 14 :TLEQLAGQFAKQTGHAVVISSGSSGPVYAQIVN T0299 98 :ARKDFLFYTEGLDVDQVIATVESLELKDEVLYFGKLGIFWGKFSEESYSKTA 1atg 47 :GAPYNVFFSADEKSPEKLDNQGFALPGSRFTYAIGKLVLWSAKPGLVDNQGK T0299 154 :LLKVPFYRHITIRN 1atg 99 :VLAGNGWRHIAISN T0299 168 :AKTFDKIGQMLK 1atg 119 :GLAGTQVLTHLG Number of specific fragments extracted= 4 number of extra gaps= 0 total=36 Number of alignments=6 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1xzoA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0299 read from 1xzoA/merged-good-all-a2m # 1xzoA read from 1xzoA/merged-good-all-a2m # found chain 1xzoA in training set Warning: unaligning (T0299)G15 because of BadResidue code BAD_PEPTIDE in next template residue (1xzoA)E46 Warning: unaligning (T0299)K16 because of BadResidue code BAD_PEPTIDE at template residue (1xzoA)E46 Warning: unaligning (T0299)M21 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (1xzoA)M56 Warning: unaligning (T0299)E126 because of BadResidue code BAD_PEPTIDE in next template residue (1xzoA)D131 T0299 6 :LLVRGINVG 1xzoA 36 :WLADFIFTN T0299 17 :NKVV 1xzoA 47 :TICP T0299 22 :AELRQELTNLGLE 1xzoA 57 :TDLQKKLKAENID T0299 36 :VESYINSGN 1xzoA 70 :VRIISFSVD T0299 50 :ID 1xzoA 79 :PE T0299 78 :SLEDFEAELENLPAWWSR 1xzoA 83 :KPKQLKKFAANYPLSFDN T0299 103 :LFYTEGLDVDQVIATVES 1xzoA 101 :WDFLTGYSQSEIEEFALK T0299 124 :KD 1xzoA 128 :EG T0299 127 :VLYFGK 1xzoA 139 :FYLVGP T0299 133 :LGIFWGKFSEESYSKTAYHKYL 1xzoA 146 :GKVLKDYNGVENTPYDDIISDV Number of specific fragments extracted= 10 number of extra gaps= 3 total=46 Number of alignments=7 # 1xzoA read from 1xzoA/merged-good-all-a2m # found chain 1xzoA in training set Warning: unaligning (T0299)G15 because of BadResidue code BAD_PEPTIDE in next template residue (1xzoA)E46 Warning: unaligning (T0299)K16 because of BadResidue code BAD_PEPTIDE at template residue (1xzoA)E46 Warning: unaligning (T0299)M21 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (1xzoA)M56 Warning: unaligning (T0299)D125 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xzoA)S137 Warning: unaligning (T0299)E126 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xzoA)S137 T0299 3 :RYALLV 1xzoA 35 :VWLADF T0299 11 :INVG 1xzoA 41 :IFTN T0299 17 :NKVV 1xzoA 47 :TICP T0299 22 :AELRQELTNLGLE 1xzoA 57 :TDLQKKLKAENID T0299 36 :VESYINSGN 1xzoA 70 :VRIISFSVD T0299 78 :SLEDFEAELENLPAWWSR 1xzoA 83 :KPKQLKKFAANYPLSFDN T0299 103 :LFYTEGLDVDQVIATVESL 1xzoA 101 :WDFLTGYSQSEIEEFALKS T0299 124 :K 1xzoA 135 :H T0299 127 :VLYF 1xzoA 138 :SFYL T0299 131 :GKLGIFWGKFSEESYSKTAYHKYLL 1xzoA 144 :PDGKVLKDYNGVENTPYDDIISDVK Number of specific fragments extracted= 10 number of extra gaps= 3 total=56 Number of alignments=8 # 1xzoA read from 1xzoA/merged-good-all-a2m # found chain 1xzoA in training set Warning: unaligning (T0299)G15 because of BadResidue code BAD_PEPTIDE in next template residue (1xzoA)E46 Warning: unaligning (T0299)K16 because of BadResidue code BAD_PEPTIDE at template residue (1xzoA)E46 Warning: unaligning (T0299)M21 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (1xzoA)M56 Warning: unaligning (T0299)E126 because of BadResidue code BAD_PEPTIDE in next template residue (1xzoA)D131 Warning: unaligning (T0299)V127 because of BadResidue code BAD_PEPTIDE at template residue (1xzoA)D131 Warning: unaligning (T0299)L128 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xzoA)Q132 Warning: unaligning (T0299)Y129 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xzoA)V133 Warning: unaligning (T0299)K132 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xzoA)S137 Warning: unaligning (T0299)L133 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xzoA)S137 T0299 6 :LLVRGINVG 1xzoA 36 :WLADFIFTN T0299 17 :NKVV 1xzoA 47 :TICP T0299 22 :AELRQELTNLGLE 1xzoA 57 :TDLQKKLKAENID T0299 36 :VESYI 1xzoA 70 :VRIIS T0299 47 :FTSID 1xzoA 75 :FSVDP T0299 78 :SLEDFEAELENLPAWWSR 1xzoA 83 :KPKQLKKFAANYPLSFDN T0299 103 :LFYTEGLDVDQVIATVESL 1xzoA 101 :WDFLTGYSQSEIEEFALKS T0299 122 :ELKD 1xzoA 126 :KPEG T0299 130 :FG 1xzoA 134 :IH T0299 134 :GIFWGKFSEES 1xzoA 138 :SFYLVGPDGKV Number of specific fragments extracted= 10 number of extra gaps= 4 total=66 Number of alignments=9 # 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 # T0299 read from 1w3iA/merged-good-all-a2m # 1w3iA read from 1w3iA/merged-good-all-a2m # found chain 1w3iA in training set Warning: unaligning (T0299)F74 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)I70 Warning: unaligning (T0299)S75 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)I70 Warning: unaligning (T0299)F104 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)Y99 Warning: unaligning (T0299)Y105 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)Y99 T0299 5 :ALLVRGINVGGKNKVVMAELRQELTNL 1w3iA 4 :IITPIITPFTKDNRIDKEKLKIHAENL T0299 32 :GL 1w3iA 34 :GI T0299 37 :ESYINSGNIFFTSIDSKAQLV 1w3iA 36 :DKLFVNGTTGLGPSLSPEEKL T0299 62 :TFFAVHYPFIQS 1w3iA 57 :ENLKAVYDVTNK T0299 76 :LL 1w3iA 71 :FQ T0299 78 :SLEDFEAELEN 1w3iA 77 :NLDDAIRLAKL T0299 94 :SRDLARKDFL 1w3iA 88 :SKDFDIVGIA T0299 106 :T 1w3iA 100 :A T0299 107 :EGLDVDQVIATVESLE 1w3iA 105 :PRMSEKHLVKYFKTLC Number of specific fragments extracted= 9 number of extra gaps= 2 total=75 Number of alignments=10 # 1w3iA read from 1w3iA/merged-good-all-a2m # found chain 1w3iA in training set Warning: unaligning (T0299)F74 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)I70 Warning: unaligning (T0299)S75 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)I70 Warning: unaligning (T0299)F104 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)Y99 Warning: unaligning (T0299)Y105 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)Y99 T0299 5 :ALLVRGINVGGKNKVVMAELR 1w3iA 4 :IITPIITPFTKDNRIDKEKLK T0299 26 :QELTNLGLEK 1w3iA 28 :ENLIRKGIDK T0299 39 :YINSGNIFFTSIDSKAQL 1w3iA 38 :LFVNGTTGLGPSLSPEEK T0299 61 :ETFFAVHYPFIQS 1w3iA 56 :LENLKAVYDVTNK T0299 76 :LL 1w3iA 71 :FQ T0299 78 :SLEDFEAELEN 1w3iA 77 :NLDDAIRLAKL T0299 94 :SRDLARKDFL 1w3iA 88 :SKDFDIVGIA T0299 106 :T 1w3iA 100 :A T0299 107 :EGLDVDQVIATVESL 1w3iA 105 :PRMSEKHLVKYFKTL Number of specific fragments extracted= 9 number of extra gaps= 2 total=84 Number of alignments=11 # 1w3iA read from 1w3iA/merged-good-all-a2m # found chain 1w3iA in training set Warning: unaligning (T0299)F74 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)I70 Warning: unaligning (T0299)S75 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)I70 Warning: unaligning (T0299)F104 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)Y99 Warning: unaligning (T0299)Y105 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)Y99 T0299 5 :ALLVRGINVGGKNKVVMAELR 1w3iA 4 :IITPIITPFTKDNRIDKEKLK T0299 26 :QELTNLGLEK 1w3iA 28 :ENLIRKGIDK T0299 39 :YINSGNIFFTSIDSKAQ 1w3iA 38 :LFVNGTTGLGPSLSPEE T0299 60 :LETFFAVHYPFIQS 1w3iA 55 :KLENLKAVYDVTNK T0299 76 :LL 1w3iA 71 :FQ T0299 78 :SLEDFEAELEN 1w3iA 77 :NLDDAIRLAKL T0299 94 :SRDLARKDFL 1w3iA 88 :SKDFDIVGIA T0299 106 :TE 1w3iA 100 :AP T0299 108 :GLDVDQVIATVESL 1w3iA 106 :RMSEKHLVKYFKTL Number of specific fragments extracted= 9 number of extra gaps= 2 total=93 Number of alignments=12 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1fp1D/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1fp1D expands to /projects/compbio/data/pdb/1fp1.pdb.gz 1fp1D:# T0299 read from 1fp1D/merged-good-all-a2m # 1fp1D read from 1fp1D/merged-good-all-a2m # adding 1fp1D to template set # found chain 1fp1D in template set T0299 23 :ELRQE 1fp1D 199 :RMLEI T0299 32 :GLEKVESYINSGN 1fp1D 206 :GFEGISTLVDVGG T0299 58 :EKLE 1fp1D 222 :RNLE T0299 63 :FFAVHYPFIQSFSLLSLE 1fp1D 226 :LIISKYPLIKGINFDLPQ T0299 85 :ELENLPAWWS 1fp1D 244 :VIENAPPLSG T0299 95 :RDLARKDFLFYTE 1fp1D 263 :ASVPQGDAMILKA T0299 108 :GLDVDQVIATVESLEL 1fp1D 279 :NWSDEKCIEFLSNCHK T0299 129 :YFGKLGIFWGKFSEESYSKTAYHKYLLK 1fp1D 297 :SPNGKVIIVEFILPEEPNTSEESKLVST T0299 157 :VPF 1fp1D 332 :TVG T0299 163 :ITIRNAKTFDKIGQMLK 1fp1D 335 :GRERTEKQYEKLSKLSG Number of specific fragments extracted= 10 number of extra gaps= 0 total=103 Number of alignments=13 # 1fp1D read from 1fp1D/merged-good-all-a2m # found chain 1fp1D in template set T0299 21 :MAELRQE 1fp1D 197 :MKRMLEI T0299 32 :GLEKVESYINSGN 1fp1D 206 :GFEGISTLVDVGG T0299 58 :EKLE 1fp1D 222 :RNLE T0299 63 :FFAVHYPFIQSFSLLSLE 1fp1D 226 :LIISKYPLIKGINFDLPQ T0299 85 :ELENLPAWWS 1fp1D 244 :VIENAPPLSG T0299 95 :RDLARKDFLFYTE 1fp1D 263 :ASVPQGDAMILKA T0299 108 :GLDVDQVIATVESLEL 1fp1D 279 :NWSDEKCIEFLSNCHK T0299 129 :YFGKLGIFWGKFSEESYSKTAYHKYLLK 1fp1D 297 :SPNGKVIIVEFILPEEPNTSEESKLVST T0299 157 :VPF 1fp1D 332 :TVG T0299 163 :ITIRNAKTFDKIGQMLK 1fp1D 335 :GRERTEKQYEKLSKLSG Number of specific fragments extracted= 10 number of extra gaps= 0 total=113 Number of alignments=14 # 1fp1D read from 1fp1D/merged-good-all-a2m # found chain 1fp1D in template set T0299 22 :AELRQE 1fp1D 198 :KRMLEI T0299 32 :GLEKVESYINSGN 1fp1D 206 :GFEGISTLVDVGG T0299 58 :EKLE 1fp1D 222 :RNLE T0299 63 :FFAVHYPFIQSFSLLSLE 1fp1D 226 :LIISKYPLIKGINFDLPQ T0299 85 :ELENLPAWWS 1fp1D 244 :VIENAPPLSG T0299 95 :RDLARKDFLFYTE 1fp1D 263 :ASVPQGDAMILKA T0299 108 :GLDVDQVIATVESLELK 1fp1D 279 :NWSDEKCIEFLSNCHKA T0299 128 :LYFGKLGIFWGK 1fp1D 296 :LSPNGKVIIVEF T0299 140 :FSEESYSKTAY 1fp1D 310 :PEEPNTSEESK T0299 151 :HKYLLKVPFYRH 1fp1D 325 :LDNLMFITVGGR T0299 165 :IRNAKTFDKIGQMLK 1fp1D 337 :ERTEKQYEKLSKLSG Number of specific fragments extracted= 11 number of extra gaps= 0 total=124 Number of alignments=15 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1t6nA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1t6nA expands to /projects/compbio/data/pdb/1t6n.pdb.gz 1t6nA:# T0299 read from 1t6nA/merged-good-all-a2m # 1t6nA read from 1t6nA/merged-good-all-a2m # adding 1t6nA to template set # found chain 1t6nA in template set T0299 4 :YALLVR 1t6nA 116 :VLVMCH T0299 20 :V 1t6nA 122 :T T0299 21 :MAELRQELTNL 1t6nA 126 :AFQISKEYERF T0299 32 :GLEKVESY 1t6nA 139 :YMPNVKVA T0299 46 :FFTSIDSKAQLVEKLET 1t6nA 147 :VFFGGLSIKKDEEVLKK T0299 70 :FIQSFSLLSLEDFEAELENL 1t6nA 164 :NCPHIVVGTPGRILALARNK T0299 94 :SRDLARKDFLFYTE 1t6nA 184 :SLNLKHIKHFILDE T0299 111 :VDQVIATVESLEL 1t6nA 204 :QLDMRRDVQEIFR T0299 124 :KDEV 1t6nA 220 :HEKQ T0299 134 :GIFWGKFSEESY 1t6nA 224 :VMMFSATLSKEI T0299 148 :TAYHKYLLKVPFY 1t6nA 236 :RPVCRKFMQDPME Number of specific fragments extracted= 11 number of extra gaps= 0 total=135 Number of alignments=16 # 1t6nA read from 1t6nA/merged-good-all-a2m # found chain 1t6nA in template set T0299 4 :YALLVR 1t6nA 116 :VLVMCH T0299 21 :MAELRQELTNL 1t6nA 126 :AFQISKEYERF T0299 32 :GLEKVESY 1t6nA 139 :YMPNVKVA T0299 46 :FFTSIDSKAQLVEKLET 1t6nA 147 :VFFGGLSIKKDEEVLKK T0299 70 :FIQSFSLLSLEDFEAELEN 1t6nA 164 :NCPHIVVGTPGRILALARN T0299 94 :SRDLARKDFLFYTE 1t6nA 184 :SLNLKHIKHFILDE T0299 112 :DQVIATVES 1t6nA 205 :LDMRRDVQE T0299 121 :LELKDEV 1t6nA 217 :MTPHEKQ T0299 134 :GIFWGKFSEESY 1t6nA 224 :VMMFSATLSKEI T0299 148 :TAYHKYLLKVPFYRH 1t6nA 236 :RPVCRKFMQDPMEIF Number of specific fragments extracted= 10 number of extra gaps= 0 total=145 Number of alignments=17 # 1t6nA read from 1t6nA/merged-good-all-a2m # found chain 1t6nA in template set T0299 21 :MAELRQELTNL 1t6nA 126 :AFQISKEYERF T0299 32 :GLEKVESY 1t6nA 139 :YMPNVKVA T0299 46 :FFTSIDSKAQLVEKLET 1t6nA 147 :VFFGGLSIKKDEEVLKK T0299 70 :FIQSFSLLSLEDFEAELENLPA 1t6nA 164 :NCPHIVVGTPGRILALARNKSL T0299 96 :DLARKDFLFYTE 1t6nA 186 :NLKHIKHFILDE T0299 110 :DVDQVIATVESLE 1t6nA 203 :EQLDMRRDVQEIF Number of specific fragments extracted= 6 number of extra gaps= 0 total=151 Number of alignments=18 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1u5tB/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1u5tB expands to /projects/compbio/data/pdb/1u5t.pdb.gz 1u5tB:# T0299 read from 1u5tB/merged-good-all-a2m # 1u5tB read from 1u5tB/merged-good-all-a2m # adding 1u5tB to template set # found chain 1u5tB in template set Warning: unaligning (T0299)H67 because of BadResidue code BAD_PEPTIDE in next template residue (1u5tB)P507 Warning: unaligning (T0299)Y68 because of BadResidue code BAD_PEPTIDE at template residue (1u5tB)P507 T0299 15 :GKNKVVMAELRQELTNL 1u5tB 451 :GTGLISPMEMREACERF T0299 32 :GLEKVESY 1u5tB 471 :GLNELKLV T0299 45 :IFFTSIDSKAQLVEKLETFFAV 1u5tB 484 :ILCVTSEKFDVVKEKLVDLIGD T0299 69 :PF 1u5tB 508 :GS T0299 78 :SLEDFEAELE 1u5tB 510 :DLLRLTQILS T0299 156 :KVPFYRHIT 1u5tB 520 :SNNSKSNWT T0299 168 :AKTFDKIGQML 1u5tB 529 :LGILMEVLQNC Number of specific fragments extracted= 7 number of extra gaps= 1 total=158 Number of alignments=19 # 1u5tB read from 1u5tB/merged-good-all-a2m # found chain 1u5tB in template set T0299 49 :SIDSKAQLVEKLETFFAVHY 1u5tB 404 :KELFLDEIAREIYEFTLSEF T0299 69 :PFIQSFSLLSLEDFEAELENLPA 1u5tB 427 :NSDTNYMIITLVDLYAMYNKSMR T0299 95 :RD 1u5tB 450 :IG T0299 106 :TEGLDVDQVIA 1u5tB 452 :TGLISPMEMRE T0299 117 :TVESLELKDEVLYFGK 1u5tB 466 :RFEHLGLNELKLVKVN T0299 133 :LGIFWGKFSE 1u5tB 484 :ILCVTSEKFD T0299 144 :SYSKTAYHKYLLKVPFYRHIT 1u5tB 508 :GSDLLRLTQILSSNNSKSNWT T0299 168 :AKTFDKIGQML 1u5tB 529 :LGILMEVLQNC Number of specific fragments extracted= 8 number of extra gaps= 0 total=166 Number of alignments=20 # 1u5tB read from 1u5tB/merged-good-all-a2m # found chain 1u5tB in template set Warning: unaligning (T0299)H67 because of BadResidue code BAD_PEPTIDE in next template residue (1u5tB)P507 Warning: unaligning (T0299)Y68 because of BadResidue code BAD_PEPTIDE at template residue (1u5tB)P507 T0299 15 :GKNKVVMAELRQELTNL 1u5tB 451 :GTGLISPMEMREACERF T0299 32 :GLEKVESYINSG 1u5tB 471 :GLNELKLVKVNK T0299 45 :IFFTSIDSKAQLVEKLETFFAV 1u5tB 484 :ILCVTSEKFDVVKEKLVDLIGD T0299 69 :PF 1u5tB 508 :GS T0299 78 :SLEDFEAELENLPAW 1u5tB 510 :DLLRLTQILSSNNSK T0299 108 :GLDVDQVIATVESL 1u5tB 525 :SNWTLGILMEVLQN T0299 122 :ELKDEVLYFGKLGIFWGKFSEES 1u5tB 541 :DEGDLLIDKQLSGIYYYKNSYWP Number of specific fragments extracted= 7 number of extra gaps= 1 total=173 Number of alignments=21 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2g40A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2g40A expands to /projects/compbio/data/pdb/2g40.pdb.gz 2g40A:Skipped atom 646, because occupancy 0.5 <= existing 0.500 in 2g40A Skipped atom 648, because occupancy 0.500 <= existing 0.500 in 2g40A Skipped atom 650, because occupancy 0.500 <= existing 0.500 in 2g40A Skipped atom 652, because occupancy 0.500 <= existing 0.500 in 2g40A Skipped atom 654, because occupancy 0.500 <= existing 0.500 in 2g40A Skipped atom 656, because occupancy 0.500 <= existing 0.500 in 2g40A Skipped atom 658, because occupancy 0.500 <= existing 0.500 in 2g40A Skipped atom 660, because occupancy 0.500 <= existing 0.500 in 2g40A Skipped atom 662, because occupancy 0.500 <= existing 0.500 in 2g40A Skipped atom 811, because occupancy 0.500 <= existing 0.500 in 2g40A Skipped atom 815, because occupancy 0.500 <= existing 0.500 in 2g40A Skipped atom 817, because occupancy 0.500 <= existing 0.500 in 2g40A Skipped atom 819, because occupancy 0.500 <= existing 0.500 in 2g40A Skipped atom 821, because occupancy 0.500 <= existing 0.500 in 2g40A # T0299 read from 2g40A/merged-good-all-a2m # 2g40A read from 2g40A/merged-good-all-a2m # adding 2g40A to template set # found chain 2g40A in template set Warning: unaligning (T0299)I50 because first residue in template chain is (2g40A)P38 T0299 51 :DSKAQLVEKLETFFAVH 2g40A 39 :LSRAEILHQFEDRILDY T0299 71 :IQSFSLLSLEDFEAELEN 2g40A 56 :GAAYTHVSAAELPGAIAK T0299 89 :LPAWWSRDLA 2g40A 83 :VPAGIPAPWL T0299 99 :RKDFLFYTEGLDVDQV 2g40A 95 :GMDVLRDEPPLSHAEL T0299 116 :ATVE 2g40A 111 :DRAD T0299 124 :KDEVLYFGKLGIFWG 2g40A 119 :GCAVAISETGTIILD T0299 140 :FSEESYSKT 2g40A 134 :HRADQGRRA Number of specific fragments extracted= 7 number of extra gaps= 0 total=180 Number of alignments=22 # 2g40A read from 2g40A/merged-good-all-a2m # found chain 2g40A in template set T0299 19 :VVMAELRQELTNL 2g40A 39 :LSRAEILHQFEDR T0299 32 :GLE 2g40A 56 :GAA T0299 47 :FT 2g40A 59 :YT T0299 49 :SIDS 2g40A 63 :SAAE T0299 60 :LETFFAVHYPFIQSFSLL 2g40A 67 :LPGAIAKALGNARRVIVP T0299 87 :ENLPAWWSRDL 2g40A 85 :AGIPAPWLTVG T0299 100 :KDFLFYTEGLDVDQVIA 2g40A 96 :MDVLRDEPPLSHAELDR T0299 121 :LE 2g40A 113 :AD T0299 124 :KDEVLYFGKLGIFWG 2g40A 119 :GCAVAISETGTIILD T0299 140 :FSEESYSK 2g40A 134 :HRADQGRR T0299 149 :AYH 2g40A 142 :ALS Number of specific fragments extracted= 11 number of extra gaps= 0 total=191 Number of alignments=23 # 2g40A read from 2g40A/merged-good-all-a2m # found chain 2g40A in template set Warning: unaligning (T0299)I50 because first residue in template chain is (2g40A)P38 T0299 51 :DSKAQLVEKLETFFAV 2g40A 39 :LSRAEILHQFEDRILD T0299 70 :FIQSFSLLSLEDFEAELEN 2g40A 55 :YGAAYTHVSAAELPGAIAK T0299 89 :LPAWWSRDL 2g40A 87 :IPAPWLTVG T0299 102 :FLFYTEGLDVD 2g40A 96 :MDVLRDEPPLS T0299 113 :QVIATVE 2g40A 108 :AELDRAD T0299 124 :KDEVLYFGKLGIFWGKFSEESYSKTA 2g40A 119 :GCAVAISETGTIILDHRADQGRRALS Number of specific fragments extracted= 6 number of extra gaps= 0 total=197 Number of alignments=24 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1zghA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1zghA expands to /projects/compbio/data/pdb/1zgh.pdb.gz 1zghA:Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M # T0299 read from 1zghA/merged-good-all-a2m # 1zghA read from 1zghA/merged-good-all-a2m # adding 1zghA to template set # found chain 1zghA in template set Warning: unaligning (T0299)L128 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1zghA)I198 Warning: unaligning (T0299)Y129 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1zghA)I198 T0299 8 :VRGINVGGKN 1zghA 100 :ISAIKVDGGI T0299 41 :NSGNIFFT 1zghA 110 :DTGDIFFK T0299 49 :S 1zghA 121 :D T0299 50 :IDSKAQLVEKLETFFAVHY 1zghA 123 :YGTAEEIFMRASKIIFNDM T0299 82 :FEAELENLPAWWSRDLARKDF 1zghA 142 :IPELLTKRPVPQKQEGEATVF T0299 105 :YTEGLDVDQVIATVESLELKD 1zghA 172 :ISPDFDLEKIYDYIRMLDGEG T0299 126 :EV 1zghA 195 :RA T0299 130 :FGK 1zghA 199 :KYG T0299 133 :LGIFWGKF 1zghA 203 :YRLEFSRA Number of specific fragments extracted= 9 number of extra gaps= 1 total=206 Number of alignments=25 # 1zghA read from 1zghA/merged-good-all-a2m # found chain 1zghA in template set T0299 8 :VRGINVGGKN 1zghA 100 :ISAIKVDGGI T0299 41 :NSGNIFF 1zghA 110 :DTGDIFF T0299 49 :SIDSKAQLVEKLETFFAVHY 1zghA 122 :LYGTAEEIFMRASKIIFNDM T0299 82 :FEAELENLPAWWSRDLARKDF 1zghA 142 :IPELLTKRPVPQKQEGEATVF T0299 105 :YTEGLDVDQVIATVESLEL 1zghA 172 :ISPDFDLEKIYDYIRMLDG T0299 124 :KDEVLYFGKL 1zghA 201 :GKYRLEFSRA T0299 139 :KFSEE 1zghA 211 :SMKNG Number of specific fragments extracted= 7 number of extra gaps= 0 total=213 Number of alignments=26 # 1zghA read from 1zghA/merged-good-all-a2m # found chain 1zghA in template set Warning: unaligning (T0299)L89 because of BadResidue code BAD_PEPTIDE in next template residue (1zghA)S57 Warning: unaligning (T0299)P90 because of BadResidue code BAD_PEPTIDE at template residue (1zghA)S57 T0299 44 :NIFFTSI 1zghA 2 :NIIIATT T0299 53 :KAQLVEKLETFFAVHYPFIQSFSLL 1zghA 9 :KSWNIKNAQKFKKENESKYNTTIIT T0299 78 :SLEDFEAE 1zghA 39 :TFEKVKLI T0299 91 :AWWSRD 1zghA 58 :WIIPKE T0299 97 :LARKDFLFYTEGLDV 1zghA 66 :ENFTCVVFHMTDLPF T0299 114 :V 1zghA 86 :P T0299 117 :TVESLELKDEVL 1zghA 87 :LQNLIERGIKKT T0299 133 :LGIFWGKFSEESYSKTA 1zghA 99 :KISAIKVDGGIDTGDIF T0299 153 :YLLKVPFYRHI 1zghA 116 :FKRDLDLYGTA T0299 168 :AKTFDKIGQML 1zghA 127 :EEIFMRASKII Number of specific fragments extracted= 10 number of extra gaps= 1 total=223 Number of alignments=27 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1oxkB/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1oxkB expands to /projects/compbio/data/pdb/1oxk.pdb.gz 1oxkB:# T0299 read from 1oxkB/merged-good-all-a2m # 1oxkB read from 1oxkB/merged-good-all-a2m # adding 1oxkB to template set # found chain 1oxkB in template set T0299 5 :ALLVR 1oxkB 1090 :ILVVE T0299 16 :KNKVVMAELRQELTNLGLEKVESY 1oxkB 1095 :DNHVNQEVIKRMLNLEGIENIELA T0299 51 :DSKAQLVEKLETFFAVHYPFIQSFSLLS 1oxkB 1119 :CDGQEAFDKVKELTSKGENYNMIFMDVQ T0299 79 :LEDFEAELENLPA 1oxkB 1153 :LLSTKMIRRDLGY T0299 99 :RKDFLFYTEGLDVDQ 1oxkB 1166 :TSPIVALTAFADDSN T0299 115 :IATVESLEL 1oxkB 1181 :IKECLESGM T0299 138 :GKFSEESYSKTAYHKYLLK 1oxkB 1190 :NGFLSKPIKRPKLKTILTE Number of specific fragments extracted= 7 number of extra gaps= 0 total=230 Number of alignments=28 # 1oxkB read from 1oxkB/merged-good-all-a2m # found chain 1oxkB in template set T0299 5 :ALLVR 1oxkB 1090 :ILVVE T0299 16 :KNKVVMAELRQELTNLGLEKVESY 1oxkB 1095 :DNHVNQEVIKRMLNLEGIENIELA T0299 51 :DSKAQLVEKLETFFAVHYPFIQSFSLLS 1oxkB 1119 :CDGQEAFDKVKELTSKGENYNMIFMDVQ T0299 79 :LEDFEAELENLPA 1oxkB 1153 :LLSTKMIRRDLGY T0299 99 :RKDFLFYTEGLDVDQ 1oxkB 1166 :TSPIVALTAFADDSN T0299 115 :IATVESLELK 1oxkB 1181 :IKECLESGMN T0299 139 :KFSEESYSKTAYHKYLLK 1oxkB 1191 :GFLSKPIKRPKLKTILTE Number of specific fragments extracted= 7 number of extra gaps= 0 total=237 Number of alignments=29 # 1oxkB read from 1oxkB/merged-good-all-a2m # found chain 1oxkB in template set T0299 5 :ALLVR 1oxkB 1090 :ILVVE T0299 16 :KNKVVMAELRQELTNLGLEKVESY 1oxkB 1095 :DNHVNQEVIKRMLNLEGIENIELA T0299 51 :DSKAQLVEKLETFFAV 1oxkB 1119 :CDGQEAFDKVKELTSK T0299 69 :PFIQSFSLLS 1oxkB 1135 :GENYNMIFMD T0299 82 :FEAELE 1oxkB 1152 :GLLSTK T0299 92 :WWSRDLARKDFLFYTEGLDVDQVIATVESLE 1oxkB 1158 :MIRRDLGYTSPIVALTAFADDSNIKECLESG Number of specific fragments extracted= 6 number of extra gaps= 0 total=243 Number of alignments=30 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1eqpA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1eqpA expands to /projects/compbio/data/pdb/1eqp.pdb.gz 1eqpA:Skipped atom 466, because occupancy 0.500 <= existing 0.500 in 1eqpA Skipped atom 788, because occupancy 0.500 <= existing 0.500 in 1eqpA Skipped atom 790, because occupancy 0.500 <= existing 0.500 in 1eqpA Skipped atom 792, because occupancy 0.500 <= existing 0.500 in 1eqpA Skipped atom 1005, because occupancy 0.500 <= existing 0.500 in 1eqpA Skipped atom 1007, because occupancy 0.500 <= existing 0.500 in 1eqpA Skipped atom 1009, because occupancy 0.500 <= existing 0.500 in 1eqpA Skipped atom 1201, because occupancy 0.500 <= existing 0.500 in 1eqpA Skipped atom 1314, because occupancy 0.500 <= existing 0.500 in 1eqpA Skipped atom 1316, because occupancy 0.500 <= existing 0.500 in 1eqpA Skipped atom 1318, because occupancy 0.500 <= existing 0.500 in 1eqpA Skipped atom 1693, because occupancy 0.500 <= existing 0.500 in 1eqpA Skipped atom 2107, because occupancy 0.500 <= existing 0.500 in 1eqpA # T0299 read from 1eqpA/merged-good-all-a2m # 1eqpA read from 1eqpA/merged-good-all-a2m # adding 1eqpA to template set # found chain 1eqpA in template set T0299 3 :RYALLVRGINVGGKNK 1eqpA 129 :RVWIDLHGAPGSQNGF T0299 21 :MAELRQELTNL 1eqpA 161 :TQVTLNVLNTI T0299 32 :GLEKVESYINSGNIFFTS 1eqpA 179 :EYSDVVIGIELLNEPLGP T0299 52 :SKAQLVEKLETFFAV 1eqpA 199 :NMDKLKQFFLDGYNS T0299 67 :HYPFIQSFSLLSL 1eqpA 216 :QTGSVTPVIIHDA T0299 88 :NLPA 1eqpA 229 :FQVF T0299 95 :RDLARKDFLFYTE 1eqpA 241 :VAEGQWNVVVDHH T0299 108 :GLDVDQVIATVESL 1eqpA 264 :SRNINDHISVACNW Number of specific fragments extracted= 8 number of extra gaps= 0 total=251 Number of alignments=31 # 1eqpA read from 1eqpA/merged-good-all-a2m # found chain 1eqpA in template set T0299 4 :YALLVRGI 1eqpA 90 :FVRIPIGY T0299 12 :NVGGKNKVV 1eqpA 101 :QLLDNDPYV T0299 21 :MAELRQELTNLG 1eqpA 116 :LEKALGWARKNN T0299 36 :VESYINSGNI 1eqpA 128 :IRVWIDLHGA T0299 47 :FTSIDSKAQLVEKLETFFAVHYPFI 1eqpA 155 :FQNGDNTQVTLNVLNTIFKKYGGNE T0299 72 :QSFSL 1eqpA 184 :VIGIE T0299 77 :LSLEDFEAELEN 1eqpA 198 :LNMDKLKQFFLD T0299 91 :A 1eqpA 229 :F T0299 92 :WWS 1eqpA 231 :VFG T0299 95 :RDLARKDFLFYTE 1eqpA 241 :VAEGQWNVVVDHH T0299 108 :GLDVDQVIATVESL 1eqpA 264 :SRNINDHISVACNW Number of specific fragments extracted= 11 number of extra gaps= 0 total=262 Number of alignments=32 # 1eqpA read from 1eqpA/merged-good-all-a2m # found chain 1eqpA in template set T0299 3 :RYALLVRGINVGGKNK 1eqpA 129 :RVWIDLHGAPGSQNGF T0299 21 :MAELRQELTNL 1eqpA 161 :TQVTLNVLNTI T0299 32 :GLEKVESYINSGN 1eqpA 179 :EYSDVVIGIELLN T0299 48 :TSID 1eqpA 194 :LGPV T0299 52 :SKAQLVEKLETFFAV 1eqpA 199 :NMDKLKQFFLDGYNS T0299 67 :HYPFIQSFSLLSL 1eqpA 216 :QTGSVTPVIIHDA T0299 87 :ENLPAWWSRDLARKDFLFYTE 1eqpA 233 :GYWNNFLTVAEGQWNVVVDHH T0299 108 :GLDVDQVIATVESL 1eqpA 264 :SRNINDHISVACNW Number of specific fragments extracted= 8 number of extra gaps= 0 total=270 Number of alignments=33 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1qapA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1qapA expands to /projects/compbio/data/pdb/1qap.pdb.gz 1qapA:# T0299 read from 1qapA/merged-good-all-a2m # 1qapA read from 1qapA/merged-good-all-a2m # adding 1qapA to template set # found chain 1qapA in template set T0299 56 :LVEKLETFFAVHYPFIQSFSLLSLEDFEAELENLPA 1qapA 195 :VRQAVEKAFWLHPDVPVEVEVENLDELDDALKAGAD T0299 103 :LFYTEGLDVDQVIATVESLELKD 1qapA 231 :IIMLDNFNTDQMREAVKRVNGQA Number of specific fragments extracted= 2 number of extra gaps= 0 total=272 Number of alignments=34 # 1qapA read from 1qapA/merged-good-all-a2m # found chain 1qapA in template set T0299 56 :LVEKLETFFAVHYPFIQSFSLLSLEDFEAELE 1qapA 195 :VRQAVEKAFWLHPDVPVEVEVENLDELDDALK T0299 94 :SRD 1qapA 228 :GAD T0299 103 :LFYTEGLDVDQVIATVESLELK 1qapA 231 :IIMLDNFNTDQMREAVKRVNGQ Number of specific fragments extracted= 3 number of extra gaps= 0 total=275 Number of alignments=35 # 1qapA read from 1qapA/merged-good-all-a2m # found chain 1qapA in template set T0299 56 :LVEKLETFFAVHYPFIQSFSLLSLEDFEAELEN 1qapA 195 :VRQAVEKAFWLHPDVPVEVEVENLDELDDALKA T0299 100 :KDFLFYTEGLDVDQVIATVESLELKDE 1qapA 228 :GADIIMLDNFNTDQMREAVKRVNGQAR Number of specific fragments extracted= 2 number of extra gaps= 0 total=277 Number of alignments=36 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1wekA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1wekA expands to /projects/compbio/data/pdb/1wek.pdb.gz 1wekA:Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M # T0299 read from 1wekA/merged-good-all-a2m # 1wekA read from 1wekA/merged-good-all-a2m # adding 1wekA to template set # found chain 1wekA in template set Warning: unaligning (T0299)S120 because last residue in template chain is (1wekA)A212 T0299 43 :GNIFFTSIDSKAQLVEKLETFFAVHYPFIQSFSLLSLEDFEAELENLPA 1wekA 134 :GFVFLPGGFGTLDELSEVLVLLQTEKVHRFPVFLLDRGYWEGLVRWLAF T0299 95 :RDLARKDF 1wekA 192 :EDLQLFRL T0299 106 :TE 1wekA 200 :TD T0299 110 :DVDQVIATVE 1wekA 202 :EPEEVVQALK Number of specific fragments extracted= 4 number of extra gaps= 0 total=281 Number of alignments=37 # 1wekA read from 1wekA/merged-good-all-a2m # found chain 1wekA in template set Warning: unaligning (T0299)S120 because last residue in template chain is (1wekA)A212 T0299 42 :SGNIFFTSIDSKAQLVEKLETFFAVHYPFIQSFSLLSLEDFEAELENLPA 1wekA 133 :VGFVFLPGGFGTLDELSEVLVLLQTEKVHRFPVFLLDRGYWEGLVRWLAF T0299 92 :WWSRDLARKD 1wekA 188 :AVGPEDLQLF T0299 104 :FYTE 1wekA 198 :RLTD T0299 110 :DVDQVIATVE 1wekA 202 :EPEEVVQALK Number of specific fragments extracted= 4 number of extra gaps= 0 total=285 Number of alignments=38 # 1wekA read from 1wekA/merged-good-all-a2m # found chain 1wekA in template set Warning: unaligning (T0299)S120 because last residue in template chain is (1wekA)A212 T0299 43 :GNIFFTSIDSKAQLVEKLETFFAVHYPFIQSFSLLSLEDFEAELENLPAWWSRD 1wekA 134 :GFVFLPGGFGTLDELSEVLVLLQTEKVHRFPVFLLDRGYWEGLVRWLAFLRDQK T0299 97 :LARKDFL 1wekA 194 :LQLFRLT T0299 109 :LDVDQVIATVE 1wekA 201 :DEPEEVVQALK Number of specific fragments extracted= 3 number of extra gaps= 0 total=288 Number of alignments=39 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1zavA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1zavA expands to /projects/compbio/data/pdb/1zav.pdb.gz 1zavA:Skipped atom 692, because occupancy 0.500 <= existing 0.500 in 1zavA Skipped atom 694, because occupancy 0.500 <= existing 0.500 in 1zavA Skipped atom 696, because occupancy 0.500 <= existing 0.500 in 1zavA Skipped atom 698, because occupancy 0.500 <= existing 0.500 in 1zavA Skipped atom 700, because occupancy 0.500 <= existing 0.500 in 1zavA Skipped atom 702, because occupancy 0.500 <= existing 0.500 in 1zavA Skipped atom 704, because occupancy 0.500 <= existing 0.500 in 1zavA Skipped atom 706, because occupancy 0.500 <= existing 0.500 in 1zavA # T0299 read from 1zavA/merged-good-all-a2m # 1zavA read from 1zavA/merged-good-all-a2m # adding 1zavA to template set # found chain 1zavA in template set T0299 21 :MAELRQELTN 1zavA 11 :VKEMSEIFKK T0299 42 :SGNIFFTSID 1zavA 21 :TSLILFADFL T0299 52 :SKAQLVEKLETFFAVHYPFIQSFSLLSLEDFEAELENLPAW 1zavA 32 :FTVADLTELRSRLREKYGDGARFRVVKNTLLNLALKNAEYE T0299 93 :WSRDLA 1zavA 74 :YEEFLK T0299 99 :RKDFLFYTEG 1zavA 81 :PTAVLYVTEG T0299 110 :DVDQ 1zavA 91 :DPVE T0299 114 :VIATVESLELKDEVL 1zavA 99 :IYNFYKDKKADLSRL T0299 133 :LGIFW 1zavA 114 :KGGFL T0299 142 :EESYSKTAYHKYLLKVP 1zavA 119 :EGKKFTAEEVENIAKLP Number of specific fragments extracted= 9 number of extra gaps= 0 total=297 Number of alignments=40 # 1zavA read from 1zavA/merged-good-all-a2m # found chain 1zavA in template set T0299 21 :MAELRQELTN 1zavA 11 :VKEMSEIFKK T0299 42 :SGNIFF 1zavA 21 :TSLILF T0299 48 :TSID 1zavA 28 :DFLG T0299 52 :SKA 1zavA 33 :TVA T0299 56 :LVEKLETFFAVHYPFIQSFSLLSLEDFEAELENLPA 1zavA 36 :DLTELRSRLREKYGDGARFRVVKNTLLNLALKNAEY T0299 92 :WWSR 1zavA 73 :GYEE T0299 96 :DLARKDFLFYTEG 1zavA 78 :LKGPTAVLYVTEG T0299 112 :DQVIATVESLELKDEVL 1zavA 97 :KIIYNFYKDKKADLSRL T0299 133 :LGIFW 1zavA 114 :KGGFL T0299 142 :EESYSKTAYHKYLLKVP 1zavA 119 :EGKKFTAEEVENIAKLP Number of specific fragments extracted= 10 number of extra gaps= 0 total=307 Number of alignments=41 # 1zavA read from 1zavA/merged-good-all-a2m # found chain 1zavA in template set T0299 21 :MAELRQELTN 1zavA 11 :VKEMSEIFKK T0299 42 :SGNIFFTSID 1zavA 21 :TSLILFADFL T0299 52 :SKAQ 1zavA 33 :TVAD T0299 57 :VEKLETFFAVHYPFIQSFSLLSLEDFEAELENLPAWWSRD 1zavA 37 :LTELRSRLREKYGDGARFRVVKNTLLNLALKNAEYEGYEE T0299 97 :LARKDFLFYTEGLDVDQVIATVESL 1zavA 78 :LKGPTAVLYVTEGDPVEAVKIIYNF T0299 122 :ELKD 1zavA 107 :KADL T0299 128 :LYFGKLGI 1zavA 111 :SRLKGGFL T0299 143 :ESYSKT 1zavA 119 :EGKKFT T0299 171 :FDKIGQMLK 1zavA 125 :AEEVENIAK Number of specific fragments extracted= 9 number of extra gaps= 0 total=316 Number of alignments=42 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1qtqA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1qtqA expands to /projects/compbio/data/pdb/1qtq.pdb.gz 1qtqA:# T0299 read from 1qtqA/merged-good-all-a2m # 1qtqA read from 1qtqA/merged-good-all-a2m # adding 1qtqA to template set # found chain 1qtqA in template set T0299 21 :MAELRQELTNLGLE 1qtqA 78 :VESIKNDVEWLGFH T0299 41 :NSGNIFFTS 1qtqA 92 :WSGNVRYSS T0299 51 :DSKAQLVEKLETFFAVHY 1qtqA 101 :DYFDQLHAYAIELINKGL T0299 73 :SF 1qtqA 120 :YV T0299 77 :LSLEDFEAEL 1qtqA 124 :LTPEQIREYR T0299 93 :WSRDLARKD 1qtqA 134 :GTLTQPGKN T0299 106 :TEGLDVDQVIATVESLELKD 1qtqA 145 :YRDRSVEENLALFEKMRAGG T0299 131 :GKLGIFW 1qtqA 168 :GKACLRA T0299 140 :FSE 1qtqA 175 :KID Number of specific fragments extracted= 9 number of extra gaps= 0 total=325 Number of alignments=43 # 1qtqA read from 1qtqA/merged-good-all-a2m # found chain 1qtqA in template set T0299 21 :MAELRQELTNLGLE 1qtqA 78 :VESIKNDVEWLGFH T0299 41 :NSGNIFFTSID 1qtqA 92 :WSGNVRYSSDY T0299 53 :KAQLVEKLETFFAVHY 1qtqA 103 :FDQLHAYAIELINKGL T0299 75 :SL 1qtqA 120 :YV T0299 77 :LSLEDFEAEL 1qtqA 124 :LTPEQIREYR T0299 93 :WSRDLARKD 1qtqA 134 :GTLTQPGKN T0299 106 :TEGLDVDQVIATVESLELKD 1qtqA 145 :YRDRSVEENLALFEKMRAGG T0299 131 :GKLGIFWG 1qtqA 168 :GKACLRAK T0299 141 :S 1qtqA 176 :I Number of specific fragments extracted= 9 number of extra gaps= 0 total=334 Number of alignments=44 # 1qtqA read from 1qtqA/merged-good-all-a2m # found chain 1qtqA in template set T0299 22 :AELRQELTNLGLE 1qtqA 79 :ESIKNDVEWLGFH T0299 41 :NSGNIFFTSID 1qtqA 92 :WSGNVRYSSDY T0299 53 :KAQLVEKLETFFAVHY 1qtqA 103 :FDQLHAYAIELINKGL T0299 71 :IQS 1qtqA 119 :AYV T0299 77 :LSLEDFEAEL 1qtqA 124 :LTPEQIREYR T0299 93 :WSRDLARKD 1qtqA 134 :GTLTQPGKN T0299 107 :EGLDVDQVIATVESLELKD 1qtqA 146 :RDRSVEENLALFEKMRAGG T0299 131 :GKLGIFW 1qtqA 167 :EGKACLR T0299 139 :KFSEE 1qtqA 174 :AKIDM Number of specific fragments extracted= 9 number of extra gaps= 0 total=343 Number of alignments=45 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1eqcA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1eqcA expands to /projects/compbio/data/pdb/1eqc.pdb.gz 1eqcA:Skipped atom 282, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 284, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 286, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 625, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 627, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 629, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 631, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 796, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 798, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 800, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 1013, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 1015, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 1017, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 1209, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 1322, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 1324, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 1326, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 1701, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 2115, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 2610, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 2612, because occupancy 0.500 <= existing 0.500 in 1eqcA Skipped atom 2614, because occupancy 0.500 <= existing 0.500 in 1eqcA # T0299 read from 1eqcA/merged-good-all-a2m # 1eqcA read from 1eqcA/merged-good-all-a2m # adding 1eqcA to template set # found chain 1eqcA in template set T0299 3 :RYALLVRGINVGGKNK 1eqcA 129 :RVWIDLHGAPGSQNGF T0299 21 :MAELRQELTNL 1eqcA 161 :TQVTLNVLNTI T0299 32 :GLEKVESYINSGNIFFTSI 1eqcA 179 :EYSDVVIGIELLNEPLGPV T0299 52 :SKAQLVEKLETFFAV 1eqcA 199 :NMDKLKQFFLDGYNS T0299 67 :HYPFIQSFSLLSL 1eqcA 216 :QTGSVTPVIIHDA T0299 89 :LPA 1eqcA 230 :QVF T0299 95 :RDLARKDFLFYTE 1eqcA 241 :VAEGQWNVVVDHH T0299 108 :GLDVDQVIATVESL 1eqcA 264 :SRNINDHISVACNW Number of specific fragments extracted= 8 number of extra gaps= 0 total=351 Number of alignments=46 # 1eqcA read from 1eqcA/merged-good-all-a2m # found chain 1eqcA in template set T0299 4 :YALLVRGI 1eqcA 90 :FVRIPIGY T0299 12 :NVGGKNKVV 1eqcA 101 :QLLDNDPYV T0299 21 :MAELRQELTNLG 1eqcA 116 :LEKALGWARKNN T0299 36 :VESYINSGNI 1eqcA 128 :IRVWIDLHGA T0299 47 :FTSIDSKAQLVEKLETFFAVHYPFI 1eqcA 155 :FQNGDNTQVTLNVLNTIFKKYGGNE T0299 72 :QSFSL 1eqcA 184 :VIGIE T0299 77 :LSLEDFEAELEN 1eqcA 198 :LNMDKLKQFFLD T0299 91 :A 1eqcA 229 :F T0299 92 :WWS 1eqcA 231 :VFG T0299 95 :RDLARKDFLFYTE 1eqcA 241 :VAEGQWNVVVDHH T0299 108 :GLDVDQVIATVESL 1eqcA 264 :SRNINDHISVACNW Number of specific fragments extracted= 11 number of extra gaps= 0 total=362 Number of alignments=47 # 1eqcA read from 1eqcA/merged-good-all-a2m # found chain 1eqcA in template set T0299 4 :YALLVRGINVGGKN 1eqcA 130 :VWIDLHGAPGSQNG T0299 19 :V 1eqcA 144 :F T0299 21 :MAELRQELTNL 1eqcA 161 :TQVTLNVLNTI T0299 32 :GLEKVESYINSGN 1eqcA 179 :EYSDVVIGIELLN T0299 48 :TSID 1eqcA 194 :LGPV T0299 52 :SKAQLVEKLETFFAV 1eqcA 199 :NMDKLKQFFLDGYNS T0299 67 :HYPFIQSFSLLSL 1eqcA 216 :QTGSVTPVIIHDA T0299 87 :ENLPAWWSRDLARKDFLFYTE 1eqcA 233 :GYWNNFLTVAEGQWNVVVDHH T0299 108 :GLDVDQVIATVESL 1eqcA 264 :SRNINDHISVACNW Number of specific fragments extracted= 9 number of extra gaps= 0 total=371 Number of alignments=48 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1wdjA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1wdjA expands to /projects/compbio/data/pdb/1wdj.pdb.gz 1wdjA:# T0299 read from 1wdjA/merged-good-all-a2m # 1wdjA read from 1wdjA/merged-good-all-a2m # adding 1wdjA to template set # found chain 1wdjA in template set T0299 16 :KNKVVMAELRQELTNLG 1wdjA 8 :ARPVSEEELRRLSELNP T0299 43 :GNIFFTSIDSK 1wdjA 34 :GRLWVSPTGGE T0299 54 :AQLVEKLETFFAVH 1wdjA 50 :LQLAYQLARWNEER T0299 68 :YP 1wdjA 77 :FP T0299 71 :IQSFSLLSLEDFE 1wdjA 84 :SPDAAFVERGAWE T0299 84 :AELENLPAW 1wdjA 101 :AEREGFPPL T0299 97 :LARKDFLFYTEGLDVDQVIATVESLEL 1wdjA 110 :APKAVFEVRSASQDPEELRAKMGIYLR T0299 127 :VLYFGKLGIFW 1wdjA 144 :LVDPYARAVEV T0299 140 :FSEESY 1wdjA 155 :FRPGKP Number of specific fragments extracted= 9 number of extra gaps= 0 total=380 Number of alignments=49 # 1wdjA read from 1wdjA/merged-good-all-a2m # found chain 1wdjA in template set T0299 16 :KNKVVMAELRQELTNLG 1wdjA 8 :ARPVSEEELRRLSELNP T0299 43 :GNIFFT 1wdjA 34 :GRLWVS T0299 49 :SIDSK 1wdjA 41 :TGGES T0299 54 :AQLVEKLETFFAVH 1wdjA 50 :LQLAYQLARWNEER T0299 68 :YP 1wdjA 77 :FP T0299 71 :IQSFSLLSLED 1wdjA 84 :SPDAAFVERGA T0299 86 :LENLPAWWS 1wdjA 95 :WEALSEAER T0299 95 :RDLARKDFLFYTEGLDVDQVIATVESL 1wdjA 108 :PLAPKAVFEVRSASQDPEELRAKMGIY T0299 122 :ELK 1wdjA 136 :RNG T0299 127 :VLYFGKLGIFW 1wdjA 144 :LVDPYARAVEV T0299 140 :FSEESY 1wdjA 155 :FRPGKP Number of specific fragments extracted= 11 number of extra gaps= 0 total=391 Number of alignments=50 # 1wdjA read from 1wdjA/merged-good-all-a2m # found chain 1wdjA in template set T0299 16 :KNKVVMAELRQELTNLG 1wdjA 8 :ARPVSEEELRRLSELNP T0299 43 :GNIFFTSID 1wdjA 34 :GRLWVSPTG T0299 54 :AQLVEKLETFFAVH 1wdjA 50 :LQLAYQLARWNEER T0299 68 :YP 1wdjA 77 :FP T0299 71 :IQSFSLLSLE 1wdjA 84 :SPDAAFVERG T0299 85 :ELENLPAWWSRDLARKD 1wdjA 94 :AWEALSEAEREGFPPLA T0299 102 :FLFYTE 1wdjA 113 :AVFEVR T0299 108 :GLDVDQVIATVESLELKD 1wdjA 121 :SQDPEELRAKMGIYLRNG T0299 126 :EVLYFGKLGIFWGKFSEESYS 1wdjA 143 :VLVDPYARAVEVFRPGKPPLR Number of specific fragments extracted= 9 number of extra gaps= 0 total=400 Number of alignments=51 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1vjrA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1vjrA expands to /projects/compbio/data/pdb/1vjr.pdb.gz 1vjrA:Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE 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 172, because occupancy 0.330 <= existing 0.340 in 1vjrA Skipped atom 173, because occupancy 0.330 <= existing 0.340 in 1vjrA Skipped atom 177, because occupancy 0.330 <= existing 0.340 in 1vjrA Skipped atom 178, because occupancy 0.330 <= existing 0.340 in 1vjrA Skipped atom 180, because occupancy 0.330 <= existing 0.340 in 1vjrA Skipped atom 181, because occupancy 0.330 <= existing 0.340 in 1vjrA Skipped atom 183, because occupancy 0.330 <= existing 0.340 in 1vjrA Skipped atom 184, because occupancy 0.330 <= existing 0.340 in 1vjrA Skipped atom 186, because occupancy 0.330 <= existing 0.340 in 1vjrA Skipped atom 187, because occupancy 0.330 <= existing 0.340 in 1vjrA Skipped atom 237, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 241, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 243, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 245, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 247, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 249, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 271, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 275, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 277, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 279, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 281, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 283, because occupancy 0.500 <= existing 0.500 in 1vjrA Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE 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 1601, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1605, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1607, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1609, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1611, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1613, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1616, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1620, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1622, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1624, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1626, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1628, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1630, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1632, because occupancy 0.500 <= existing 0.500 in 1vjrA Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE 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 1868, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1872, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1874, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1876, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1878, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1880, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1912, because occupancy 0.350 <= existing 0.650 in 1vjrA Skipped atom 1914, because occupancy 0.350 <= existing 0.650 in 1vjrA Skipped atom 1916, because occupancy 0.350 <= existing 0.650 in 1vjrA Skipped atom 1918, because occupancy 0.350 <= existing 0.650 in 1vjrA Skipped atom 1920, because occupancy 0.350 <= existing 0.650 in 1vjrA Skipped atom 1922, because occupancy 0.350 <= existing 0.650 in 1vjrA Skipped atom 1930, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1934, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1936, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1938, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1940, because occupancy 0.500 <= existing 0.500 in 1vjrA Skipped atom 1942, because occupancy 0.500 <= existing 0.500 in 1vjrA # T0299 read from 1vjrA/merged-good-all-a2m # 1vjrA read from 1vjrA/merged-good-all-a2m # adding 1vjrA to template set # found chain 1vjrA in template set T0299 3 :RYALLVRG 1vjrA 39 :RFVFFTNN T0299 17 :NKVVMAELRQELTNLGL 1vjrA 47 :SSLGAQDYVRKLRNMGV T0299 34 :EKVES 1vjrA 68 :DAVVT T0299 63 :FFAVHYP 1vjrA 80 :HMLKRFG T0299 71 :IQSFSLLSLEDFEAELENLPAWWSRDLARKDFLFYTEGLD 1vjrA 87 :RCRIFLLGTPQLKKVFEAYGHVIDEENPDFVVLGFDKTLT T0299 112 :DQVIATVESLELKDEVLYFGK 1vjrA 127 :YERLKKACILLRKGKFYIATH T0299 138 :GKFSEESYSK 1vjrA 151 :NCPSKEGPVP T0299 148 :TAYHKYLLKVPFYRHITIRNAKTFDKIGQMLK 1vjrA 166 :MAAIEASTGRKPDLIAGKPNPLVVDVISEKFG Number of specific fragments extracted= 8 number of extra gaps= 0 total=408 Number of alignments=52 # 1vjrA read from 1vjrA/merged-good-all-a2m # found chain 1vjrA in template set T0299 21 :MAELRQELTNLGL 1vjrA 26 :SLEFLETLKEKNK T0299 37 :ESYINSGN 1vjrA 39 :RFVFFTNN T0299 49 :SIDSKAQLVEKLET 1vjrA 47 :SSLGAQDYVRKLRN T0299 63 :FFAVHYP 1vjrA 80 :HMLKRFG T0299 71 :IQSFSLLSLEDFEAELENLPAWWSRDLARKDFLFYTEGLDVDQ 1vjrA 87 :RCRIFLLGTPQLKKVFEAYGHVIDEENPDFVVLGFDKTLTYER T0299 115 :IATVESLELKDEVL 1vjrA 130 :LKKACILLRKGKFY T0299 138 :GKFSEES 1vjrA 151 :NCPSKEG T0299 146 :SKTAYHKYLLKVPFYRHITIRNAKTFDKIGQMLK 1vjrA 164 :SIMAAIEASTGRKPDLIAGKPNPLVVDVISEKFG Number of specific fragments extracted= 8 number of extra gaps= 0 total=416 Number of alignments=53 # 1vjrA read from 1vjrA/merged-good-all-a2m # found chain 1vjrA in template set T0299 3 :RYALLVR 1vjrA 39 :RFVFFTN T0299 13 :VGG 1vjrA 46 :NSS T0299 19 :VVMAELRQELTNLGL 1vjrA 49 :LGAQDYVRKLRNMGV T0299 34 :EKVES 1vjrA 68 :DAVVT T0299 63 :FFAVHYPF 1vjrA 80 :HMLKRFGR T0299 72 :QSFSLLSLEDFEAELENLPAWWSRDL 1vjrA 88 :CRIFLLGTPQLKKVFEAYGHVIDEEN T0299 99 :RKDFLFYTEGLDVDQVIATVESLELKDEVLYFGK 1vjrA 114 :PDFVVLGFDKTLTYERLKKACILLRKGKFYIATH T0299 138 :GKFSEESYS 1vjrA 151 :NCPSKEGPV T0299 147 :KTAYHKYLLKVPFYRHITIRNAKTFDKIGQMLKK 1vjrA 165 :IMAAIEASTGRKPDLIAGKPNPLVVDVISEKFGV Number of specific fragments extracted= 9 number of extra gaps= 0 total=425 Number of alignments=54 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1k68A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1k68A expands to /projects/compbio/data/pdb/1k68.pdb.gz 1k68A:Bad short name: P for alphabet: pdb_atoms Bad short name: OP1 for alphabet: pdb_atoms Bad short name: OP2 for alphabet: pdb_atoms Bad short name: OP3 for alphabet: pdb_atoms Skipped atom 719, because occupancy 0.500 <= existing 0.500 in 1k68A # T0299 read from 1k68A/merged-good-all-a2m # 1k68A read from 1k68A/merged-good-all-a2m # adding 1k68A to template set # found chain 1k68A in template set T0299 2 :TRYALLVR 1k68A 10 :HKKIFLVE T0299 52 :SKAQLVEKLETFFAVHYPFIQSFSLLSLEDFEAELENLPAWWS 1k68A 18 :DNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYAN T0299 95 :RDLARKDFLFYTEGLD 1k68A 89 :PTLKRIPVVVLSTSIN T0299 112 :DQVIATVESLEL 1k68A 105 :EDDIFHSYDLHV T0299 138 :GKFSEESYSKTAYHKYLL 1k68A 117 :NCYITKSANLSQLFQIVK Number of specific fragments extracted= 5 number of extra gaps= 0 total=430 Number of alignments=55 # 1k68A read from 1k68A/merged-good-all-a2m # found chain 1k68A in template set T0299 2 :TRYALLVR 1k68A 10 :HKKIFLVE T0299 52 :SKAQLVEKLETFFAVHYPFIQSFSLLSLEDFEAELENLPAWWS 1k68A 18 :DNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYAN T0299 95 :RDLARKDFLFYTEGLDVDQ 1k68A 89 :PTLKRIPVVVLSTSINEDD T0299 115 :IATVESLEL 1k68A 108 :IFHSYDLHV T0299 138 :GKFSEESYSKTAYHKYLL 1k68A 117 :NCYITKSANLSQLFQIVK Number of specific fragments extracted= 5 number of extra gaps= 0 total=435 Number of alignments=56 # 1k68A read from 1k68A/merged-good-all-a2m # found chain 1k68A in template set Warning: unaligning (T0299)Y105 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1k68A)L71 Warning: unaligning (T0299)E107 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1k68A)L71 T0299 46 :FFT 1k68A 14 :FLV T0299 50 :IDS 1k68A 17 :EDN T0299 54 :AQLVEKLETFFAVHYPFIQSFSLLSLEDFEAELENLPAW 1k68A 20 :KADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEY T0299 95 :RDLARKDFLF 1k68A 59 :ANASRPDLIL T0299 108 :GLDVDQVIATVESLELKD 1k68A 72 :NLPKKDGREVLAEIKSDP Number of specific fragments extracted= 5 number of extra gaps= 0 total=440 Number of alignments=57 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1jysA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1jysA expands to /projects/compbio/data/pdb/1jys.pdb.gz 1jysA:# T0299 read from 1jysA/merged-good-all-a2m # 1jysA read from 1jysA/merged-good-all-a2m # adding 1jysA to template set # found chain 1jysA in template set Warning: unaligning (T0299)D110 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1jysA)S206 T0299 21 :MAELRQELTNLGLEKVESYINSGNIFFTSIDSKAQLVEK 1jysA 126 :IAAAEACIAELNLNAVRGLIVSGDAFINGSVGLAKIRHN T0299 68 :YP 1jysA 165 :FP T0299 71 :IQSFSLLSLEDFEAELEN 1jysA 167 :QAIAVEMEATAIAHVCHN T0299 95 :RDLARKDFLFYTE 1jysA 185 :FNVPFVVVRAISD T0299 111 :VDQVIATVES 1jysA 207 :FDEFLAVAAK Number of specific fragments extracted= 5 number of extra gaps= 0 total=445 Number of alignments=58 # 1jysA read from 1jysA/merged-good-all-a2m # found chain 1jysA in template set Warning: unaligning (T0299)D110 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1jysA)S206 T0299 21 :MAELRQELTNLGLEKVESYINSGNIFFTSIDSKAQLVEK 1jysA 126 :IAAAEACIAELNLNAVRGLIVSGDAFINGSVGLAKIRHN T0299 68 :YPF 1jysA 165 :FPQ T0299 72 :QSFSLLSLEDFEAEL 1jysA 168 :AIAVEMEATAIAHVC T0299 93 :WSRDLARKDFLFYTE 1jysA 183 :HNFNVPFVVVRAISD T0299 111 :VDQVIATVES 1jysA 207 :FDEFLAVAAK Number of specific fragments extracted= 5 number of extra gaps= 0 total=450 Number of alignments=59 # 1jysA read from 1jysA/merged-good-all-a2m # found chain 1jysA in template set T0299 21 :MAELRQELTNLGLEKVESYINSGN 1jysA 126 :IAAAEACIAELNLNAVRGLIVSGD T0299 50 :ID 1jysA 150 :AF T0299 52 :SKAQ 1jysA 154 :GSVG T0299 57 :VEKLETF 1jysA 158 :LAKIRHN T0299 68 :YP 1jysA 165 :FP T0299 71 :IQSFSLLSLEDFEAELENL 1jysA 167 :QAIAVEMEATAIAHVCHNF Number of specific fragments extracted= 6 number of extra gaps= 0 total=456 Number of alignments=60 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ccwA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0299 read from 1ccwA/merged-good-all-a2m # 1ccwA read from 1ccwA/merged-good-all-a2m # found chain 1ccwA in training set Warning: unaligning (T0299)T2 because of BadResidue code BAD_PEPTIDE in next template residue (1ccwA)K4 Warning: unaligning (T0299)R3 because of BadResidue code BAD_PEPTIDE at template residue (1ccwA)K4 Warning: unaligning (T0299)F70 because of BadResidue code BAD_PEPTIDE in next template residue (1ccwA)D56 Warning: unaligning (T0299)Q72 because of BadResidue code BAD_PEPTIDE at template residue (1ccwA)D56 Warning: unaligning (T0299)E107 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1ccwA)I94 T0299 4 :YALL 1ccwA 5 :TIVL T0299 10 :GINVGGKNKVVMAELRQELTNLGL 1ccwA 9 :GVIGSDCHAVGNKILDHAFTNAGF T0299 35 :KVESY 1ccwA 33 :NVVNI T0299 40 :IN 1ccwA 39 :VL T0299 52 :SKAQLVEKLETF 1ccwA 42 :PQELFIKAAIET T0299 69 :P 1ccwA 54 :K T0299 73 :SFSLLS 1ccwA 57 :AILVSS T0299 82 :FEAELENL 1ccwA 74 :LRQKCDEA T0299 96 :DLARKDFLFYT 1ccwA 82 :GLEGILLYVGG T0299 108 :GLDVDQVIATVESLEL 1ccwA 98 :KQHWPDVEKRFKDMGY T0299 138 :GKFSEESYSKTAYHKYLLK 1ccwA 114 :DRVYAPGTPPEVGIADLKK Number of specific fragments extracted= 11 number of extra gaps= 3 total=467 Number of alignments=61 # 1ccwA read from 1ccwA/merged-good-all-a2m # found chain 1ccwA in training set Warning: unaligning (T0299)T2 because of BadResidue code BAD_PEPTIDE in next template residue (1ccwA)K4 Warning: unaligning (T0299)R3 because of BadResidue code BAD_PEPTIDE at template residue (1ccwA)K4 Warning: unaligning (T0299)F70 because of BadResidue code BAD_PEPTIDE in next template residue (1ccwA)D56 Warning: unaligning (T0299)I71 because of BadResidue code BAD_PEPTIDE at template residue (1ccwA)D56 T0299 4 :YALL 1ccwA 5 :TIVL T0299 10 :GINVGGKNKVVMAELRQELTNLGLE 1ccwA 9 :GVIGSDCHAVGNKILDHAFTNAGFN T0299 36 :VESY 1ccwA 34 :VVNI T0299 44 :N 1ccwA 39 :V T0299 52 :SKAQLVEKLETF 1ccwA 42 :PQELFIKAAIET T0299 69 :P 1ccwA 54 :K T0299 72 :QSFSLLS 1ccwA 57 :AILVSSL T0299 82 :FEAELENL 1ccwA 74 :LRQKCDEA T0299 96 :DLARKDFLFY 1ccwA 82 :GLEGILLYVG T0299 106 :TEGLDVDQVIATVESLEL 1ccwA 96 :VGKQHWPDVEKRFKDMGY T0299 138 :GKFSEESYSKTAYHKYLLKV 1ccwA 114 :DRVYAPGTPPEVGIADLKKD Number of specific fragments extracted= 11 number of extra gaps= 2 total=478 Number of alignments=62 # 1ccwA read from 1ccwA/merged-good-all-a2m # found chain 1ccwA in training set Warning: unaligning (T0299)R3 because of BadResidue code BAD_PEPTIDE at template residue (1ccwA)K4 Warning: unaligning (T0299)F70 because of BadResidue code BAD_PEPTIDE in next template residue (1ccwA)D56 Warning: unaligning (T0299)Q72 because of BadResidue code BAD_PEPTIDE at template residue (1ccwA)D56 Warning: unaligning (T0299)E107 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1ccwA)I94 T0299 4 :YALL 1ccwA 5 :TIVL T0299 10 :GINVGGKNKVVMAELRQELTNLGL 1ccwA 9 :GVIGSDCHAVGNKILDHAFTNAGF T0299 35 :KVESY 1ccwA 33 :NVVNI T0299 52 :SKAQLVEKLETF 1ccwA 42 :PQELFIKAAIET T0299 69 :P 1ccwA 54 :K T0299 73 :SFSLLS 1ccwA 57 :AILVSS T0299 82 :FEAELENL 1ccwA 74 :LRQKCDEA T0299 96 :DLARKDFLFYT 1ccwA 82 :GLEGILLYVGG T0299 108 :GLDVDQVIATVESLELKD 1ccwA 98 :KQHWPDVEKRFKDMGYDR T0299 140 :FSEESYSKTA 1ccwA 116 :VYAPGTPPEV T0299 170 :TFDKIGQMLKK 1ccwA 126 :GIADLKKDLNI Number of specific fragments extracted= 11 number of extra gaps= 3 total=489 Number of alignments=63 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1u0sA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1u0sA expands to /projects/compbio/data/pdb/1u0s.pdb.gz 1u0sA:Skipped atom 1009, because occupancy 0.500 <= existing 0.500 in 1u0sA Skipped atom 1011, because occupancy 0.500 <= existing 0.500 in 1u0sA Skipped atom 1013, because occupancy 0.500 <= existing 0.500 in 1u0sA Skipped atom 1015, because occupancy 0.500 <= existing 0.500 in 1u0sA Skipped atom 1017, because occupancy 0.500 <= existing 0.500 in 1u0sA Skipped atom 1019, because occupancy 0.500 <= existing 0.500 in 1u0sA Skipped atom 1021, because occupancy 0.500 <= existing 0.500 in 1u0sA Skipped atom 1023, because occupancy 0.500 <= existing 0.500 in 1u0sA Skipped atom 1025, because occupancy 0.500 <= existing 0.500 in 1u0sA # T0299 read from 1u0sA/merged-good-all-a2m # 1u0sA read from 1u0sA/merged-good-all-a2m # adding 1u0sA to template set # found chain 1u0sA in template set T0299 45 :IFFT 1u0sA 183 :VILK T0299 49 :SIDSKAQLVEKLETFFAV 1u0sA 188 :GTQLKSARIYLVFHKLEE T0299 68 :YPFIQSFSLLSLEDFE 1u0sA 206 :LKCEVVRTIPSVEEIE T0299 94 :SRDLARKDFLFYTEGLDVDQVIATVESLE 1u0sA 222 :EEKFENEVELFVISPVDLEKLSEALSSIA T0299 124 :KDEVLYFGK 1u0sA 251 :DIERVIIKE Number of specific fragments extracted= 5 number of extra gaps= 0 total=494 Number of alignments=64 # 1u0sA read from 1u0sA/merged-good-all-a2m # found chain 1u0sA in template set T0299 45 :IFFT 1u0sA 183 :VILK T0299 49 :SIDSKAQL 1u0sA 189 :TQLKSARI T0299 58 :EKLETFFAV 1u0sA 197 :YLVFHKLEE T0299 68 :YPFIQSFSLLSLEDFE 1u0sA 206 :LKCEVVRTIPSVEEIE T0299 94 :SRDLARKDFLFYTEGLDVDQVIATVESLE 1u0sA 222 :EEKFENEVELFVISPVDLEKLSEALSSIA T0299 124 :KDEVLYFGK 1u0sA 251 :DIERVIIKE Number of specific fragments extracted= 6 number of extra gaps= 0 total=500 Number of alignments=65 # 1u0sA read from 1u0sA/merged-good-all-a2m # found chain 1u0sA in template set T0299 22 :AELRQELTNLGLE 1u0sA 197 :YLVFHKLEELKCE T0299 46 :FFTSIDSKAQLV 1u0sA 210 :VVRTIPSVEEIE T0299 65 :AVHYPFIQSFSL 1u0sA 222 :EEKFENEVELFV T0299 78 :SLEDFEAELENLPAW 1u0sA 238 :DLEKLSEALSSIADI T0299 126 :E 1u0sA 253 :E Number of specific fragments extracted= 5 number of extra gaps= 0 total=505 Number of alignments=66 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1yqgA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1yqgA expands to /projects/compbio/data/pdb/1yqg.pdb.gz 1yqgA:Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M # T0299 read from 1yqgA/merged-good-all-a2m # 1yqgA read from 1yqgA/merged-good-all-a2m # adding 1yqgA to template set # found chain 1yqgA in template set T0299 4 :YALLVRG 1yqgA 2 :NVYFLGG T0299 21 :MAELRQELTNL 1yqgA 12 :AAAVAGGLVKQ T0299 34 :EKVESYINS 1yqgA 23 :GGYRIYIAN T0299 51 :DSKAQ 1yqgA 32 :RGAEK T0299 61 :ETFFAVHYPFIQS 1yqgA 37 :RERLEKELGVETS T0299 74 :FSLLSLEDFEAELENL 1yqgA 62 :ILAVKPQDMEAACKNI T0299 96 :DLARKDFLFYTEGLDVDQVIATVESLE 1yqgA 78 :RTNGALVLSVAAGLSVGTLSRYLGGTR T0299 126 :EVLYFGK 1yqgA 105 :RIVRVMP T0299 134 :GIFW 1yqgA 121 :VSGM T0299 140 :FSEESYSKTAYH 1yqgA 125 :YAEAEVSETDRR Number of specific fragments extracted= 10 number of extra gaps= 0 total=515 Number of alignments=67 # 1yqgA read from 1yqgA/merged-good-all-a2m # found chain 1yqgA in template set T0299 4 :YALLVRG 1yqgA 2 :NVYFLGG T0299 21 :MAELRQELTNL 1yqgA 12 :AAAVAGGLVKQ T0299 34 :EKVESYINS 1yqgA 23 :GGYRIYIAN T0299 51 :DSKAQL 1yqgA 32 :RGAEKR T0299 62 :TFFAVHYPFIQS 1yqgA 38 :ERLEKELGVETS T0299 74 :FSLLSLEDFEAELENL 1yqgA 62 :ILAVKPQDMEAACKNI T0299 96 :DLARKDFLFYTEGLDVDQVIATVESLEL 1yqgA 78 :RTNGALVLSVAAGLSVGTLSRYLGGTRR T0299 134 :GIFW 1yqgA 121 :VSGM T0299 140 :FSEESYSKT 1yqgA 125 :YAEAEVSET T0299 149 :AYHKYLL 1yqgA 136 :RIADRIM Number of specific fragments extracted= 10 number of extra gaps= 0 total=525 Number of alignments=68 # 1yqgA read from 1yqgA/merged-good-all-a2m # found chain 1yqgA in template set T0299 4 :YALLVRG 1yqgA 2 :NVYFLGG T0299 21 :MAELRQELTNL 1yqgA 12 :AAAVAGGLVKQ T0299 34 :EKVESYINS 1yqgA 23 :GGYRIYIAN T0299 51 :DSKAQ 1yqgA 32 :RGAEK T0299 61 :ETFFAVHYPFIQS 1yqgA 37 :RERLEKELGVETS T0299 74 :FSLLSLEDFEAELENL 1yqgA 62 :ILAVKPQDMEAACKNI T0299 96 :DLARKDFLFYTEGLDVDQVIATVESLEL 1yqgA 78 :RTNGALVLSVAAGLSVGTLSRYLGGTRR Number of specific fragments extracted= 7 number of extra gaps= 0 total=532 Number of alignments=69 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1bqcA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0299 read from 1bqcA/merged-good-all-a2m # 1bqcA read from 1bqcA/merged-good-all-a2m # found chain 1bqcA in training set T0299 5 :ALLVRG 1bqcA 80 :ICMLEV T0299 14 :GGKNKVVMAELRQELTNL 1bqcA 93 :EQSGASTLDQAVDYWIEL T0299 32 :GLEK 1bqcA 116 :GEED T0299 37 :ESYINSGNIFFT 1bqcA 120 :YVLINIGNEPYG T0299 49 :SIDSKAQLVEKLETFFAV 1bqcA 133 :DSATVAAWATDTSAAIQR T0299 67 :HYPFIQSFSLLS 1bqcA 153 :AAGFEHTLVVDA T0299 79 :LEDFEAELENLPA 1bqcA 176 :RNNADQVYASDPT T0299 98 :ARKDFLFYTEG 1bqcA 189 :GNTVFSIHMYG T0299 109 :LDVDQVIATVESLELKD 1bqcA 202 :SQASTITSYLEHFVNAG T0299 133 :LGIFWGKFSEES 1bqcA 219 :LPLIIGEFGHDH Number of specific fragments extracted= 10 number of extra gaps= 0 total=542 Number of alignments=70 # 1bqcA read from 1bqcA/merged-good-all-a2m # found chain 1bqcA in training set T0299 5 :ALLVR 1bqcA 80 :ICMLE T0299 14 :GGKNKVVMAELRQELTNL 1bqcA 93 :EQSGASTLDQAVDYWIEL T0299 32 :GLE 1bqcA 116 :GEE T0299 38 :SYINSGNIFFT 1bqcA 121 :VLINIGNEPYG T0299 49 :SIDSKAQLVEKLETFFAV 1bqcA 133 :DSATVAAWATDTSAAIQR T0299 67 :HYPFIQSFSLLS 1bqcA 153 :AAGFEHTLVVDA T0299 79 :LEDFEAELENLPA 1bqcA 176 :RNNADQVYASDPT T0299 98 :ARKDFLFYTEG 1bqcA 189 :GNTVFSIHMYG T0299 109 :LDVDQVIATVESLEL 1bqcA 202 :SQASTITSYLEHFVN T0299 125 :DE 1bqcA 218 :GL T0299 133 :LGIFWGKFSEE 1bqcA 220 :PLIIGEFGHDH T0299 144 :SYSKTAYHKYLLKVPFY 1bqcA 234 :NPDEDTIMAEAERLKLG Number of specific fragments extracted= 12 number of extra gaps= 0 total=554 Number of alignments=71 # 1bqcA read from 1bqcA/merged-good-all-a2m # found chain 1bqcA in training set T0299 5 :ALLVR 1bqcA 80 :ICMLE T0299 13 :VGGKNKVVMAELRQELTNL 1bqcA 92 :GEQSGASTLDQAVDYWIEL T0299 32 :GLEK 1bqcA 116 :GEED T0299 37 :ESYINSGNIFFTSID 1bqcA 120 :YVLINIGNEPYGNDS T0299 52 :SKAQLVEKLETFFAV 1bqcA 136 :TVAAWATDTSAAIQR T0299 67 :HYPFIQSFSLLS 1bqcA 153 :AAGFEHTLVVDA T0299 79 :LEDFEAELENLPAW 1bqcA 176 :RNNADQVYASDPTG T0299 100 :KDFLFYTEG 1bqcA 190 :NTVFSIHMY T0299 109 :LDVDQVIATVE 1bqcA 202 :SQASTITSYLE Number of specific fragments extracted= 9 number of extra gaps= 0 total=563 Number of alignments=72 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1fxlA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0299 read from 1fxlA/merged-good-all-a2m # 1fxlA read from 1fxlA/merged-good-all-a2m # found chain 1fxlA in training set T0299 11 :INVGGKN 1fxlA 43 :VNYLPQN T0299 19 :VVMAELRQELTNL 1fxlA 50 :MTQEEFRSLFGSI T0299 32 :GLEKVESYI 1fxlA 64 :EIESCKLVR T0299 41 :NSGNIFFTS 1fxlA 79 :SLGYGFVNY T0299 51 :DSKA 1fxlA 88 :IDPK T0299 59 :KLETFFAVHYPFIQ 1fxlA 92 :DAEKAINTLNGLRL T0299 73 :SFSLLSL 1fxlA 109 :TIKVSYA T0299 89 :LPA 1fxlA 116 :RPS T0299 94 :SRDLARKDFLF 1fxlA 119 :SASIRDANLYV T0299 105 :YTEGLDVDQVIATVESLEL 1fxlA 132 :LPKTMTQKELEQLFSQYGR T0299 124 :KDEVLYFGK 1fxlA 152 :ITSRILVDQ T0299 133 :LGIFW 1fxlA 167 :GVGFI T0299 140 :FSEESYSKTAYHKYLLKVPF 1fxlA 172 :RFDKRIEAEEAIKGLNGQKP Number of specific fragments extracted= 13 number of extra gaps= 0 total=576 Number of alignments=73 # 1fxlA read from 1fxlA/merged-good-all-a2m # found chain 1fxlA in training set T0299 12 :NVGGKN 1fxlA 44 :NYLPQN T0299 19 :VVMAELRQELTNL 1fxlA 50 :MTQEEFRSLFGSI T0299 32 :GLEKVESYI 1fxlA 64 :EIESCKLVR T0299 41 :NSGNIFFTSIDSK 1fxlA 79 :SLGYGFVNYIDPK T0299 59 :KLETFFAVHYPFIQ 1fxlA 92 :DAEKAINTLNGLRL T0299 73 :SFSLLS 1fxlA 109 :TIKVSY T0299 89 :LPAWWSRDLARKDFLFYTEGLDVDQVIATVESLEL 1fxlA 116 :RPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGR T0299 124 :KDEVLYFGK 1fxlA 152 :ITSRILVDQ T0299 133 :LGIFW 1fxlA 167 :GVGFI T0299 140 :FSEESYSKTAYHKYLLKVPF 1fxlA 172 :RFDKRIEAEEAIKGLNGQKP Number of specific fragments extracted= 10 number of extra gaps= 0 total=586 Number of alignments=74 # 1fxlA read from 1fxlA/merged-good-all-a2m # found chain 1fxlA in training set T0299 11 :INVGGKN 1fxlA 43 :VNYLPQN T0299 19 :VVMAELRQELTNLG 1fxlA 50 :MTQEEFRSLFGSIG T0299 33 :LEKVESYI 1fxlA 65 :IESCKLVR T0299 41 :NSGNIFFTSIDSK 1fxlA 79 :SLGYGFVNYIDPK T0299 59 :KLETFFAVHYPFIQ 1fxlA 92 :DAEKAINTLNGLRL T0299 73 :SFSLLSL 1fxlA 109 :TIKVSYA T0299 89 :LPAW 1fxlA 116 :RPSS T0299 95 :RDLARKDFLF 1fxlA 120 :ASIRDANLYV T0299 105 :YTEGLDVDQVIATVESLELKDEVLYFG 1fxlA 132 :LPKTMTQKELEQLFSQYGRIITSRILV T0299 132 :KLGIFWGKFSEE 1fxlA 166 :RGVGFIRFDKRI Number of specific fragments extracted= 10 number of extra gaps= 0 total=596 Number of alignments=75 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ispA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0299 read from 1ispA/merged-good-all-a2m # 1ispA read from 1ispA/merged-good-all-a2m # found chain 1ispA in training set T0299 5 :ALLVRGI 1ispA 6 :VVMVHGI T0299 14 :GGKN 1ispA 13 :GGAS T0299 21 :MAELRQELTNLGLEKVESYI 1ispA 19 :FAGIKSYLVSQGWSRDKLYA T0299 45 :IFFTSID 1ispA 39 :VDFWDKT T0299 52 :SK 1ispA 47 :TN T0299 54 :AQLVEKLETFFAVHYPFIQSFSLLSL 1ispA 53 :PVLSRFVQKVLDETGAKKVDIVAHSM T0299 82 :FEAELENLPAWWS 1ispA 83 :TLYYIKNLDGGNK T0299 101 :DFLFY 1ispA 98 :NVVTL Number of specific fragments extracted= 8 number of extra gaps= 0 total=604 Number of alignments=76 # 1ispA read from 1ispA/merged-good-all-a2m # found chain 1ispA in training set T0299 5 :ALLVRGINVGGKN 1ispA 6 :VVMVHGIGGASFN T0299 21 :MAELRQELTNLGLEKVESYI 1ispA 19 :FAGIKSYLVSQGWSRDKLYA T0299 45 :IFFTSID 1ispA 39 :VDFWDKT T0299 53 :KAQLVEKLETFFAVHYPFIQSFSLLSL 1ispA 52 :GPVLSRFVQKVLDETGAKKVDIVAHSM T0299 85 :ELENLPAWWS 1ispA 86 :YIKNLDGGNK T0299 95 :RDLARKDFLFYTEG 1ispA 118 :DPNQKILYTSIYSS T0299 109 :LDVDQ 1ispA 136 :VMNYL T0299 121 :LELKDEVL 1ispA 141 :SRLDGARN T0299 140 :FSEESYSKTAYHK 1ispA 149 :VQIHGVGHIGLLY T0299 167 :NAKTFDKIGQMLK 1ispA 162 :SSQVNSLIKEGLN Number of specific fragments extracted= 10 number of extra gaps= 0 total=614 Number of alignments=77 # 1ispA read from 1ispA/merged-good-all-a2m # found chain 1ispA in training set T0299 5 :ALLVRGINVGGKN 1ispA 6 :VVMVHGIGGASFN T0299 21 :MAELRQELTNLGLEKVESYIN 1ispA 19 :FAGIKSYLVSQGWSRDKLYAV T0299 46 :FFTSID 1ispA 40 :DFWDKT T0299 52 :SKAQ 1ispA 47 :TNYN T0299 56 :LVEKLETFFAVHYPFIQSFSLLSL 1ispA 55 :LSRFVQKVLDETGAKKVDIVAHSM T0299 82 :FEAELENL 1ispA 83 :TLYYIKNL T0299 96 :DLARKDFLFYTEG 1ispA 91 :DGGNKVANVVTLG Number of specific fragments extracted= 7 number of extra gaps= 0 total=621 Number of alignments=78 # command:Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0299//projects/compbio/experiments/protein-predict/casp7/T0299/align.constraints_v3.costfcn or /projects/compbio/experiments/protein-predict/casp7/T0299//projects/compbio/experiments/protein-predict/casp7/T0299/align.constraints_v3.costfcn.gz for input Trying /projects/compbio/experiments/protein-predict/casp7/T0299/align.constraints_v3.costfcn # reading script from file /projects/compbio/experiments/protein-predict/casp7/T0299/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((T0299)F74.CB, (T0299)L103.CB) [> 3.7289 = 6.2148 < 8.0792] w=1.0000 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)Y39.CB) [> 3.6221 = 6.0367 < 7.8478] w=0.9115 to align # Constraint # added constraint: constraint((T0299)S75.CB, (T0299)F102.CB) [> 4.0207 = 6.7011 < 8.7115] w=0.9044 to align # Constraint # added constraint: constraint((T0299)R25.CB, (T0299)S38.CB) [> 3.5915 = 5.9858 < 7.7815] w=0.8667 to align # Constraint # added constraint: constraint((T0299)L76.CB, (T0299)F102.CB) [> 3.4728 = 5.7881 < 7.5245] w=0.8380 to align # Constraint # added constraint: constraint((T0299)S75.CB, (T0299)L103.CB) [> 3.4401 = 5.7334 < 7.4535] w=0.8350 to align # Constraint # added constraint: constraint((T0299)F74.CB, (T0299)F102.CB) [> 3.6451 = 6.0751 < 7.8976] w=0.8333 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)E37.CB) [> 4.1594 = 6.9324 < 9.0120] w=0.8194 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)Y39.CB) [> 3.9463 = 6.5772 < 8.5503] w=0.8071 to align # Constraint # added constraint: constraint((T0299)F74.CB, (T0299)D101.CB) [> 3.8635 = 6.4391 < 8.3709] w=0.7958 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)S38.CB) [> 3.7935 = 6.3224 < 8.2191] w=0.7777 to align # Constraint # added constraint: constraint((T0299)S75.CB, (T0299)F104.CB) [> 3.9806 = 6.6343 < 8.6246] w=0.7649 to align # Constraint # added constraint: constraint((T0299)S73.CB, (T0299)L103.CB) [> 3.8605 = 6.4342 < 8.3645] w=0.7087 to align # Constraint # added constraint: constraint((T0299)Y39.CB, (T0299)Q72.CB) [> 3.6844 = 6.1406 < 7.9828] w=0.7061 to align # Constraint # added constraint: constraint((T0299)Y39.CB, (T0299)S73.CB) [> 3.6719 = 6.1199 < 7.9558] w=0.6936 to align # Constraint # added constraint: constraint((T0299)L76.CB, (T0299)Y105.CB) [> 3.7683 = 6.2805 < 8.1647] w=0.6847 to align # Constraint # added constraint: constraint((T0299)L76.CB, (T0299)L103.CB) [> 4.1121 = 6.8535 < 8.9095] w=0.6769 to align # Constraint # added constraint: constraint((T0299)L76.CB, (T0299)F104.CB) [> 3.9114 = 6.5189 < 8.4746] w=0.6607 to align # Constraint # added constraint: constraint((T0299)S73.CB, (T0299)D101.CB) [> 3.4662 = 5.7769 < 7.5100] w=0.6324 to align # Constraint # added constraint: constraint((T0299)V57.CB, (T0299)E85.CB) [> 3.6501 = 6.0835 < 7.9086] w=0.6193 to align # Constraint # added constraint: constraint((T0299)S75.CB, (T0299)D101.CB) [> 3.6966 = 6.1610 < 8.0094] w=0.6122 to align # Constraint # added constraint: constraint((T0299)L77.CB, (T0299)T106.CB) [> 3.5050 = 5.8416 < 7.5941] w=0.6063 to align # Constraint # added constraint: constraint((T0299)S73.CB, (T0299)F102.CB) [> 3.8999 = 6.4999 < 8.4498] w=0.6061 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)I40.CB) [> 3.5468 = 5.9114 < 7.6848] w=0.6042 to align # Constraint # added constraint: constraint((T0299)S78.CB, (T0299)T106.CB) [> 3.8187 = 6.3645 < 8.2739] w=0.5946 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)L24.CB) [> 3.8833 = 6.4722 < 8.4139] w=0.5930 to align # Constraint # added constraint: constraint((T0299)S38.CB, (T0299)Q72.CB) [> 3.7587 = 6.2646 < 8.1440] w=0.5925 to align # Constraint # added constraint: constraint((T0299)F64.CB, (T0299)F74.CB) [> 3.7949 = 6.3249 < 8.2224] w=0.5924 to align # Constraint # added constraint: constraint((T0299)S75.CB, (T0299)Y105.CB) [> 3.9129 = 6.5215 < 8.4779] w=0.5908 to align # Constraint # added constraint: constraint((T0299)S42.CB, (T0299)L76.CB) [> 3.3373 = 5.5623 < 7.2309] w=0.5801 to align # Constraint # added constraint: constraint((T0299)Y39.CB, (T0299)F74.CB) [> 4.2925 = 7.1541 < 9.3003] w=0.5764 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)E37.CB) [> 3.2880 = 5.4800 < 7.1240] w=0.5746 to align # Constraint # added constraint: constraint((T0299)L76.CB, (T0299)D101.CB) [> 4.1061 = 6.8435 < 8.8965] w=0.5706 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)N41.CB) [> 3.7859 = 6.3098 < 8.2027] w=0.5651 to align # Constraint # added constraint: constraint((T0299)L79.CB, (T0299)E107.CB) [> 3.3102 = 5.5170 < 7.1721] w=0.5648 to align # Constraint # added constraint: constraint((T0299)S38.CB, (T0299)S73.CB) [> 3.7459 = 6.2431 < 8.1160] w=0.5630 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)F74.CB) [> 3.6897 = 6.1495 < 7.9944] w=0.5623 to align # Constraint # added constraint: constraint((T0299)L60.CB, (T0299)F74.CB) [> 3.7449 = 6.2415 < 8.1140] w=0.5618 to align # Constraint # added constraint: constraint((T0299)F74.CB, (T0299)K100.CB) [> 3.4352 = 5.7253 < 7.4429] w=0.5574 to align # Constraint # added constraint: constraint((T0299)V57.CB, (T0299)F74.CB) [> 3.9640 = 6.6067 < 8.5887] w=0.5508 to align # Constraint # added constraint: constraint((T0299)S78.CB, (T0299)E107.CB) [> 3.9806 = 6.6344 < 8.6247] w=0.5482 to align # Constraint # added constraint: constraint((T0299)F46.CB, (T0299)L77.CB) [> 4.0363 = 6.7271 < 8.7452] w=0.5456 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)I40.CB) [> 4.1915 = 6.9858 < 9.0816] w=0.5407 to align # Constraint # added constraint: constraint((T0299)I40.CB, (T0299)S73.CB) [> 4.5063 = 7.5104 < 9.7636] w=0.5337 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)L77.CB) [> 3.2733 = 5.4554 < 7.0921] w=0.5279 to align # Constraint # added constraint: constraint((T0299)S73.CB, (T0299)K100.CB) [> 3.9612 = 6.6020 < 8.5826] w=0.5247 to align # Constraint # added constraint: constraint((T0299)L28.CB, (T0299)S38.CB) [> 3.2584 = 5.4306 < 7.0598] w=0.5185 to align # Constraint # added constraint: constraint((T0299)K53.CB, (T0299)E85.CB) [> 3.5555 = 5.9258 < 7.7036] w=0.5169 to align # Constraint # added constraint: constraint((T0299)L86.CB, (T0299)F102.CB) [> 4.0973 = 6.8288 < 8.8775] w=0.5161 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)V36.CB) [> 3.4883 = 5.8138 < 7.5580] w=0.5155 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)M21.CB) [> 3.2906 = 5.4843 < 7.1295] w=0.5113 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)L28.CB) [> 3.8350 = 6.3917 < 8.3091] w=0.5113 to align # Constraint # added constraint: constraint((T0299)L77.CB, (T0299)Y105.CB) [> 3.5257 = 5.8762 < 7.6391] w=0.5075 to align # Constraint # added constraint: constraint((T0299)L86.CB, (T0299)L97.CB) [> 3.1412 = 5.2353 < 6.8059] w=0.5018 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)Y39.CB) [> 3.7449 = 6.2415 < 8.1139] w=0.4964 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)S38.CB) [> 3.4852 = 5.8087 < 7.5512] w=0.4964 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)I40.CB) [> 3.8923 = 6.4872 < 8.4334] w=0.4865 to align # Constraint # added constraint: constraint((T0299)L56.CB, (T0299)E85.CB) [> 3.5275 = 5.8792 < 7.6429] w=0.4827 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)F74.CB) [> 3.9863 = 6.6438 < 8.6369] w=0.4822 to align # Constraint # added constraint: constraint((T0299)I40.CB, (T0299)F74.CB) [> 3.1792 = 5.2986 < 6.8882] w=0.4723 to align # Constraint # added constraint: constraint((T0299)I40.CB, (T0299)S75.CB) [> 4.1670 = 6.9449 < 9.0284] w=0.4723 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)L76.CB) [> 4.3039 = 7.1732 < 9.3252] w=0.4723 to align # Constraint # added constraint: constraint((T0299)Y105.CB, (T0299)V114.CB) [> 3.4983 = 5.8305 < 7.5796] w=0.4699 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)I40.CB) [> 3.9859 = 6.6432 < 8.6362] w=0.4680 to align # Constraint # added constraint: constraint((T0299)S78.CB, (T0299)Y105.CB) [> 4.0815 = 6.8025 < 8.8433] w=0.4661 to align # Constraint # added constraint: constraint((T0299)L77.CB, (T0299)F104.CB) [> 3.8126 = 6.3543 < 8.2606] w=0.4645 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)R25.CB) [> 3.9193 = 6.5321 < 8.4917] w=0.4590 to align # Constraint # added constraint: constraint((T0299)I40.CB, (T0299)Q72.CB) [> 3.5046 = 5.8411 < 7.5934] w=0.4589 to align # Constraint # added constraint: constraint((T0299)F82.CB, (T0299)L121.CB) [> 3.8551 = 6.4251 < 8.3527] w=0.4571 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)L33.CB) [> 3.5648 = 5.9413 < 7.7237] w=0.4533 to align # Constraint # added constraint: constraint((T0299)Q72.CB, (T0299)D101.CB) [> 3.2172 = 5.3620 < 6.9707] w=0.4498 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)F74.CB) [> 3.7777 = 6.2962 < 8.1851] w=0.4470 to align # Constraint # added constraint: constraint((T0299)L86.CB, (T0299)A98.CB) [> 4.3988 = 7.3314 < 9.5308] w=0.4465 to align # Constraint # added constraint: constraint((T0299)I40.CB, (T0299)L103.CB) [> 3.8686 = 6.4477 < 8.3820] w=0.4449 to align # Constraint # added constraint: constraint((T0299)T48.CB, (T0299)L77.CB) [> 3.7909 = 6.3182 < 8.2136] w=0.4448 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)L76.CB) [> 3.3371 = 5.5619 < 7.2304] w=0.4424 to align # Constraint # added constraint: constraint((T0299)E37.CB, (T0299)Q72.CB) [> 3.6729 = 6.1215 < 7.9579] w=0.4390 to align # Constraint # added constraint: constraint((T0299)L97.CB, (T0299)L121.CB) [> 3.4970 = 5.8284 < 7.5769] w=0.4384 to align # Constraint # added constraint: constraint((T0299)Y39.CB, (T0299)I71.CB) [> 3.1560 = 5.2601 < 6.8381] w=0.4358 to align # Constraint # added constraint: constraint((T0299)F74.CB, (T0299)F104.CB) [> 3.5389 = 5.8981 < 7.6676] w=0.4337 to align # Constraint # added constraint: constraint((T0299)Y4.CB, (T0299)V36.CB) [> 4.1157 = 6.8594 < 8.9173] w=0.4309 to align # Constraint # added constraint: constraint((T0299)Y4.CB, (T0299)E37.CB) [> 3.1166 = 5.1944 < 6.7527] w=0.4309 to align # Constraint # added constraint: constraint((T0299)E61.CB, (T0299)F74.CB) [> 3.7181 = 6.1968 < 8.0558] w=0.4264 to align # Constraint # added constraint: constraint((T0299)E83.CB, (T0299)L121.CB) [> 3.6688 = 6.1146 < 7.9490] w=0.4250 to align # Constraint # added constraint: constraint((T0299)T29.CB, (T0299)S38.CB) [> 3.9883 = 6.6472 < 8.6413] w=0.4247 to align # Constraint # added constraint: constraint((T0299)F82.CB, (T0299)F102.CB) [> 3.6310 = 6.0516 < 7.8671] w=0.4242 to align # Constraint # added constraint: constraint((T0299)F104.CB, (T0299)V118.CB) [> 3.2566 = 5.4277 < 7.0560] w=0.4240 to align # Constraint # added constraint: constraint((T0299)S38.CB, (T0299)F74.CB) [> 3.7490 = 6.2483 < 8.1227] w=0.4226 to align # Constraint # added constraint: constraint((T0299)N44.CB, (T0299)L77.CB) [> 3.7437 = 6.2395 < 8.1114] w=0.4201 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)N41.CB) [> 3.6543 = 6.0905 < 7.9176] w=0.4199 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)S75.CB) [> 3.5747 = 5.9579 < 7.7453] w=0.4196 to align # Constraint # added constraint: constraint((T0299)R25.CB, (T0299)V36.CB) [> 3.0931 = 5.1552 < 6.7018] w=0.4180 to align # Constraint # added constraint: constraint((T0299)M21.CB, (T0299)S38.CB) [> 3.3582 = 5.5971 < 7.2762] w=0.4180 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)N41.CB) [> 3.4985 = 5.8309 < 7.5802] w=0.4165 to align # Constraint # added constraint: constraint((T0299)L103.CB, (T0299)I135.CB) [> 4.3449 = 7.2415 < 9.4139] w=0.4149 to align # Constraint # added constraint: constraint((T0299)S73.CB, (T0299)F104.CB) [> 3.4294 = 5.7157 < 7.4304] w=0.4142 to align # Constraint # added constraint: constraint((T0299)L60.CB, (T0299)E85.CB) [> 3.8446 = 6.4077 < 8.3300] w=0.4120 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)L76.CB) [> 3.9373 = 6.5622 < 8.5309] w=0.4119 to align # Constraint # added constraint: constraint((T0299)V127.CB, (T0299)F136.CB) [> 3.3029 = 5.5048 < 7.1562] w=0.4104 to align # Constraint # added constraint: constraint((T0299)Q72.CB, (T0299)L103.CB) [> 3.7138 = 6.1896 < 8.0465] w=0.4095 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)S75.CB) [> 4.3038 = 7.1731 < 9.3250] w=0.4088 to align # Constraint # added constraint: constraint((T0299)F82.CB, (T0299)Y105.CB) [> 3.6087 = 6.0145 < 7.8189] w=0.4061 to align # Constraint # added constraint: constraint((T0299)S42.CB, (T0299)L77.CB) [> 3.6695 = 6.1158 < 7.9505] w=0.4010 to align # Constraint # added constraint: constraint((T0299)L79.CB, (T0299)T106.CB) [> 3.2909 = 5.4848 < 7.1303] w=0.4006 to align # Constraint # added constraint: constraint((T0299)F64.CB, (T0299)L76.CB) [> 3.5628 = 5.9380 < 7.7194] w=0.3991 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)S75.CB) [> 3.5001 = 5.8336 < 7.5837] w=0.3929 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)M21.CB) [> 3.5752 = 5.9587 < 7.7463] w=0.3913 to align # Constraint # added constraint: constraint((T0299)S42.CB, (T0299)F64.CB) [> 4.6001 = 7.6669 < 9.9669] w=0.3912 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)E37.CB) [> 3.9399 = 6.5665 < 8.5364] w=0.3906 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)V36.CB) [> 3.7449 = 6.2415 < 8.1140] w=0.3906 to align # Constraint # added constraint: constraint((T0299)F46.CB, (T0299)L76.CB) [> 3.3651 = 5.6085 < 7.2911] w=0.3894 to align # Constraint # added constraint: constraint((T0299)L79.CB, (T0299)T117.CB) [> 3.3921 = 5.6535 < 7.3495] w=0.3883 to align # Constraint # added constraint: constraint((T0299)L77.CB, (T0299)L103.CB) [> 3.2002 = 5.3337 < 6.9338] w=0.3867 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)S38.CB) [> 3.9167 = 6.5279 < 8.4863] w=0.3819 to align # Constraint # added constraint: constraint((T0299)F104.CB, (T0299)F136.CB) [> 4.2551 = 7.0919 < 9.2194] w=0.3803 to align # Constraint # added constraint: constraint((T0299)F104.CB, (T0299)G134.CA) [> 3.9584 = 6.5973 < 8.5765] w=0.3788 to align # Constraint # added constraint: constraint((T0299)S78.CB, (T0299)F104.CB) [> 3.4775 = 5.7958 < 7.5346] w=0.3748 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)S73.CB) [> 3.3167 = 5.5279 < 7.1862] w=0.3686 to align # Constraint # added constraint: constraint((T0299)E126.CB, (T0299)W137.CB) [> 3.6021 = 6.0035 < 7.8046] w=0.3681 to align # Constraint # added constraint: constraint((T0299)L24.CB, (T0299)S38.CB) [> 4.0426 = 6.7377 < 8.7591] w=0.3673 to align # Constraint # added constraint: constraint((T0299)E83.CB, (T0299)T117.CB) [> 3.4044 = 5.6740 < 7.3762] w=0.3664 to align # Constraint # added constraint: constraint((T0299)Y105.CB, (T0299)V118.CB) [> 4.1429 = 6.9048 < 8.9763] w=0.3658 to align # Constraint # added constraint: constraint((T0299)F47.CB, (T0299)L56.CB) [> 3.6148 = 6.0246 < 7.8320] w=0.3645 to align # Constraint # added constraint: constraint((T0299)F74.CB, (T0299)Y105.CB) [> 4.0169 = 6.6948 < 8.7033] w=0.3644 to align # Constraint # added constraint: constraint((T0299)F104.CB, (T0299)I135.CB) [> 3.0910 = 5.1516 < 6.6971] w=0.3642 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)S75.CB) [> 3.5713 = 5.9522 < 7.7379] w=0.3622 to align # Constraint # added constraint: constraint((T0299)L77.CB, (T0299)F102.CB) [> 4.0652 = 6.7754 < 8.8080] w=0.3618 to align # Constraint # added constraint: constraint((T0299)L76.CB, (T0299)K100.CB) [> 3.8437 = 6.4061 < 8.3279] w=0.3615 to align # Constraint # added constraint: constraint((T0299)E37.CB, (T0299)I71.CB) [> 4.3849 = 7.3082 < 9.5007] w=0.3607 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)Y39.CB) [> 3.5781 = 5.9636 < 7.7526] w=0.3607 to align # Constraint # added constraint: constraint((T0299)L77.CB, (T0299)E107.CB) [> 3.9154 = 6.5257 < 8.4834] w=0.3603 to align # Constraint # added constraint: constraint((T0299)Y105.CB, (T0299)I135.CB) [> 4.0683 = 6.7805 < 8.8147] w=0.3569 to align # Constraint # added constraint: constraint((T0299)L103.CB, (T0299)G134.CA) [> 3.3841 = 5.6402 < 7.3323] w=0.3542 to align # Constraint # added constraint: constraint((T0299)Y39.CB, (T0299)L103.CB) [> 4.2962 = 7.1604 < 9.3085] w=0.3540 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)L76.CB) [> 4.0884 = 6.8140 < 8.8583] w=0.3534 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)N41.CB) [> 3.8972 = 6.4953 < 8.4438] w=0.3510 to align # Constraint # added constraint: constraint((T0299)F64.CB, (T0299)S73.CB) [> 4.1350 = 6.8917 < 8.9591] w=0.3509 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)F47.CB) [> 4.2374 = 7.0623 < 9.1810] w=0.3500 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)S78.CB) [> 4.4337 = 7.3894 < 9.6062] w=0.3488 to align # Constraint # added constraint: constraint((T0299)Y39.CB, (T0299)L56.CB) [> 3.7855 = 6.3092 < 8.2019] w=0.3458 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)L56.CB) [> 3.9013 = 6.5022 < 8.4528] w=0.3455 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)K59.CB) [> 3.4795 = 5.7991 < 7.5389] w=0.3455 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)L60.CB) [> 3.5059 = 5.8432 < 7.5961] w=0.3455 to align # Constraint # added constraint: constraint((T0299)S42.CB, (T0299)S75.CB) [> 4.2688 = 7.1147 < 9.2492] w=0.3454 to align # Constraint # added constraint: constraint((T0299)V118.CB, (T0299)V127.CB) [> 3.6766 = 6.1277 < 7.9661] w=0.3424 to align # Constraint # added constraint: constraint((T0299)Y39.CB, (T0299)S75.CB) [> 3.2794 = 5.4656 < 7.1053] w=0.3423 to align # Constraint # added constraint: constraint((T0299)F104.CB, (T0299)W137.CB) [> 3.9932 = 6.6554 < 8.6520] w=0.3396 to align # Constraint # added constraint: constraint((T0299)S75.CB, (T0299)K100.CB) [> 4.2573 = 7.0956 < 9.2242] w=0.3386 to align # Constraint # added constraint: constraint((T0299)Q72.CB, (T0299)K100.CB) [> 3.6758 = 6.1263 < 7.9641] w=0.3376 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)S38.CB) [> 4.1631 = 6.9384 < 9.0200] w=0.3362 to align # Constraint # added constraint: constraint((T0299)E61.CB, (T0299)Q72.CB) [> 3.1716 = 5.2860 < 6.8718] w=0.3345 to align # Constraint # added constraint: constraint((T0299)E126.CB, (T0299)F136.CB) [> 3.4966 = 5.8276 < 7.5759] w=0.3326 to align # Constraint # added constraint: constraint((T0299)Y105.CB, (T0299)W137.CB) [> 4.2822 = 7.1370 < 9.2781] w=0.3321 to align # Constraint # added constraint: constraint((T0299)V118.CB, (T0299)F140.CB) [> 2.9390 = 4.8984 < 6.3679] w=0.3319 to align # Constraint # added constraint: constraint((T0299)S42.CB, (T0299)F63.CB) [> 3.2344 = 5.3906 < 7.0078] w=0.3299 to align # Constraint # added constraint: constraint((T0299)L76.CB, (T0299)L97.CB) [> 4.2371 = 7.0618 < 9.1804] w=0.3289 to align # Constraint # added constraint: constraint((T0299)L76.CB, (T0299)T106.CB) [> 4.0326 = 6.7210 < 8.7373] w=0.3282 to align # Constraint # added constraint: constraint((T0299)S38.CB, (T0299)I71.CB) [> 4.1998 = 6.9996 < 9.0995] w=0.3280 to align # Constraint # added constraint: constraint((T0299)F82.CB, (T0299)T106.CB) [> 4.1039 = 6.8398 < 8.8918] w=0.3278 to align # Constraint # added constraint: constraint((T0299)M21.CB, (T0299)I40.CB) [> 3.6509 = 6.0848 < 7.9102] w=0.3256 to align # Constraint # added constraint: constraint((T0299)L60.CB, (T0299)Q72.CB) [> 3.8985 = 6.4974 < 8.4467] w=0.3240 to align # Constraint # added constraint: constraint((T0299)F46.CB, (T0299)S75.CB) [> 4.4171 = 7.3619 < 9.5704] w=0.3239 to align # Constraint # added constraint: constraint((T0299)T48.CB, (T0299)S78.CB) [> 3.5713 = 5.9522 < 7.7378] w=0.3224 to align # Constraint # added constraint: constraint((T0299)F64.CB, (T0299)R99.CB) [> 3.9507 = 6.5845 < 8.5599] w=0.3223 to align # Constraint # added constraint: constraint((T0299)S42.CB, (T0299)Y105.CB) [> 3.5187 = 5.8645 < 7.6239] w=0.3217 to align # Constraint # added constraint: constraint((T0299)L86.CB, (T0299)R99.CB) [> 3.2997 = 5.4995 < 7.1493] w=0.3192 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)L77.CB) [> 3.6883 = 6.1471 < 7.9913] w=0.3176 to align # Constraint # added constraint: constraint((T0299)L103.CB, (T0299)V118.CB) [> 4.2470 = 7.0783 < 9.2018] w=0.3152 to align # Constraint # added constraint: constraint((T0299)F47.CB, (T0299)S75.CB) [> 3.5391 = 5.8985 < 7.6680] w=0.3152 to align # Constraint # added constraint: constraint((T0299)L24.CB, (T0299)V36.CB) [> 3.9476 = 6.5794 < 8.5532] w=0.3124 to align # Constraint # added constraint: constraint((T0299)Y4.CB, (T0299)Y39.CB) [> 4.0510 = 6.7517 < 8.7772] w=0.3110 to align # Constraint # added constraint: constraint((T0299)I11.CB, (T0299)N41.CB) [> 4.4107 = 7.3512 < 9.5565] w=0.3109 to align # Constraint # added constraint: constraint((T0299)V57.CB, (T0299)L89.CB) [> 3.2690 = 5.4484 < 7.0829] w=0.3103 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)S73.CB) [> 3.6910 = 6.1517 < 7.9972] w=0.3103 to align # Constraint # added constraint: constraint((T0299)L24.CB, (T0299)L76.CB) [> 3.8930 = 6.4883 < 8.4348] w=0.3089 to align # Constraint # added constraint: constraint((T0299)F102.CB, (T0299)L121.CB) [> 4.0414 = 6.7357 < 8.7564] w=0.3066 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)G43.CA) [> 3.0765 = 5.1275 < 6.6658] w=0.3052 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)F74.CB) [> 3.9085 = 6.5142 < 8.4684] w=0.3039 to align # Constraint # added constraint: constraint((T0299)F102.CB, (T0299)I135.CB) [> 3.9214 = 6.5357 < 8.4964] w=0.3032 to align # Constraint # added constraint: constraint((T0299)F102.CB, (T0299)G134.CA) [> 3.7645 = 6.2741 < 8.1564] w=0.3032 to align # Constraint # added constraint: constraint((T0299)I40.CB, (T0299)L76.CB) [> 3.7023 = 6.1705 < 8.0216] w=0.3024 to align # Constraint # added constraint: constraint((T0299)M21.CB, (T0299)E37.CB) [> 4.1672 = 6.9453 < 9.0289] w=0.2997 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)L28.CB) [> 4.0807 = 6.8011 < 8.8414] w=0.2974 to align # Constraint # added constraint: constraint((T0299)E126.CB, (T0299)G138.CA) [> 3.2827 = 5.4712 < 7.1125] w=0.2953 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)Y39.CB) [> 3.9530 = 6.5884 < 8.5649] w=0.2952 to align # Constraint # added constraint: constraint((T0299)I115.CB, (T0299)F140.CB) [> 3.1407 = 5.2346 < 6.8049] w=0.2949 to align # Constraint # added constraint: constraint((T0299)I11.CB, (T0299)G43.CA) [> 3.8112 = 6.3520 < 8.2577] w=0.2937 to align # Constraint # added constraint: constraint((T0299)L60.CB, (T0299)S75.CB) [> 3.6029 = 6.0048 < 7.8063] w=0.2908 to align # Constraint # added constraint: constraint((T0299)L77.CB, (T0299)D101.CB) [> 4.5135 = 7.5225 < 9.7792] w=0.2905 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)Q72.CB) [> 3.6252 = 6.0419 < 7.8545] w=0.2887 to align # Constraint # added constraint: constraint((T0299)L86.CB, (T0299)L121.CB) [> 3.4156 = 5.6927 < 7.4005] w=0.2876 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)V36.CB) [> 3.7294 = 6.2156 < 8.0803] w=0.2868 to align # Constraint # added constraint: constraint((T0299)Y105.CB, (T0299)F136.CB) [> 3.5811 = 5.9684 < 7.7590] w=0.2857 to align # Constraint # added constraint: constraint((T0299)F104.CB, (T0299)F130.CB) [> 4.1445 = 6.9075 < 8.9798] w=0.2848 to align # Constraint # added constraint: constraint((T0299)F47.CB, (T0299)L77.CB) [> 3.0440 = 5.0733 < 6.5953] w=0.2848 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)L24.CB) [> 4.2044 = 7.0074 < 9.1096] w=0.2839 to align # Constraint # added constraint: constraint((T0299)L28.CB, (T0299)S42.CB) [> 3.6892 = 6.1486 < 7.9932] w=0.2829 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)Y105.CB) [> 3.8849 = 6.4748 < 8.4173] w=0.2816 to align # Constraint # added constraint: constraint((T0299)L79.CB, (T0299)G108.CA) [> 3.5307 = 5.8844 < 7.6498] w=0.2814 to align # Constraint # added constraint: constraint((T0299)L86.CB, (T0299)K100.CB) [> 3.6457 = 6.0761 < 7.8990] w=0.2812 to align # Constraint # added constraint: constraint((T0299)S75.CB, (T0299)T106.CB) [> 3.8326 = 6.3877 < 8.3040] w=0.2801 to align # Constraint # added constraint: constraint((T0299)Y105.CB, (T0299)Y145.CB) [> 3.6197 = 6.0328 < 7.8426] w=0.2787 to align # Constraint # added constraint: constraint((T0299)F102.CB, (T0299)V127.CB) [> 3.7825 = 6.3041 < 8.1954] w=0.2773 to align # Constraint # added constraint: constraint((T0299)L121.CB, (T0299)G134.CA) [> 3.7682 = 6.2804 < 8.1645] w=0.2773 to align # Constraint # added constraint: constraint((T0299)Y105.CB, (T0299)G134.CA) [> 3.8588 = 6.4313 < 8.3607] w=0.2768 to align # Constraint # added constraint: constraint((T0299)M21.CB, (T0299)L76.CB) [> 2.8812 = 4.8019 < 6.2425] w=0.2737 to align # Constraint # added constraint: constraint((T0299)N12.CB, (T0299)G43.CA) [> 3.6972 = 6.1620 < 8.0106] w=0.2723 to align # Constraint # added constraint: constraint((T0299)E27.CB, (T0299)K147.CB) [> 2.8231 = 4.7052 < 6.1168] w=0.2721 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)S38.CB) [> 4.6368 = 7.7280 < 10.0464] w=0.2707 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)I45.CB) [> 3.9367 = 6.5612 < 8.5296] w=0.2691 to align # Constraint # added constraint: constraint((T0299)V127.CB, (T0299)G138.CA) [> 3.8563 = 6.4271 < 8.3552] w=0.2687 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)L77.CB) [> 3.8841 = 6.4735 < 8.4155] w=0.2687 to align # Constraint # added constraint: constraint((T0299)T106.CB, (T0299)V118.CB) [> 4.2768 = 7.1280 < 9.2664] w=0.2658 to align # Constraint # added constraint: constraint((T0299)S73.CB, (T0299)T106.CB) [> 3.9697 = 6.6162 < 8.6010] w=0.2656 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)Q72.CB) [> 3.5287 = 5.8812 < 7.6455] w=0.2656 to align # Constraint # added constraint: constraint((T0299)F64.CB, (T0299)L89.CB) [> 3.7259 = 6.2098 < 8.0728] w=0.2652 to align # Constraint # added constraint: constraint((T0299)I11.CB, (T0299)F46.CB) [> 3.6423 = 6.0706 < 7.8917] w=0.2620 to align # Constraint # added constraint: constraint((T0299)S141.CB, (T0299)Y150.CB) [> 3.8847 = 6.4745 < 8.4169] w=0.2610 to align # Constraint # added constraint: constraint((T0299)S42.CB, (T0299)L60.CB) [> 3.7872 = 6.3121 < 8.2057] w=0.2580 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)L77.CB) [> 3.5738 = 5.9563 < 7.7432] w=0.2566 to align # Constraint # added constraint: constraint((T0299)E61.CB, (T0299)L89.CB) [> 4.0022 = 6.6703 < 8.6714] w=0.2559 to align # Constraint # added constraint: constraint((T0299)F104.CB, (T0299)F140.CB) [> 3.2271 = 5.3785 < 6.9920] w=0.2535 to align # Constraint # added constraint: constraint((T0299)L79.CB, (T0299)V114.CB) [> 3.3461 = 5.5769 < 7.2500] w=0.2531 to align # Constraint # added constraint: constraint((T0299)I71.CB, (T0299)D101.CB) [> 4.1335 = 6.8892 < 8.9559] w=0.2500 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)M21.CB) [> 3.0842 = 5.1403 < 6.6824] w=0.2496 to align # Constraint # added constraint: constraint((T0299)I40.CB, (T0299)F104.CB) [> 4.4737 = 7.4561 < 9.6930] w=0.2495 to align # Constraint # added constraint: constraint((T0299)Y39.CB, (T0299)F104.CB) [> 3.5831 = 5.9718 < 7.7634] w=0.2495 to align # Constraint # added constraint: constraint((T0299)E61.CB, (T0299)I71.CB) [> 4.5302 = 7.5503 < 9.8154] w=0.2490 to align # Constraint # added constraint: constraint((T0299)L79.CB, (T0299)Y105.CB) [> 3.6638 = 6.1063 < 7.9381] w=0.2483 to align # Constraint # added constraint: constraint((T0299)I11.CB, (T0299)N44.CB) [> 3.6458 = 6.0764 < 7.8993] w=0.2464 to align # Constraint # added constraint: constraint((T0299)F82.CB, (T0299)D101.CB) [> 4.2383 = 7.0638 < 9.1830] w=0.2433 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)F47.CB) [> 4.2107 = 7.0179 < 9.1232] w=0.2422 to align # Constraint # added constraint: constraint((T0299)I11.CB, (T0299)S42.CB) [> 4.2315 = 7.0524 < 9.1681] w=0.2417 to align # Constraint # added constraint: constraint((T0299)Y105.CB, (T0299)F130.CB) [> 4.2124 = 7.0206 < 9.1268] w=0.2409 to align # Constraint # added constraint: constraint((T0299)N44.CB, (T0299)F104.CB) [> 4.0674 = 6.7790 < 8.8126] w=0.2399 to align # Constraint # added constraint: constraint((T0299)I11.CB, (T0299)S78.CB) [> 4.0695 = 6.7825 < 8.8173] w=0.2399 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)F63.CB) [> 3.9566 = 6.5944 < 8.5727] w=0.2399 to align # Constraint # added constraint: constraint((T0299)N44.CB, (T0299)S75.CB) [> 3.2675 = 5.4459 < 7.0796] w=0.2393 to align # Constraint # added constraint: constraint((T0299)E61.CB, (T0299)S73.CB) [> 4.4344 = 7.3906 < 9.6078] w=0.2373 to align # Constraint # added constraint: constraint((T0299)S75.CB, (T0299)T117.CB) [> 4.2691 = 7.1152 < 9.2498] w=0.2373 to align # Constraint # added constraint: constraint((T0299)F104.CB, (T0299)L128.CB) [> 3.6944 = 6.1573 < 8.0045] w=0.2361 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)S75.CB) [> 4.7545 = 7.9241 < 10.3014] w=0.2357 to align # Constraint # added constraint: constraint((T0299)Y4.CB, (T0299)S73.CB) [> 4.4197 = 7.3661 < 9.5759] w=0.2354 to align # Constraint # added constraint: constraint((T0299)T106.CB, (T0299)S141.CB) [> 4.3838 = 7.3063 < 9.4981] w=0.2353 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)I40.CB) [> 3.4499 = 5.7499 < 7.4749] w=0.2353 to align # Constraint # added constraint: constraint((T0299)K139.CB, (T0299)Y153.CB) [> 3.7902 = 6.3169 < 8.2120] w=0.2350 to align # Constraint # added constraint: constraint((T0299)V111.CB, (T0299)E142.CB) [> 3.4679 = 5.7798 < 7.5138] w=0.2333 to align # Constraint # added constraint: constraint((T0299)Q72.CB, (T0299)F102.CB) [> 4.1055 = 6.8425 < 8.8952] w=0.2324 to align # Constraint # added constraint: constraint((T0299)L33.CB, (T0299)L154.CB) [> 4.2822 = 7.1370 < 9.2781] w=0.2321 to align # Constraint # added constraint: constraint((T0299)L31.CB, (T0299)H151.CB) [> 3.4437 = 5.7396 < 7.4614] w=0.2321 to align # Constraint # added constraint: constraint((T0299)F102.CB, (T0299)E122.CB) [> 3.9028 = 6.5047 < 8.4561] w=0.2320 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)S42.CB) [> 4.0644 = 6.7739 < 8.8061] w=0.2312 to align # Constraint # added constraint: constraint((T0299)K16.CB, (T0299)N41.CB) [> 3.8304 = 6.3840 < 8.2991] w=0.2306 to align # Constraint # added constraint: constraint((T0299)F46.CB, (T0299)L56.CB) [> 4.1245 = 6.8741 < 8.9363] w=0.2301 to align # Constraint # added constraint: constraint((T0299)Q72.CB, (T0299)Y105.CB) [> 3.3847 = 5.6412 < 7.3336] w=0.2300 to align # Constraint # added constraint: constraint((T0299)Q72.CB, (T0299)F104.CB) [> 4.1710 = 6.9517 < 9.0373] w=0.2300 to align # Constraint # added constraint: constraint((T0299)N12.CB, (T0299)L76.CB) [> 4.1583 = 6.9306 < 9.0098] w=0.2291 to align # Constraint # added constraint: constraint((T0299)T106.CB, (T0299)G138.CA) [> 3.8397 = 6.3995 < 8.3193] w=0.2289 to align # Constraint # added constraint: constraint((T0299)T106.CB, (T0299)W137.CB) [> 2.3535 = 3.9225 < 5.0993] w=0.2289 to align # Constraint # added constraint: constraint((T0299)T106.CB, (T0299)F136.CB) [> 4.3122 = 7.1869 < 9.3430] w=0.2289 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)S42.CB) [> 3.4112 = 5.6854 < 7.3910] w=0.2284 to align # Constraint # added constraint: constraint((T0299)I11.CB, (T0299)D51.CB) [> 4.1064 = 6.8440 < 8.8973] w=0.2277 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)F46.CB) [> 3.7811 = 6.3019 < 8.1924] w=0.2277 to align # Constraint # added constraint: constraint((T0299)Y39.CB, (T0299)Q55.CB) [> 2.8166 = 4.6943 < 6.1025] w=0.2256 to align # Constraint # added constraint: constraint((T0299)E37.CB, (T0299)S73.CB) [> 3.2658 = 5.4431 < 7.0760] w=0.2244 to align # Constraint # added constraint: constraint((T0299)L103.CB, (T0299)G138.CA) [> 3.9141 = 6.5236 < 8.4807] w=0.2227 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)G43.CA) [> 4.0448 = 6.7413 < 8.7636] w=0.2221 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)G43.CA) [> 3.8056 = 6.3427 < 8.2455] w=0.2193 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)L76.CB) [> 2.9400 = 4.9000 < 6.3701] w=0.2192 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)N44.CB) [> 3.5586 = 5.9310 < 7.7103] w=0.2184 to align # Constraint # added constraint: constraint((T0299)E122.CB, (T0299)G138.CA) [> 4.0681 = 6.7801 < 8.8142] w=0.2179 to align # Constraint # added constraint: constraint((T0299)L79.CB, (T0299)L109.CB) [> 3.2874 = 5.4790 < 7.1227] w=0.2171 to align # Constraint # added constraint: constraint((T0299)T48.CB, (T0299)F82.CB) [> 4.5077 = 7.5128 < 9.7667] w=0.2170 to align # Constraint # added constraint: constraint((T0299)F102.CB, (T0299)G138.CA) [> 3.5306 = 5.8843 < 7.6495] w=0.2154 to align # Constraint # added constraint: constraint((T0299)D101.CB, (T0299)G138.CA) [> 3.7199 = 6.1998 < 8.0597] w=0.2154 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)I45.CB) [> 3.6551 = 6.0919 < 7.9195] w=0.2153 to align # Constraint # added constraint: constraint((T0299)E61.CB, (T0299)W93.CB) [> 4.3293 = 7.2156 < 9.3802] w=0.2153 to align # Constraint # added constraint: constraint((T0299)L28.CB, (T0299)F63.CB) [> 3.3939 = 5.6566 < 7.3536] w=0.2136 to align # Constraint # added constraint: constraint((T0299)S78.CB, (T0299)L89.CB) [> 3.9788 = 6.6314 < 8.6208] w=0.2136 to align # Constraint # added constraint: constraint((T0299)L103.CB, (T0299)L121.CB) [> 3.2291 = 5.3819 < 6.9965] w=0.2135 to align # Constraint # added constraint: constraint((T0299)Y105.CB, (T0299)S141.CB) [> 2.7551 = 4.5918 < 5.9693] w=0.2135 to align # Constraint # added constraint: constraint((T0299)F104.CB, (T0299)S141.CB) [> 4.2860 = 7.1433 < 9.2863] w=0.2135 to align # Constraint # added constraint: constraint((T0299)L103.CB, (T0299)S141.CB) [> 4.1069 = 6.8448 < 8.8983] w=0.2135 to align # Constraint # added constraint: constraint((T0299)F136.CB, (T0299)F171.CB) [> 4.1583 = 6.9304 < 9.0096] w=0.2128 to align # Constraint # added constraint: constraint((T0299)N12.CB, (T0299)E23.CB) [> 2.6370 = 4.3951 < 5.7136] w=0.2122 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)N44.CB) [> 4.0764 = 6.7941 < 8.8323] w=0.2122 to align # Constraint # added constraint: constraint((T0299)F102.CB, (T0299)Y129.CB) [> 4.3293 = 7.2155 < 9.3802] w=0.2102 to align # Constraint # added constraint: constraint((T0299)D101.CB, (T0299)Y129.CB) [> 2.8884 = 4.8140 < 6.2582] w=0.2102 to align # Constraint # added constraint: constraint((T0299)S73.CB, (T0299)Y105.CB) [> 3.7083 = 6.1805 < 8.0347] w=0.2075 to align # Constraint # added constraint: constraint((T0299)E80.CB, (T0299)V114.CB) [> 4.4397 = 7.3995 < 9.6193] w=0.2061 to align # Constraint # added constraint: constraint((T0299)D101.CB, (T0299)L128.CB) [> 3.7566 = 6.2610 < 8.1393] w=0.2051 to align # Constraint # added constraint: constraint((T0299)I115.CB, (T0299)Y150.CB) [> 4.1008 = 6.8346 < 8.8850] w=0.2051 to align # Constraint # added constraint: constraint((T0299)F46.CB, (T0299)F74.CB) [> 3.9224 = 6.5373 < 8.4985] w=0.2037 to align # Constraint # added constraint: constraint((T0299)S42.CB, (T0299)F104.CB) [> 3.7914 = 6.3189 < 8.2146] w=0.2023 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)S75.CB) [> 4.4493 = 7.4154 < 9.6401] w=0.2022 to align # Constraint # added constraint: constraint((T0299)I115.CB, (T0299)L154.CB) [> 4.7551 = 7.9252 < 10.3028] w=0.2003 to align # Constraint # added constraint: constraint((T0299)D101.CB, (T0299)L121.CB) [> 3.4588 = 5.7647 < 7.4941] w=0.1999 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)L77.CB) [> 3.5480 = 5.9132 < 7.6872] w=0.1999 to align # Constraint # added constraint: constraint((T0299)F102.CB, (T0299)L128.CB) [> 4.0934 = 6.8224 < 8.8691] w=0.1996 to align # Constraint # added constraint: constraint((T0299)L28.CB, (T0299)F74.CB) [> 3.9491 = 6.5819 < 8.5564] w=0.1992 to align # Constraint # added constraint: constraint((T0299)Y4.CB, (T0299)L33.CB) [> 4.4310 = 7.3851 < 9.6006] w=0.1982 to align # Constraint # added constraint: constraint((T0299)T106.CB, (T0299)L121.CB) [> 4.1137 = 6.8562 < 8.9131] w=0.1966 to align # Constraint # added constraint: constraint((T0299)L77.CB, (T0299)V118.CB) [> 3.5753 = 5.9589 < 7.7466] w=0.1954 to align # Constraint # added constraint: constraint((T0299)L79.CB, (T0299)L121.CB) [> 3.4379 = 5.7298 < 7.4488] w=0.1942 to align # Constraint # added constraint: constraint((T0299)V20.CB, (T0299)S38.CB) [> 4.4112 = 7.3520 < 9.5576] w=0.1925 to align # Constraint # added constraint: constraint((T0299)V19.CB, (T0299)S38.CB) [> 4.4728 = 7.4547 < 9.6911] w=0.1925 to align # Constraint # added constraint: constraint((T0299)W137.CB, (T0299)Y150.CB) [> 4.4949 = 7.4915 < 9.7389] w=0.1924 to align # Constraint # added constraint: constraint((T0299)I71.CB, (T0299)T106.CB) [> 3.2921 = 5.4868 < 7.1328] w=0.1911 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)L103.CB) [> 4.3891 = 7.3152 < 9.5098] w=0.1911 to align # Constraint # added constraint: constraint((T0299)G14.CA, (T0299)N44.CB) [> 4.1394 = 6.8991 < 8.9688] w=0.1909 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)L76.CB) [> 3.7216 = 6.2027 < 8.0635] w=0.1907 to align # Constraint # added constraint: constraint((T0299)K16.CB, (T0299)G43.CA) [> 4.0687 = 6.7811 < 8.8154] w=0.1906 to align # Constraint # added constraint: constraint((T0299)G15.CA, (T0299)G43.CA) [> 4.2063 = 7.0105 < 9.1136] w=0.1906 to align # Constraint # added constraint: constraint((T0299)G14.CA, (T0299)G43.CA) [> 3.0050 = 5.0083 < 6.5108] w=0.1906 to align # Constraint # added constraint: constraint((T0299)S78.CB, (T0299)L103.CB) [> 4.4937 = 7.4896 < 9.7364] w=0.1904 to align # Constraint # added constraint: constraint((T0299)V118.CB, (T0299)F136.CB) [> 4.2887 = 7.1479 < 9.2922] w=0.1901 to align # Constraint # added constraint: constraint((T0299)Y105.CB, (T0299)L128.CB) [> 4.0881 = 6.8135 < 8.8576] w=0.1894 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)F46.CB) [> 2.8059 = 4.6765 < 6.0795] w=0.1892 to align # Constraint # added constraint: constraint((T0299)G15.CA, (T0299)N41.CB) [> 4.1486 = 6.9144 < 8.9887] w=0.1891 to align # Constraint # added constraint: constraint((T0299)V118.CB, (T0299)L128.CB) [> 3.4881 = 5.8134 < 7.5575] w=0.1890 to align # Constraint # added constraint: constraint((T0299)F102.CB, (T0299)F136.CB) [> 3.9902 = 6.6504 < 8.6455] w=0.1878 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)I45.CB) [> 2.7738 = 4.6230 < 6.0099] w=0.1877 to align # Constraint # added constraint: constraint((T0299)F102.CB, (T0299)L133.CB) [> 3.6813 = 6.1355 < 7.9762] w=0.1867 to align # Constraint # added constraint: constraint((T0299)M21.CB, (T0299)F46.CB) [> 3.2874 = 5.4790 < 7.1227] w=0.1857 to align # Constraint # added constraint: constraint((T0299)K139.CB, (T0299)Y150.CB) [> 3.9445 = 6.5742 < 8.5465] w=0.1835 to align # Constraint # added constraint: constraint((T0299)V19.CB, (T0299)G43.CA) [> 4.1231 = 6.8718 < 8.9334] w=0.1821 to align # Constraint # added constraint: constraint((T0299)V36.CB, (T0299)T48.CB) [> 3.6390 = 6.0649 < 7.8844] w=0.1802 to align # Constraint # added constraint: constraint((T0299)L103.CB, (T0299)L133.CB) [> 4.5211 = 7.5351 < 9.7956] w=0.1794 to align # Constraint # added constraint: constraint((T0299)I40.CB, (T0299)F70.CB) [> 3.7969 = 6.3282 < 8.2266] w=0.1790 to align # Constraint # added constraint: constraint((T0299)E119.CB, (T0299)G138.CA) [> 4.0532 = 6.7553 < 8.7819] w=0.1790 to align # Constraint # added constraint: constraint((T0299)L76.CB, (T0299)W93.CB) [> 3.7300 = 6.2167 < 8.0817] w=0.1771 to align # Constraint # added constraint: constraint((T0299)F74.CB, (T0299)W93.CB) [> 3.9413 = 6.5688 < 8.5394] w=0.1771 to align # Constraint # added constraint: constraint((T0299)L103.CB, (T0299)F136.CB) [> 3.7865 = 6.3108 < 8.2040] w=0.1732 to align # Constraint # added constraint: constraint((T0299)T48.CB, (T0299)L76.CB) [> 4.0166 = 6.6943 < 8.7026] w=0.1725 to align # Constraint # added constraint: constraint((T0299)Y39.CB, (T0299)L76.CB) [> 4.0329 = 6.7214 < 8.7379] w=0.1724 to align # Constraint # added constraint: constraint((T0299)V118.CB, (T0299)W137.CB) [> 3.0496 = 5.0827 < 6.6076] w=0.1717 to align # Constraint # added constraint: constraint((T0299)L103.CB, (T0299)E122.CB) [> 3.8256 = 6.3761 < 8.2889] w=0.1715 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)N44.CB) [> 2.9447 = 4.9078 < 6.3802] w=0.1699 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)F102.CB) [> 4.3103 = 7.1838 < 9.3390] w=0.1696 to align # Constraint # added constraint: constraint((T0299)F136.CB, (T0299)T148.CB) [> 3.9279 = 6.5466 < 8.5106] w=0.1695 to align # Constraint # added constraint: constraint((T0299)L121.CB, (T0299)I135.CB) [> 4.0004 = 6.6673 < 8.6675] w=0.1694 to align # Constraint # added constraint: constraint((T0299)T106.CB, (T0299)I135.CB) [> 4.6188 = 7.6980 < 10.0074] w=0.1676 to align # Constraint # added constraint: constraint((T0299)Y105.CB, (T0299)L121.CB) [> 4.5727 = 7.6211 < 9.9075] w=0.1669 to align # Constraint # added constraint: constraint((T0299)F136.CB, (T0299)L155.CB) [> 4.4906 = 7.4843 < 9.7295] w=0.1660 to align # Constraint # added constraint: constraint((T0299)F102.CB, (T0299)W137.CB) [> 3.5445 = 5.9075 < 7.6797] w=0.1660 to align # Constraint # added constraint: constraint((T0299)Y4.CB, (T0299)K35.CB) [> 3.6117 = 6.0195 < 7.8253] w=0.1632 to align # Constraint # added constraint: constraint((T0299)S38.CB, (T0299)K100.CB) [> 2.9047 = 4.8411 < 6.2934] w=0.1629 to align # Constraint # added constraint: constraint((T0299)S49.CB, (T0299)S78.CB) [> 3.5251 = 5.8751 < 7.6377] w=0.1618 to align # Constraint # added constraint: constraint((T0299)E27.CB, (T0299)H151.CB) [> 3.8070 = 6.3449 < 8.2484] w=0.1617 to align # Constraint # added constraint: constraint((T0299)G15.CA, (T0299)S78.CB) [> 4.4492 = 7.4153 < 9.6399] w=0.1616 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)S38.CB) [> 3.6890 = 6.1483 < 7.9928] w=0.1616 to align # Constraint # added constraint: constraint((T0299)S75.CB, (T0299)L121.CB) [> 3.2820 = 5.4700 < 7.1110] w=0.1611 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)L77.CB) [> 3.9014 = 6.5023 < 8.4531] w=0.1601 to align # Constraint # added constraint: constraint((T0299)Y105.CB, (T0299)G131.CA) [> 4.0101 = 6.6835 < 8.6885] w=0.1572 to align # Constraint # added constraint: constraint((T0299)N44.CB, (T0299)V111.CB) [> 3.3400 = 5.5667 < 7.2367] w=0.1571 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)T106.CB) [> 4.6337 = 7.7229 < 10.0398] w=0.1570 to align # Constraint # added constraint: constraint((T0299)K18.CB, (T0299)N44.CB) [> 4.2433 = 7.0722 < 9.1939] w=0.1566 to align # Constraint # added constraint: constraint((T0299)V118.CB, (T0299)F130.CB) [> 3.7984 = 6.3307 < 8.2299] w=0.1565 to align # Constraint # added constraint: constraint((T0299)Y105.CB, (T0299)Y150.CB) [> 4.0061 = 6.6769 < 8.6799] w=0.1561 to align # Constraint # added constraint: constraint((T0299)F102.CB, (T0299)V118.CB) [> 3.7687 = 6.2812 < 8.1656] w=0.1552 to align # Constraint # added constraint: constraint((T0299)N44.CB, (T0299)Y105.CB) [> 2.8911 = 4.8186 < 6.2642] w=0.1546 to align # Constraint # added constraint: constraint((T0299)F46.CB, (T0299)L128.CB) [> 4.4020 = 7.3367 < 9.5378] w=0.1535 to align # Constraint # added constraint: constraint((T0299)N44.CB, (T0299)F74.CB) [> 3.4198 = 5.6997 < 7.4096] w=0.1531 to align # Constraint # added constraint: constraint((T0299)N44.CB, (T0299)Q72.CB) [> 3.8600 = 6.4333 < 8.3632] w=0.1531 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)Y105.CB) [> 4.4439 = 7.4065 < 9.6285] w=0.1506 to align # Constraint # added constraint: constraint((T0299)L109.CB, (T0299)L133.CB) [> 4.1791 = 6.9651 < 9.0547] w=0.1499 to align # Constraint # added constraint: constraint((T0299)T106.CB, (T0299)L133.CB) [> 3.8516 = 6.4193 < 8.3451] w=0.1499 to align # Constraint # added constraint: constraint((T0299)Y39.CB, (T0299)F70.CB) [> 4.0108 = 6.6846 < 8.6900] w=0.1493 to align # Constraint # added constraint: constraint((T0299)S38.CB, (T0299)F70.CB) [> 2.9508 = 4.9180 < 6.3934] w=0.1493 to align # Constraint # added constraint: constraint((T0299)E122.CB, (T0299)Y145.CB) [> 4.4869 = 7.4781 < 9.7215] w=0.1485 to align # Constraint # added constraint: constraint((T0299)E122.CB, (T0299)S141.CB) [> 3.4810 = 5.8016 < 7.5421] w=0.1481 to align # Constraint # added constraint: constraint((T0299)S73.CB, (T0299)V118.CB) [> 3.5749 = 5.9582 < 7.7457] w=0.1479 to align # Constraint # added constraint: constraint((T0299)F102.CB, (T0299)K139.CB) [> 4.4786 = 7.4643 < 9.7036] w=0.1475 to align # Constraint # added constraint: constraint((T0299)D101.CB, (T0299)K139.CB) [> 3.5521 = 5.9202 < 7.6963] w=0.1475 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)V20.CB) [> 2.7806 = 4.6344 < 6.0247] w=0.1457 to align # Constraint # added constraint: constraint((T0299)L33.CB, (T0299)F47.CB) [> 3.5485 = 5.9142 < 7.6884] w=0.1453 to align # Constraint # added constraint: constraint((T0299)S78.CB, (T0299)F102.CB) [> 4.2882 = 7.1471 < 9.2912] w=0.1430 to align # Constraint # added constraint: constraint((T0299)D101.CB, (T0299)K132.CB) [> 2.6715 = 4.4526 < 5.7883] w=0.1430 to align # Constraint # added constraint: constraint((T0299)E61.CB, (T0299)V118.CB) [> 4.0459 = 6.7432 < 8.7661] w=0.1422 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)S78.CB) [> 4.1015 = 6.8359 < 8.8867] w=0.1385 to align # Constraint # added constraint: constraint((T0299)D101.CB, (T0299)E122.CB) [> 3.7498 = 6.2496 < 8.1245] w=0.1355 to align # Constraint # added constraint: constraint((T0299)D101.CB, (T0299)F136.CB) [> 3.7526 = 6.2544 < 8.1307] w=0.1310 to align # Constraint # added constraint: constraint((T0299)S78.CB, (T0299)L109.CB) [> 3.7369 = 6.2282 < 8.0966] w=0.1306 to align # Constraint # added constraint: constraint((T0299)F46.CB, (T0299)I135.CB) [> 3.1704 = 5.2841 < 6.8693] w=0.1291 to align # Constraint # added constraint: constraint((T0299)S78.CB, (T0299)N167.CB) [> 4.2891 = 7.1484 < 9.2930] w=0.1288 to align # Constraint # added constraint: constraint((T0299)S78.CB, (T0299)R166.CB) [> 4.1878 = 6.9797 < 9.0736] w=0.1288 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)S75.CB) [> 2.7786 = 4.6310 < 6.0203] w=0.1284 to align # Constraint # added constraint: constraint((T0299)T106.CB, (T0299)K132.CB) [> 4.2187 = 7.0312 < 9.1405] w=0.1275 to align # Constraint # added constraint: constraint((T0299)Y105.CB, (T0299)K139.CB) [> 3.9534 = 6.5889 < 8.5656] w=0.1270 to align # Constraint # added constraint: constraint((T0299)Y39.CB, (T0299)F102.CB) [> 2.9796 = 4.9659 < 6.4557] w=0.1269 to align # Constraint # added constraint: constraint((T0299)I40.CB, (T0299)F102.CB) [> 4.4619 = 7.4365 < 9.6674] w=0.1269 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)S78.CB) [> 4.7682 = 7.9470 < 10.3311] w=0.1269 to align # Constraint # added constraint: constraint((T0299)S38.CB, (T0299)F102.CB) [> 4.2130 = 7.0217 < 9.1282] w=0.1269 to align # Constraint # added constraint: constraint((T0299)S38.CB, (T0299)D101.CB) [> 3.4898 = 5.8164 < 7.5613] w=0.1269 to align # Constraint # added constraint: constraint((T0299)E37.CB, (T0299)D101.CB) [> 3.5941 = 5.9902 < 7.7873] w=0.1269 to align # Constraint # added constraint: constraint((T0299)G32.CA, (T0299)I135.CB) [> 4.6293 = 7.7154 < 10.0301] w=0.1269 to align # Constraint # added constraint: constraint((T0299)L155.CB, (T0299)I165.CB) [> 4.2013 = 7.0022 < 9.1028] w=0.1269 to align # Constraint # added constraint: constraint((T0299)S141.CB, (T0299)N167.CB) [> 2.7883 = 4.6471 < 6.0412] w=0.1269 to align # Constraint # added constraint: constraint((T0299)F140.CB, (T0299)N167.CB) [> 3.8827 = 6.4712 < 8.4126] w=0.1269 to align # Constraint # added constraint: constraint((T0299)K139.CB, (T0299)I165.CB) [> 3.5019 = 5.8365 < 7.5875] w=0.1269 to align # Constraint # added constraint: constraint((T0299)E122.CB, (T0299)L178.CB) [> 3.4642 = 5.7737 < 7.5058] w=0.1269 to align # Constraint # added constraint: constraint((T0299)L121.CB, (T0299)L178.CB) [> 4.5064 = 7.5107 < 9.7639] w=0.1269 to align # Constraint # added constraint: constraint((T0299)V118.CB, (T0299)L178.CB) [> 2.2158 = 3.6930 < 4.8009] w=0.1269 to align # Constraint # added constraint: constraint((T0299)V118.CB, (T0299)G175.CA) [> 3.8960 = 6.4933 < 8.4413] w=0.1269 to align # Constraint # added constraint: constraint((T0299)V118.CB, (T0299)I174.CB) [> 3.7683 = 6.2804 < 8.1646] w=0.1269 to align # Constraint # added constraint: constraint((T0299)V114.CB, (T0299)L178.CB) [> 4.5358 = 7.5597 < 9.8276] w=0.1269 to align # Constraint # added constraint: constraint((T0299)V111.CB, (T0299)M177.CB) [> 4.6337 = 7.7229 < 10.0397] w=0.1269 to align # Constraint # added constraint: constraint((T0299)N44.CB, (T0299)L76.CB) [> 3.5523 = 5.9205 < 7.6967] w=0.1269 to align # Constraint # added constraint: constraint((T0299)D101.CB, (T0299)G131.CA) [> 4.1221 = 6.8702 < 8.9312] w=0.1269 to align # Constraint # added constraint: constraint((T0299)F102.CB, (T0299)K132.CB) [> 3.4756 = 5.7926 < 7.5304] w=0.1269 to align # Constraint # added constraint: constraint((T0299)L103.CB, (T0299)K132.CB) [> 4.4836 = 7.4726 < 9.7143] w=0.1269 to align # Constraint # added constraint: constraint((T0299)V111.CB, (T0299)I174.CB) [> 3.8219 = 6.3699 < 8.2808] w=0.1269 to align # Constraint # added constraint: constraint((T0299)S75.CB, (T0299)V118.CB) [> 3.7853 = 6.3088 < 8.2014] w=0.1249 to align # Constraint # added constraint: constraint((T0299)F63.CB, (T0299)I163.CB) [> 3.5225 = 5.8709 < 7.6322] w=0.1249 to align # Constraint # added constraint: constraint((T0299)T148.CB, (T0299)F159.CB) [> 4.1444 = 6.9073 < 8.9795] w=0.1249 to align # Constraint # added constraint: constraint((T0299)S141.CB, (T0299)T170.CB) [> 4.3731 = 7.2885 < 9.4750] w=0.1246 to align # Constraint # added constraint: constraint((T0299)F46.CB, (T0299)L103.CB) [> 3.1255 = 5.2092 < 6.7720] w=0.1246 to align # Constraint # added constraint: constraint((T0299)F46.CB, (T0299)F104.CB) [> 3.8785 = 6.4642 < 8.4035] w=0.1246 to align # Constraint # added constraint: constraint((T0299)Y39.CB, (T0299)Y68.CB) [> 3.9283 = 6.5472 < 8.5113] w=0.1233 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)L178.CB) [> 4.2120 = 7.0200 < 9.1261] w=0.1233 to align # Constraint # added constraint: constraint((T0299)I11.CB, (T0299)V20.CB) [> 4.3334 = 7.2224 < 9.3891] w=0.1226 to align # Constraint # added constraint: constraint((T0299)I40.CB, (T0299)T106.CB) [> 4.1747 = 6.9578 < 9.0452] w=0.1226 to align # Constraint # added constraint: constraint((T0299)I40.CB, (T0299)Y105.CB) [> 2.8456 = 4.7427 < 6.1655] w=0.1226 to align # Constraint # added constraint: constraint((T0299)Y39.CB, (T0299)T106.CB) [> 3.7989 = 6.3315 < 8.2309] w=0.1226 to align # Constraint # added constraint: constraint((T0299)S38.CB, (T0299)F104.CB) [> 4.4514 = 7.4190 < 9.6447] w=0.1226 to align # Constraint # added constraint: constraint((T0299)S38.CB, (T0299)L103.CB) [> 2.5433 = 4.2388 < 5.5104] w=0.1226 to align # Constraint # added constraint: constraint((T0299)E37.CB, (T0299)F104.CB) [> 4.4783 = 7.4638 < 9.7029] w=0.1226 to align # Constraint # added constraint: constraint((T0299)E37.CB, (T0299)L103.CB) [> 4.4573 = 7.4288 < 9.6574] w=0.1226 to align # Constraint # added constraint: constraint((T0299)L103.CB, (T0299)F130.CB) [> 3.5610 = 5.9349 < 7.7154] w=0.1211 to align # Constraint # added constraint: constraint((T0299)N12.CB, (T0299)I50.CB) [> 3.3123 = 5.5205 < 7.1766] w=0.1208 to align # Constraint # added constraint: constraint((T0299)E37.CB, (T0299)F74.CB) [> 4.2122 = 7.0203 < 9.1264] w=0.1202 to align # Constraint # added constraint: constraint((T0299)S38.CB, (T0299)S75.CB) [> 4.5711 = 7.6186 < 9.9041] w=0.1202 to align # Constraint # added constraint: constraint((T0299)S38.CB, (T0299)L76.CB) [> 4.0722 = 6.7870 < 8.8231] w=0.1202 to align # Constraint # added constraint: constraint((T0299)E61.CB, (T0299)P90.CB) [> 4.4225 = 7.3708 < 9.5821] w=0.1200 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)S78.CB) [> 2.5075 = 4.1792 < 5.4330] w=0.1199 to align # Constraint # added constraint: constraint((T0299)E37.CB, (T0299)H67.CB) [> 3.8060 = 6.3434 < 8.2464] w=0.1199 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)Y39.CB) [> 3.0824 = 5.1373 < 6.6785] w=0.1199 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)S75.CB) [> 4.1734 = 6.9556 < 9.0423] w=0.1199 to align # Constraint # added constraint: constraint((T0299)T106.CB, (T0299)L128.CB) [> 3.3816 = 5.6361 < 7.3269] w=0.1196 to align # Constraint # added constraint: constraint((T0299)R3.CB, (T0299)E37.CB) [> 4.4408 = 7.4014 < 9.6217] w=0.1192 to align # Constraint # added constraint: constraint((T0299)T48.CB, (T0299)T106.CB) [> 4.1961 = 6.9936 < 9.0917] w=0.1186 to align # Constraint # added constraint: constraint((T0299)T106.CB, (T0299)Y145.CB) [> 4.3454 = 7.2424 < 9.4151] w=0.1179 to align # Constraint # added constraint: constraint((T0299)K18.CB, (T0299)G43.CA) [> 2.2617 = 3.7695 < 4.9004] w=0.1166 to align # Constraint # added constraint: constraint((T0299)V19.CB, (T0299)N44.CB) [> 4.4048 = 7.3413 < 9.5437] w=0.1166 to align # Constraint # added constraint: constraint((T0299)V19.CB, (T0299)I45.CB) [> 2.9351 = 4.8919 < 6.3594] w=0.1166 to align # Constraint # added constraint: constraint((T0299)L31.CB, (T0299)F47.CB) [> 4.7371 = 7.8951 < 10.2636] w=0.1166 to align # Constraint # added constraint: constraint((T0299)Q72.CB, (T0299)L121.CB) [> 4.7430 = 7.9049 < 10.2764] w=0.1166 to align # Constraint # added constraint: constraint((T0299)E122.CB, (T0299)K139.CB) [> 3.7547 = 6.2578 < 8.1351] w=0.1160 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)T106.CB) [> 3.4518 = 5.7530 < 7.4789] w=0.1153 to align # Constraint # added constraint: constraint((T0299)V118.CB, (T0299)G138.CA) [> 3.7391 = 6.2318 < 8.1014] w=0.1148 to align # Constraint # added constraint: constraint((T0299)L121.CB, (T0299)L133.CB) [> 3.4029 = 5.6716 < 7.3730] w=0.1148 to align # Constraint # added constraint: constraint((T0299)F136.CB, (T0299)Y145.CB) [> 3.6227 = 6.0378 < 7.8491] w=0.1142 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)V118.CB) [> 4.4076 = 7.3460 < 9.5498] w=0.1136 to align # Constraint # added constraint: constraint((T0299)S38.CB, (T0299)Y68.CB) [> 4.4843 = 7.4738 < 9.7160] w=0.1135 to align # Constraint # added constraint: constraint((T0299)Q72.CB, (T0299)T106.CB) [> 3.9352 = 6.5587 < 8.5263] w=0.1130 to align # Constraint # added constraint: constraint((T0299)F47.CB, (T0299)L133.CB) [> 2.8863 = 4.8106 < 6.2538] w=0.1130 to align # Constraint # added constraint: constraint((T0299)F46.CB, (T0299)G134.CA) [> 3.7553 = 6.2589 < 8.1365] w=0.1130 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)F104.CB) [> 3.5074 = 5.8456 < 7.5993] w=0.1130 to align # Constraint # added constraint: constraint((T0299)N44.CB, (T0299)I135.CB) [> 3.7617 = 6.2695 < 8.1503] w=0.1130 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)T106.CB) [> 4.1460 = 6.9099 < 8.9829] w=0.1130 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)L76.CB) [> 4.7948 = 7.9913 < 10.3886] w=0.1124 to align # Constraint # added constraint: constraint((T0299)N44.CB, (T0299)S73.CB) [> 4.3662 = 7.2769 < 9.4600] w=0.1124 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)V118.CB) [> 3.7702 = 6.2837 < 8.1688] w=0.1124 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)F74.CB) [> 4.1733 = 6.9555 < 9.0421] w=0.1124 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)S73.CB) [> 2.9606 = 4.9343 < 6.4146] w=0.1124 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)Q72.CB) [> 2.5086 = 4.1810 < 5.4354] w=0.1124 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)Y105.CB) [> 4.3267 = 7.2112 < 9.3746] w=0.1121 to align # Constraint # added constraint: constraint((T0299)E27.CB, (T0299)H67.CB) [> 4.1810 = 6.9683 < 9.0588] w=0.1092 to align # Constraint # added constraint: constraint((T0299)L31.CB, (T0299)S49.CB) [> 4.4892 = 7.4820 < 9.7266] w=0.1092 to align # Constraint # added constraint: constraint((T0299)L31.CB, (T0299)K59.CB) [> 3.0297 = 5.0496 < 6.5644] w=0.1092 to align # Constraint # added constraint: constraint((T0299)V19.CB, (T0299)Q72.CB) [> 3.8554 = 6.4257 < 8.3534] w=0.1092 to align # Constraint # added constraint: constraint((T0299)V19.CB, (T0299)N41.CB) [> 4.2733 = 7.1222 < 9.2588] w=0.1092 to align # Constraint # added constraint: constraint((T0299)G14.CA, (T0299)F74.CB) [> 3.0460 = 5.0766 < 6.5996] w=0.1092 to align # Constraint # added constraint: constraint((T0299)G14.CA, (T0299)Q72.CB) [> 3.9887 = 6.6478 < 8.6421] w=0.1092 to align # Constraint # added constraint: constraint((T0299)G14.CA, (T0299)I45.CB) [> 4.4489 = 7.4149 < 9.6393] w=0.1092 to align # Constraint # added constraint: constraint((T0299)V13.CB, (T0299)S75.CB) [> 3.0616 = 5.1027 < 6.6335] w=0.1092 to align # Constraint # added constraint: constraint((T0299)V13.CB, (T0299)F74.CB) [> 3.0501 = 5.0835 < 6.6086] w=0.1092 to align # Constraint # added constraint: constraint((T0299)V13.CB, (T0299)S73.CB) [> 3.6242 = 6.0404 < 7.8525] w=0.1092 to align # Constraint # added constraint: constraint((T0299)I115.CB, (T0299)W137.CB) [> 4.5787 = 7.6312 < 9.9205] w=0.1092 to align # Constraint # added constraint: constraint((T0299)Y68.CB, (T0299)L77.CB) [> 4.4729 = 7.4548 < 9.6912] w=0.1092 to align # Constraint # added constraint: constraint((T0299)H67.CB, (T0299)L76.CB) [> 2.9858 = 4.9764 < 6.4693] w=0.1092 to align # Constraint # added constraint: constraint((T0299)E37.CB, (T0299)F46.CB) [> 3.2382 = 5.3970 < 7.0161] w=0.1092 to align # Constraint # added constraint: constraint((T0299)K35.CB, (T0299)F47.CB) [> 4.5851 = 7.6418 < 9.9344] w=0.1092 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)G32.CA) [> 4.5206 = 7.5343 < 9.7946] w=0.1078 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)F46.CB) [> 3.5208 = 5.8680 < 7.6284] w=0.1078 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)H67.CB) [> 4.0218 = 6.7030 < 8.7139] w=0.1078 to align # Constraint # added constraint: constraint((T0299)I40.CB, (T0299)L77.CB) [> 3.8931 = 6.4885 < 8.4350] w=0.1078 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)L103.CB) [> 4.7339 = 7.8898 < 10.2567] w=0.1078 to align # Constraint # added constraint: constraint((T0299)K53.CB, (T0299)S78.CB) [> 4.6010 = 7.6684 < 9.9689] w=0.1078 to align # Constraint # added constraint: constraint((T0299)Y68.CB, (T0299)R99.CB) [> 4.4512 = 7.4186 < 9.6442] w=0.1078 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)K18.CB) [> 4.5873 = 7.6454 < 9.9390] w=0.1057 to align # Constraint # added constraint: constraint((T0299)K18.CB, (T0299)S38.CB) [> 4.7427 = 7.9044 < 10.2758] w=0.1057 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)I40.CB) [> 4.1529 = 6.9216 < 8.9980] w=0.1044 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)G43.CA) [> 4.1418 = 6.9029 < 8.9738] w=0.1044 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)N44.CB) [> 3.3373 = 5.5623 < 7.2309] w=0.1044 to align # Constraint # added constraint: constraint((T0299)L103.CB, (T0299)W137.CB) [> 3.4945 = 5.8242 < 7.5714] w=0.1005 to align # Constraint # added constraint: constraint((T0299)L103.CB, (T0299)T148.CB) [> 4.0451 = 6.7418 < 8.7643] w=0.0994 to align # Constraint # added constraint: constraint((T0299)D101.CB, (T0299)G134.CA) [> 3.8652 = 6.4420 < 8.3746] w=0.0961 to align # Constraint # added constraint: constraint((T0299)F104.CB, (T0299)L121.CB) [> 3.9962 = 6.6603 < 8.6584] w=0.0958 to align # Constraint # added constraint: constraint((T0299)V118.CB, (T0299)I135.CB) [> 3.5539 = 5.9232 < 7.7001] w=0.0929 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)W137.CB) [> 4.2295 = 7.0491 < 9.1638] w=0.0914 to align # Constraint # added constraint: constraint((T0299)N44.CB, (T0299)W137.CB) [> 3.5224 = 5.8707 < 7.6320] w=0.0914 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)I135.CB) [> 2.9311 = 4.8851 < 6.3506] w=0.0914 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)F136.CB) [> 3.0075 = 5.0125 < 6.5162] w=0.0914 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)W137.CB) [> 4.4490 = 7.4149 < 9.6394] w=0.0914 to align # Constraint # added constraint: constraint((T0299)F46.CB, (T0299)F136.CB) [> 4.4491 = 7.4151 < 9.6397] w=0.0914 to align # Constraint # added constraint: constraint((T0299)I40.CB, (T0299)D101.CB) [> 3.4564 = 5.7607 < 7.4889] w=0.0876 to align # Constraint # added constraint: constraint((T0299)F46.CB, (T0299)F102.CB) [> 4.2282 = 7.0471 < 9.1612] w=0.0869 to align # Constraint # added constraint: constraint((T0299)K132.CB, (T0299)T170.CB) [> 4.4193 = 7.3656 < 9.5752] w=0.0859 to align # Constraint # added constraint: constraint((T0299)G134.CA, (T0299)T170.CB) [> 3.4981 = 5.8302 < 7.5793] w=0.0859 to align # Constraint # added constraint: constraint((T0299)G134.CA, (T0299)F171.CB) [> 4.4901 = 7.4835 < 9.7285] w=0.0859 to align # Constraint # added constraint: constraint((T0299)F136.CB, (T0299)I174.CB) [> 4.5528 = 7.5880 < 9.8643] w=0.0859 to align # Constraint # added constraint: constraint((T0299)F140.CB, (T0299)R166.CB) [> 4.4125 = 7.3541 < 9.5604] w=0.0846 to align # Constraint # added constraint: constraint((T0299)F140.CB, (T0299)A168.CB) [> 3.0866 = 5.1443 < 6.6876] w=0.0846 to align # Constraint # added constraint: constraint((T0299)L154.CB, (T0299)I165.CB) [> 3.1804 = 5.3007 < 6.8910] w=0.0846 to align # Constraint # added constraint: constraint((T0299)S141.CB, (T0299)R166.CB) [> 3.5053 = 5.8421 < 7.5948] w=0.0846 to align # Constraint # added constraint: constraint((T0299)S141.CB, (T0299)I165.CB) [> 2.7492 = 4.5819 < 5.9565] w=0.0846 to align # Constraint # added constraint: constraint((T0299)E37.CB, (T0299)T170.CB) [> 4.5042 = 7.5069 < 9.7590] w=0.0833 to align # Constraint # added constraint: constraint((T0299)E37.CB, (T0299)K173.CB) [> 4.6767 = 7.7945 < 10.1328] w=0.0833 to align # Constraint # added constraint: constraint((T0299)E37.CB, (T0299)I174.CB) [> 4.0988 = 6.8314 < 8.8808] w=0.0833 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)I165.CB) [> 3.1492 = 5.2487 < 6.8233] w=0.0833 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)T164.CB) [> 2.5042 = 4.1737 < 5.4258] w=0.0833 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)K132.CB) [> 2.3007 = 3.8344 < 4.9848] w=0.0833 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)G131.CA) [> 4.5199 = 7.5332 < 9.7932] w=0.0833 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)I174.CB) [> 4.4767 = 7.4612 < 9.6995] w=0.0833 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)T170.CB) [> 3.7805 = 6.3008 < 8.1910] w=0.0833 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)I165.CB) [> 4.3837 = 7.3062 < 9.4981] w=0.0833 to align # Constraint # added constraint: constraint((T0299)R3.CB, (T0299)L178.CB) [> 3.9336 = 6.5560 < 8.5228] w=0.0833 to align # Constraint # added constraint: constraint((T0299)K132.CB, (T0299)I165.CB) [> 3.9595 = 6.5992 < 8.5790] w=0.0833 to align # Constraint # added constraint: constraint((T0299)K132.CB, (T0299)T164.CB) [> 1.6780 = 2.7966 < 3.6356] w=0.0833 to align # Constraint # added constraint: constraint((T0299)K132.CB, (T0299)I163.CB) [> 4.1430 = 6.9050 < 8.9766] w=0.0833 to align # Constraint # added constraint: constraint((T0299)K132.CB, (T0299)H162.CB) [> 3.9977 = 6.6628 < 8.6617] w=0.0833 to align # Constraint # added constraint: constraint((T0299)G131.CA, (T0299)T164.CB) [> 3.0787 = 5.1312 < 6.6706] w=0.0833 to align # Constraint # added constraint: constraint((T0299)G131.CA, (T0299)I163.CB) [> 2.8073 = 4.6788 < 6.0824] w=0.0833 to align # Constraint # added constraint: constraint((T0299)G131.CA, (T0299)H162.CB) [> 3.8995 = 6.4992 < 8.4490] w=0.0833 to align # Constraint # added constraint: constraint((T0299)F130.CB, (T0299)T164.CB) [> 4.7347 = 7.8913 < 10.2586] w=0.0833 to align # Constraint # added constraint: constraint((T0299)F130.CB, (T0299)I163.CB) [> 4.4122 = 7.3537 < 9.5598] w=0.0833 to align # Constraint # added constraint: constraint((T0299)F130.CB, (T0299)H162.CB) [> 2.9992 = 4.9986 < 6.4982] w=0.0833 to align # Constraint # added constraint: constraint((T0299)F130.CB, (T0299)R161.CB) [> 4.4878 = 7.4797 < 9.7236] w=0.0833 to align # Constraint # added constraint: constraint((T0299)F130.CB, (T0299)F159.CB) [> 2.5215 = 4.2026 < 5.4633] w=0.0833 to align # Constraint # added constraint: constraint((T0299)Y129.CB, (T0299)I163.CB) [> 4.0950 = 6.8250 < 8.8725] w=0.0833 to align # Constraint # added constraint: constraint((T0299)Y129.CB, (T0299)H162.CB) [> 4.5768 = 7.6280 < 9.9165] w=0.0833 to align # Constraint # added constraint: constraint((T0299)F104.CB, (T0299)G131.CA) [> 3.9753 = 6.6256 < 8.6133] w=0.0833 to align # Constraint # added constraint: constraint((T0299)D101.CB, (T0299)V118.CB) [> 3.4335 = 5.7225 < 7.4393] w=0.0833 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)I135.CB) [> 4.5795 = 7.6325 < 9.9223] w=0.0817 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)V118.CB) [> 4.6757 = 7.7929 < 10.1307] w=0.0817 to align # Constraint # added constraint: constraint((T0299)K139.CB, (T0299)A149.CB) [> 4.3914 = 7.3191 < 9.5148] w=0.0817 to align # Constraint # added constraint: constraint((T0299)F47.CB, (T0299)P90.CB) [> 3.7772 = 6.2953 < 8.1839] w=0.0814 to align # Constraint # added constraint: constraint((T0299)F46.CB, (T0299)P90.CB) [> 3.1456 = 5.2427 < 6.8155] w=0.0814 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)Y105.CB) [> 3.1704 = 5.2839 < 6.8691] w=0.0813 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)L77.CB) [> 4.6694 = 7.7823 < 10.1170] w=0.0801 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)F102.CB) [> 4.1276 = 6.8793 < 8.9430] w=0.0801 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)L103.CB) [> 3.4195 = 5.6992 < 7.4090] w=0.0801 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)F104.CB) [> 4.2453 = 7.0755 < 9.1982] w=0.0801 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)L77.CB) [> 4.5595 = 7.5991 < 9.8788] w=0.0801 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)F104.CB) [> 2.8243 = 4.7072 < 6.1193] w=0.0801 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)V118.CB) [> 4.1901 = 6.9834 < 9.0785] w=0.0801 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)T106.CB) [> 4.6338 = 7.7230 < 10.0399] w=0.0801 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)Y105.CB) [> 3.2158 = 5.3597 < 6.9676] w=0.0801 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)F104.CB) [> 4.4846 = 7.4743 < 9.7166] w=0.0801 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)S78.CB) [> 3.8594 = 6.4324 < 8.3621] w=0.0801 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)T106.CB) [> 4.1873 = 6.9788 < 9.0724] w=0.0801 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)Y105.CB) [> 4.5641 = 7.6067 < 9.8888] w=0.0801 to align # Constraint # added constraint: constraint((T0299)D101.CB, (T0299)I135.CB) [> 4.2788 = 7.1313 < 9.2707] w=0.0801 to align # Constraint # added constraint: constraint((T0299)L6.CB, (T0299)I45.CB) [> 3.8529 = 6.4215 < 8.3480] w=0.0800 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)I45.CB) [> 4.3540 = 7.2566 < 9.4337] w=0.0800 to align # Constraint # added constraint: constraint((T0299)V13.CB, (T0299)L77.CB) [> 4.7023 = 7.8372 < 10.1884] w=0.0800 to align # Constraint # added constraint: constraint((T0299)V13.CB, (T0299)S78.CB) [> 4.1001 = 6.8336 < 8.8836] w=0.0800 to align # Constraint # added constraint: constraint((T0299)S75.CB, (T0299)I174.CB) [> 4.1566 = 6.9276 < 9.0059] w=0.0800 to align # Constraint # added constraint: constraint((T0299)D101.CB, (T0299)M177.CB) [> 4.0057 = 6.6761 < 8.6789] w=0.0800 to align # Constraint # added constraint: constraint((T0299)L103.CB, (T0299)K173.CB) [> 4.2320 = 7.0534 < 9.1694] w=0.0800 to align # Constraint # added constraint: constraint((T0299)L103.CB, (T0299)I174.CB) [> 4.5201 = 7.5334 < 9.7934] w=0.0800 to align # Constraint # added constraint: constraint((T0299)Y105.CB, (T0299)T170.CB) [> 3.6756 = 6.1260 < 7.9638] w=0.0800 to align # Constraint # added constraint: constraint((T0299)Y105.CB, (T0299)K132.CB) [> 3.9428 = 6.5713 < 8.5427] w=0.0795 to align # Constraint # added constraint: constraint((T0299)H151.CB, (T0299)I163.CB) [> 4.6874 = 7.8124 < 10.1561] w=0.0784 to align # Constraint # added constraint: constraint((T0299)R3.CB, (T0299)S38.CB) [> 2.6953 = 4.4921 < 5.8398] w=0.0783 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)D101.CB) [> 2.8747 = 4.7911 < 6.2284] w=0.0781 to align # Constraint # added constraint: constraint((T0299)F70.CB, (T0299)Y105.CB) [> 2.8559 = 4.7599 < 6.1878] w=0.0781 to align # Constraint # added constraint: constraint((T0299)T148.CB, (T0299)F171.CB) [> 3.2225 = 5.3709 < 6.9822] w=0.0776 to align # Constraint # added constraint: constraint((T0299)I40.CB, (T0299)E61.CB) [> 4.2914 = 7.1524 < 9.2981] w=0.0757 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)E61.CB) [> 4.7158 = 7.8596 < 10.2175] w=0.0757 to align # Constraint # added constraint: constraint((T0299)K147.CB, (T0299)F171.CB) [> 4.1314 = 6.8857 < 8.9514] w=0.0755 to align # Constraint # added constraint: constraint((T0299)E61.CB, (T0299)S75.CB) [> 4.0881 = 6.8134 < 8.8575] w=0.0754 to align # Constraint # added constraint: constraint((T0299)N44.CB, (T0299)F136.CB) [> 4.3470 = 7.2450 < 9.4185] w=0.0753 to align # Constraint # added constraint: constraint((T0299)N44.CB, (T0299)L103.CB) [> 4.1687 = 6.9479 < 9.0322] w=0.0753 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)F136.CB) [> 4.6431 = 7.7385 < 10.0601] w=0.0753 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)F104.CB) [> 4.4729 = 7.4549 < 9.6914] w=0.0753 to align # Constraint # added constraint: constraint((T0299)S75.CB, (T0299)I135.CB) [> 3.9183 = 6.5304 < 8.4896] w=0.0735 to align # Constraint # added constraint: constraint((T0299)F74.CB, (T0299)V118.CB) [> 3.9377 = 6.5629 < 8.5317] w=0.0732 to align # Constraint # added constraint: constraint((T0299)V118.CB, (T0299)S141.CB) [> 4.7346 = 7.8910 < 10.2583] w=0.0728 to align # Constraint # added constraint: constraint((T0299)L121.CB, (T0299)S141.CB) [> 4.2830 = 7.1383 < 9.2798] w=0.0728 to align # Constraint # added constraint: constraint((T0299)E61.CB, (T0299)L76.CB) [> 4.4283 = 7.3805 < 9.5946] w=0.0723 to align # Constraint # added constraint: constraint((T0299)F74.CB, (T0299)L121.CB) [> 4.0090 = 6.6816 < 8.6861] w=0.0717 to align # Constraint # added constraint: constraint((T0299)S73.CB, (T0299)L121.CB) [> 3.6809 = 6.1348 < 7.9752] w=0.0717 to align # Constraint # added constraint: constraint((T0299)S73.CB, (T0299)I135.CB) [> 4.3126 = 7.1877 < 9.3440] w=0.0711 to align # Constraint # added constraint: constraint((T0299)S73.CB, (T0299)F136.CB) [> 3.5295 = 5.8825 < 7.6472] w=0.0711 to align # Constraint # added constraint: constraint((T0299)L76.CB, (T0299)I135.CB) [> 3.4631 = 5.7719 < 7.5035] w=0.0711 to align # Constraint # added constraint: constraint((T0299)S78.CB, (T0299)I135.CB) [> 3.8402 = 6.4004 < 8.3205] w=0.0710 to align # Constraint # added constraint: constraint((T0299)S78.CB, (T0299)G134.CA) [> 4.0690 = 6.7816 < 8.8161] w=0.0710 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)F74.CB) [> 4.7344 = 7.8906 < 10.2578] w=0.0704 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)S73.CB) [> 3.9724 = 6.6207 < 8.6069] w=0.0704 to align # Constraint # added constraint: constraint((T0299)F74.CB, (T0299)S141.CB) [> 4.5214 = 7.5356 < 9.7963] w=0.0704 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)S78.CB) [> 4.0353 = 6.7255 < 8.7432] w=0.0655 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)V19.CB) [> 4.4632 = 7.4387 < 9.6703] w=0.0635 to align # Constraint # added constraint: constraint((T0299)S75.CB, (T0299)F136.CB) [> 3.7657 = 6.2762 < 8.1590] w=0.0574 to align # Constraint # added constraint: constraint((T0299)E122.CB, (T0299)K132.CB) [> 3.8441 = 6.4068 < 8.3288] w=0.0568 to align # Constraint # added constraint: constraint((T0299)Y39.CB, (T0299)D101.CB) [> 4.6862 = 7.8103 < 10.1534] w=0.0437 to align # Constraint # added constraint: constraint((T0299)L155.CB, (T0299)G175.CA) [> 4.2504 = 7.0840 < 9.2092] w=0.0429 to align # Constraint # added constraint: constraint((T0299)H151.CB, (T0299)G175.CA) [> 4.2586 = 7.0977 < 9.2270] w=0.0429 to align # Constraint # added constraint: constraint((T0299)G138.CA, (T0299)I165.CB) [> 4.7741 = 7.9569 < 10.3440] w=0.0423 to align # Constraint # added constraint: constraint((T0299)S141.CB, (T0299)A168.CB) [> 4.1073 = 6.8455 < 8.8992] w=0.0423 to align # Constraint # added constraint: constraint((T0299)S141.CB, (T0299)K169.CB) [> 3.8913 = 6.4855 < 8.4311] w=0.0423 to align # Constraint # added constraint: constraint((T0299)K152.CB, (T0299)I165.CB) [> 2.2404 = 3.7340 < 4.8541] w=0.0423 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)Y105.CB) [> 3.1032 = 5.1720 < 6.7236] w=0.0416 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)K132.CB) [> 3.9261 = 6.5435 < 8.5065] w=0.0416 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)T164.CB) [> 4.6384 = 7.7307 < 10.0499] w=0.0416 to align # Constraint # added constraint: constraint((T0299)V13.CB, (T0299)S38.CB) [> 4.0968 = 6.8281 < 8.8765] w=0.0416 to align # Constraint # added constraint: constraint((T0299)N41.CB, (T0299)I165.CB) [> 4.4759 = 7.4598 < 9.6977] w=0.0416 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)T164.CB) [> 2.7248 = 4.5414 < 5.9038] w=0.0416 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)I165.CB) [> 3.6231 = 6.0386 < 7.8501] w=0.0416 to align # Constraint # added constraint: constraint((T0299)S49.CB, (T0299)T164.CB) [> 4.6724 = 7.7873 < 10.1235] w=0.0416 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)F136.CB) [> 2.6974 = 4.4957 < 5.8443] w=0.0409 to align # Constraint # added constraint: constraint((T0299)V8.CB, (T0299)V118.CB) [> 3.9074 = 6.5123 < 8.4660] w=0.0409 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)G134.CA) [> 4.0907 = 6.8178 < 8.8632] w=0.0409 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)I135.CB) [> 3.5222 = 5.8703 < 7.6315] w=0.0409 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)F136.CB) [> 4.5503 = 7.5838 < 9.8589] w=0.0409 to align # Constraint # added constraint: constraint((T0299)R9.CB, (T0299)S141.CB) [> 3.4698 = 5.7831 < 7.5180] w=0.0409 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)G134.CA) [> 4.7710 = 7.9516 < 10.3371] w=0.0409 to align # Constraint # added constraint: constraint((T0299)R3.CB, (T0299)E34.CB) [> 4.4723 = 7.4538 < 9.6899] w=0.0409 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)I135.CB) [> 3.6053 = 6.0089 < 7.8116] w=0.0409 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)F136.CB) [> 4.1484 = 6.9139 < 8.9881] w=0.0409 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)S141.CB) [> 3.4032 = 5.6720 < 7.3736] w=0.0409 to align # Constraint # added constraint: constraint((T0299)T106.CB, (T0299)G134.CA) [> 2.8178 = 4.6964 < 6.1053] w=0.0407 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)Q72.CB) [> 4.4607 = 7.4345 < 9.6649] w=0.0407 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)S73.CB) [> 3.3456 = 5.5761 < 7.2489] w=0.0407 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)F74.CB) [> 4.3440 = 7.2401 < 9.4121] w=0.0407 to align # Constraint # added constraint: constraint((T0299)F46.CB, (T0299)S73.CB) [> 4.6285 = 7.7141 < 10.0284] w=0.0407 to align # Constraint # added constraint: constraint((T0299)G134.CA, (T0299)M177.CB) [> 4.4953 = 7.4921 < 9.7398] w=0.0407 to align # Constraint # added constraint: constraint((T0299)L155.CB, (T0299)M177.CB) [> 3.2302 = 5.3837 < 6.9988] w=0.0407 to align # Constraint # added constraint: constraint((T0299)V157.CB, (T0299)K173.CB) [> 3.9968 = 6.6613 < 8.6597] w=0.0407 to align # Constraint # added constraint: constraint((T0299)V118.CB, (T0299)I163.CB) [> 4.6355 = 7.7259 < 10.0436] w=0.0407 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)L121.CB) [> 4.5958 = 7.6597 < 9.9577] w=0.0401 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)E122.CB) [> 4.3539 = 7.2565 < 9.4335] w=0.0401 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)L121.CB) [> 4.6722 = 7.7870 < 10.1231] w=0.0401 to align # Constraint # added constraint: constraint((T0299)H151.CB, (T0299)N167.CB) [> 4.4166 = 7.3610 < 9.5693] w=0.0400 to align # Constraint # added constraint: constraint((T0299)F104.CB, (T0299)E122.CB) [> 3.7100 = 6.1834 < 8.0384] w=0.0400 to align # Constraint # added constraint: constraint((T0299)T106.CB, (T0299)E122.CB) [> 4.3389 = 7.2314 < 9.4009] w=0.0400 to align # Constraint # added constraint: constraint((T0299)G10.CA, (T0299)F74.CB) [> 4.2755 = 7.1259 < 9.2636] w=0.0400 to align # Constraint # added constraint: constraint((T0299)A149.CB, (T0299)D172.CB) [> 3.6210 = 6.0350 < 7.8455] w=0.0400 to align # Constraint # added constraint: constraint((T0299)L77.CB, (T0299)P90.CB) [> 4.3806 = 7.3010 < 9.4913] w=0.0389 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)G134.CA) [> 4.7499 = 7.9166 < 10.2916] w=0.0377 to align # Constraint # added constraint: constraint((T0299)G43.CA, (T0299)I135.CB) [> 4.1122 = 6.8536 < 8.9097] w=0.0377 to align # Constraint # added constraint: constraint((T0299)N44.CB, (T0299)T106.CB) [> 2.6088 = 4.3480 < 5.6524] w=0.0377 to align # Constraint # added constraint: constraint((T0299)N44.CB, (T0299)G134.CA) [> 4.0356 = 6.7261 < 8.7439] w=0.0377 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)G134.CA) [> 3.0192 = 5.0320 < 6.5416] w=0.0377 to align # Constraint # added constraint: constraint((T0299)F46.CB, (T0299)Y105.CB) [> 4.4038 = 7.3397 < 9.5416] w=0.0377 to align # Constraint # added constraint: constraint((T0299)F46.CB, (T0299)V118.CB) [> 4.1732 = 6.9553 < 9.0419] w=0.0377 to align # Constraint # added constraint: constraint((T0299)F46.CB, (T0299)K132.CB) [> 4.3636 = 7.2726 < 9.4544] w=0.0377 to align # Constraint # added constraint: constraint((T0299)K132.CB, (T0299)F171.CB) [> 2.9615 = 4.9359 < 6.4167] w=0.0377 to align # Constraint # added constraint: constraint((T0299)E61.CB, (T0299)D101.CB) [> 4.1636 = 6.9394 < 9.0212] w=0.0375 to align # Constraint # added constraint: constraint((T0299)F102.CB, (T0299)S141.CB) [> 4.4413 = 7.4021 < 9.6227] w=0.0364 to align # Constraint # added constraint: constraint((T0299)D101.CB, (T0299)S141.CB) [> 4.7186 = 7.8643 < 10.2236] w=0.0364 to align # Constraint # added constraint: constraint((T0299)Q72.CB, (T0299)E122.CB) [> 3.9142 = 6.5237 < 8.4808] w=0.0361 to align # Constraint # added constraint: constraint((T0299)S73.CB, (T0299)E122.CB) [> 2.8725 = 4.7875 < 6.2237] w=0.0361 to align # Constraint # added constraint: constraint((T0299)F74.CB, (T0299)E122.CB) [> 3.5764 = 5.9606 < 7.7488] w=0.0361 to align # Constraint # added constraint: constraint((T0299)S73.CB, (T0299)G134.CA) [> 3.8235 = 6.3725 < 8.2842] w=0.0356 to align # Constraint # added constraint: constraint((T0299)F74.CB, (T0299)T106.CB) [> 4.1435 = 6.9058 < 8.9776] w=0.0356 to align # Constraint # added constraint: constraint((T0299)Q72.CB, (T0299)F136.CB) [> 4.5601 = 7.6002 < 9.8803] w=0.0356 to align # Constraint # added constraint: constraint((T0299)L121.CB, (T0299)F136.CB) [> 4.1913 = 6.9856 < 9.0813] w=0.0356 to align # Constraint # added constraint: constraint((T0299)S78.CB, (T0299)K132.CB) [> 4.0077 = 6.6795 < 8.6833] w=0.0356 to align # Constraint # added constraint: constraint((T0299)L77.CB, (T0299)G134.CA) [> 4.7450 = 7.9083 < 10.2808] w=0.0356 to align # Constraint # added constraint: constraint((T0299)L76.CB, (T0299)F136.CB) [> 4.5305 = 7.5508 < 9.8161] w=0.0356 to align # Constraint # added constraint: constraint((T0299)L76.CB, (T0299)G134.CA) [> 3.4804 = 5.8006 < 7.5408] w=0.0356 to align # Constraint # added constraint: constraint((T0299)L76.CB, (T0299)L121.CB) [> 3.9783 = 6.6305 < 8.6197] w=0.0356 to align # Constraint # added constraint: constraint((T0299)F74.CB, (T0299)G134.CA) [> 3.5464 = 5.9107 < 7.6839] w=0.0356 to align # Constraint # added constraint: constraint((T0299)F74.CB, (T0299)I135.CB) [> 3.3741 = 5.6235 < 7.3105] w=0.0356 to align # Constraint # added constraint: constraint((T0299)F74.CB, (T0299)F136.CB) [> 4.5735 = 7.6225 < 9.9093] w=0.0356 to align # Constraint # added constraint: constraint((T0299)L76.CB, (T0299)V118.CB) [> 3.3612 = 5.6021 < 7.2827] w=0.0356 to align # Constraint # added constraint: constraint((T0299)L76.CB, (T0299)I163.CB) [> 4.4359 = 7.3931 < 9.6111] w=0.0355 to align # Constraint # added constraint: constraint((T0299)L76.CB, (T0299)S141.CB) [> 4.6023 = 7.6705 < 9.9717] w=0.0355 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)L121.CB) [> 4.1875 = 6.9791 < 9.0729] w=0.0355 to align # Constraint # added constraint: constraint((T0299)E61.CB, (T0299)L121.CB) [> 4.5293 = 7.5488 < 9.8134] w=0.0355 to align # Constraint # added constraint: constraint((T0299)E87.CB, (T0299)I163.CB) [> 3.6383 = 6.0638 < 7.8830] w=0.0355 to align # Constraint # added constraint: constraint((T0299)L154.CB, (T0299)I163.CB) [> 2.3560 = 3.9266 < 5.1046] w=0.0355 to align # Constraint # added constraint: constraint((T0299)S78.CB, (T0299)T164.CB) [> 4.3563 = 7.2606 < 9.4387] w=0.0355 to align # Constraint # added constraint: constraint((T0299)S78.CB, (T0299)F136.CB) [> 3.7460 = 6.2433 < 8.1163] w=0.0355 to align # Constraint # added constraint: constraint((T0299)L77.CB, (T0299)F136.CB) [> 3.2933 = 5.4888 < 7.1354] w=0.0355 to align # Constraint # added constraint: constraint((T0299)L77.CB, (T0299)I135.CB) [> 3.3741 = 5.6235 < 7.3105] w=0.0355 to align # Constraint # added constraint: constraint((T0299)D81.CB, (T0299)A168.CB) [> 4.7402 = 7.9003 < 10.2704] w=0.0355 to align # Constraint # added constraint: constraint((T0299)A5.CB, (T0299)L76.CB) [> 4.2045 = 7.0075 < 9.1097] w=0.0352 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)S73.CB) [> 3.6250 = 6.0416 < 7.8541] w=0.0231 to align # Constraint # added constraint: constraint((T0299)L7.CB, (T0299)E61.CB) [> 4.5401 = 7.5668 < 9.8368] w=0.0231 to align # Constraint # added constraint: constraint((T0299)R3.CB, (T0299)Q72.CB) [> 4.3099 = 7.1831 < 9.3380] w=0.0231 to align # Constraint # added constraint: constraint((T0299)T2.CB, (T0299)Q72.CB) [> 3.2376 = 5.3960 < 7.0148] w=0.0231 to align # Constraint # added constraint: constraint((T0299)T2.CB, (T0299)I71.CB) [> 3.6777 = 6.1294 < 7.9683] w=0.0231 to align # Constraint # added constraint: constraint((T0299)T2.CB, (T0299)F70.CB) [> 3.6731 = 6.1218 < 7.9584] w=0.0231 to align # Constraint # added constraint: constraint((T0299)I45.CB, (T0299)T106.CB) [> 3.3911 = 5.6518 < 7.3473] w=0.0218 to align # Constraint # added constraint: constraint((T0299)E122.CB, (T0299)I135.CB) [> 4.3488 = 7.2480 < 9.4224] w=0.0218 to align # Constraint # added constraint: constraint((T0299)S38.CB, (T0299)R161.CB) [> 4.3836 = 7.3060 < 9.4978] w=0.0161 to align # Constraint # added constraint: constraint((T0299)Y39.CB, (T0299)R161.CB) [> 3.0384 = 5.0640 < 6.5832] w=0.0161 to align # Constraint # added constraint: constraint((T0299)S75.CB, (T0299)G134.CA) [> 3.9310 = 6.5516 < 8.5171] w=0.0161 to align # Constraint # added constraint: constraint((T0299)L77.CB, (T0299)R161.CB) [> 4.5325 = 7.5541 < 9.8203] w=0.0161 to align # Constraint # added constraint: constraint((T0299)S78.CB, (T0299)D101.CB) [> 3.8312 = 6.3853 < 8.3009] w=0.0161 to align # SetCost created cost = # ( 1.0000 * align ) # command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0299/ # command:# reading script from file servers-clean.under # Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0299/decoys/ # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 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 T0299 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 # Found a chain break before 170 # copying to AlignedFragments data structure # 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 T0299 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 T0299 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 # Found a chain break before 168 # copying to AlignedFragments data structure # 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 75 # 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 169 # 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 87 # 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 135 # 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 128 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS5 # ReadConformPDB reading from PDB file servers/ABIpro_TS1.pdb.gz looking for model 1 # Found a chain break before 128 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS1 # ReadConformPDB reading from PDB file servers/ABIpro_TS2.pdb.gz looking for model 1 # Found a chain break before 116 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS2 # ReadConformPDB reading from PDB file servers/ABIpro_TS3.pdb.gz looking for model 1 # Found a chain break before 125 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS3 # ReadConformPDB reading from PDB file servers/ABIpro_TS4.pdb.gz looking for model 1 # Found a chain break before 102 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS4 # ReadConformPDB reading from PDB file servers/ABIpro_TS5.pdb.gz looking for model 1 # Found a chain break before 165 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS5 # ReadConformPDB reading from PDB file servers/BayesHH_TS1.pdb.gz looking for model 1 # Found a chain break before 117 # 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 176 # 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 176 # 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 176 # 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 176 # 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 176 # 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 175 # 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 171 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS2 # ReadConformPDB reading from PDB file servers/CIRCLE_TS3.pdb.gz looking for model 1 # Found a chain break before 179 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS3 # ReadConformPDB reading from PDB file servers/CIRCLE_TS4.pdb.gz looking for model 1 # Found a chain break before 170 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS4 # ReadConformPDB reading from PDB file servers/CIRCLE_TS5.pdb.gz looking for model 1 # Found a chain break before 164 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS5 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS1.pdb.gz looking for model 1 # Found a chain break before 166 # copying to AlignedFragments data structure # naming current conformation CaspIta-FOX_TS1 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 can't currently be optimized by undertaker # naming current conformation Distill_TS5 # ReadConformPDB reading from PDB file servers/FAMSD_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # 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 T0299 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FAMSD_TS2 # ReadConformPDB reading from PDB file servers/FAMSD_TS3.pdb.gz looking for model 1 # Found a chain break before 176 # copying to AlignedFragments data structure # naming current conformation FAMSD_TS3 # ReadConformPDB reading from PDB file servers/FAMSD_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FAMSD_TS4 # ReadConformPDB reading from PDB file servers/FAMSD_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 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 170 # 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 176 # copying to AlignedFragments data structure # naming current conformation FAMS_TS2 # ReadConformPDB reading from PDB file servers/FAMS_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # naming current conformation FAMS_TS3 # ReadConformPDB reading from PDB file servers/FAMS_TS4.pdb.gz looking for model 1 # Found a chain break before 175 # copying to AlignedFragments data structure # naming current conformation FAMS_TS4 # ReadConformPDB reading from PDB file servers/FAMS_TS5.pdb.gz looking for model 1 # Found a chain break before 179 # copying to AlignedFragments data structure # naming current conformation FAMS_TS5 # ReadConformPDB reading from PDB file servers/FOLDpro_TS1.pdb.gz looking for model 1 # Found a chain break before 161 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS1 # ReadConformPDB reading from PDB file servers/FOLDpro_TS2.pdb.gz looking for model 1 # naming current conformation FOLDpro_TS2 # ReadConformPDB reading from PDB file servers/FOLDpro_TS3.pdb.gz looking for model 1 # naming current conformation FOLDpro_TS3 # ReadConformPDB reading from PDB file servers/FOLDpro_TS4.pdb.gz looking for model 1 # Found a chain break before 137 # 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 168 # 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 T0299 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FORTE1_AL1 # ReadConformPDB reading from PDB file servers/FORTE1_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # naming current conformation FORTE1_AL2 # ReadConformPDB reading from PDB file servers/FORTE1_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # naming current conformation FORTE1_AL3 # ReadConformPDB reading from PDB file servers/FORTE1_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 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 Skipped atom 55, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 60, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz # WARNING: incomplete conformation T0299 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 T0299 can't currently be optimized by undertaker # naming current conformation FORTE2_AL1 # ReadConformPDB reading from PDB file servers/FORTE2_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 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 55, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL3.pdb.gz Skipped atom 60, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL3.pdb.gz # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # naming current conformation FORTE2_AL3 # ReadConformPDB reading from PDB file servers/FORTE2_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 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 T0299 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 174 # 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 # 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 127 # 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 163 # 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 20 # 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 T0299 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS1 # ReadConformPDB reading from PDB file servers/FUGMOD_TS2.pdb.gz looking for model 1 # Found a chain break before 176 # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS2 # ReadConformPDB reading from PDB file servers/FUGMOD_TS3.pdb.gz looking for model 1 # Found a chain break before 164 # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS3 # ReadConformPDB reading from PDB file servers/FUGMOD_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 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 42 # 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 T0299 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FUGUE_AL1 # ReadConformPDB reading from PDB file servers/FUGUE_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FUGUE_AL2 # ReadConformPDB reading from PDB file servers/FUGUE_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 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 T0299 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 T0299 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 174 # 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 176 # 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 174 # 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 177 # 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 167 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS5 # ReadConformPDB reading from PDB file servers/Frankenstein_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Frankenstein_TS3 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS1.pdb.gz looking for model 1 # Found a chain break before 126 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS1 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS2.pdb.gz looking for model 1 # Found a chain break before 81 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS2 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS3.pdb.gz looking for model 1 # Found a chain break before 165 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS3 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS4.pdb.gz looking for model 1 # Found a chain break before 157 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS4 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS5.pdb.gz looking for model 1 # Found a chain break before 86 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS5 # ReadConformPDB reading from PDB file servers/HHpred1_TS1.pdb.gz looking for model 1 # naming current conformation HHpred1_TS1 # ReadConformPDB reading from PDB file servers/HHpred2_TS1.pdb.gz looking for model 1 # Found a chain break before 68 # 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 89 # 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 can't currently be optimized by undertaker # naming current conformation LOOPP_TS5 # ReadConformPDB reading from PDB file servers/MIG_FROST_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # naming current conformation MIG_FROST_AL1 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS1.pdb.gz looking for model 1 # Found a chain break before 137 # 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 141 # 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 131 # 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 178 # 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 134 # 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 167 # 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 166 # 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 167 # 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 179 # 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 166 # 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 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # 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 T0299 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 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # 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 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # naming current conformation PROTINFO_TS5 # ReadConformPDB reading from PDB file servers/Pcons6_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 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 # Found a chain break before 179 # copying to AlignedFragments data structure # naming current conformation Pcons6_TS2 # ReadConformPDB reading from PDB file servers/Pcons6_TS3.pdb.gz looking for model 1 # Found a chain break before 133 # copying to AlignedFragments data structure # naming current conformation Pcons6_TS3 # ReadConformPDB reading from PDB file servers/Pcons6_TS4.pdb.gz looking for model 1 # Found a chain break before 170 # copying to AlignedFragments data structure # naming current conformation Pcons6_TS4 # ReadConformPDB reading from PDB file servers/Pcons6_TS5.pdb.gz looking for model 1 # Found a chain break before 109 # copying to AlignedFragments data structure # naming current conformation Pcons6_TS5 # ReadConformPDB reading from PDB file servers/Phyre-1_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # naming current conformation Phyre-1_TS1 # ReadConformPDB reading from PDB file servers/Phyre-2_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # 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 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # 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 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # 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 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # 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 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # 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 # naming current conformation Pmodeller6_TS1 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS2.pdb.gz looking for model 1 # Found a chain break before 170 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS2 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS3.pdb.gz looking for model 1 # Found a chain break before 179 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS3 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS4.pdb.gz looking for model 1 # Found a chain break before 133 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS4 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS5.pdb.gz looking for model 1 # Found a chain break before 77 # 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 149 # 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 81 # 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 134 # 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 107 # 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 168 # 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 157 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS1 # ReadConformPDB reading from PDB file servers/RAPTORESS_TS2.pdb.gz looking for model 1 # naming current conformation RAPTORESS_TS2 # ReadConformPDB reading from PDB file servers/RAPTORESS_TS3.pdb.gz looking for model 1 # Found a chain break before 151 # 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 157 # 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 178 # 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 80 # 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 124 # 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 107 # 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 130 # 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 167 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS5 # ReadConformPDB reading from PDB file servers/ROBETTA_TS1.pdb.gz looking for model 1 # naming current conformation ROBETTA_TS1 # ReadConformPDB reading from PDB file servers/ROBETTA_TS2.pdb.gz looking for model 1 # Found a chain break before 167 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS2 # ReadConformPDB reading from PDB file servers/ROBETTA_TS3.pdb.gz looking for model 1 # naming current conformation ROBETTA_TS3 # ReadConformPDB reading from PDB file servers/ROBETTA_TS4.pdb.gz looking for model 1 # Found a chain break before 109 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS4 # ReadConformPDB reading from PDB file servers/ROBETTA_TS5.pdb.gz looking for model 1 # naming current conformation ROBETTA_TS5 # ReadConformPDB reading from PDB file servers/ROKKY_TS1.pdb.gz looking for model 1 WARNING: atoms too close: (T0299)K16.CA and (T0299)K16.CB only 0.000 apart, marking (T0299)K16.CB as missing WARNING: atoms too close: (T0299)K18.CA and (T0299)K18.CB only 0.000 apart, marking (T0299)K18.CB as missing WARNING: atoms too close: (T0299)N30.CA and (T0299)N30.CB only 0.000 apart, marking (T0299)N30.CB as missing WARNING: atoms too close: (T0299)K35.CA and (T0299)K35.CB only 0.000 apart, marking (T0299)K35.CB as missing WARNING: atoms too close: (T0299)I50.CA and (T0299)I50.CB only 0.000 apart, marking (T0299)I50.CB as missing WARNING: atoms too close: (T0299)Q72.CA and (T0299)Q72.CB only 0.000 apart, marking (T0299)Q72.CB as missing WARNING: atoms too close: (T0299)L79.CA and (T0299)L79.CB only 0.000 apart, marking (T0299)L79.CB as missing WARNING: atoms too close: (T0299)F82.CA and (T0299)F82.CB only 0.000 apart, marking (T0299)F82.CB as missing WARNING: atoms too close: (T0299)E85.CA and (T0299)E85.CB only 0.000 apart, marking (T0299)E85.CB as missing WARNING: atoms too close: (T0299)E87.CA and (T0299)E87.CB only 0.000 apart, marking (T0299)E87.CB as missing WARNING: atoms too close: (T0299)A91.CA and (T0299)A91.CB only 0.000 apart, marking (T0299)A91.CB as missing WARNING: atoms too close: (T0299)Y105.CA and (T0299)Y105.CB only 0.000 apart, marking (T0299)Y105.CB as missing WARNING: atoms too close: (T0299)E107.CA and (T0299)E107.CB only 0.000 apart, marking (T0299)E107.CB as missing WARNING: atoms too close: (T0299)E122.CA and (T0299)E122.CB only 0.000 apart, marking (T0299)E122.CB as missing WARNING: atoms too close: (T0299)F130.CA and (T0299)F130.CB only 0.000 apart, marking (T0299)F130.CB as missing WARNING: atoms too close: (T0299)K139.CA and (T0299)K139.CB only 0.000 apart, marking (T0299)K139.CB as missing WARNING: atoms too close: (T0299)E142.CA and (T0299)E142.CB only 0.000 apart, marking (T0299)E142.CB as missing WARNING: atoms too close: (T0299)Y150.CA and (T0299)Y150.CB only 0.000 apart, marking (T0299)Y150.CB as missing WARNING: atoms too close: (T0299)K173.CA and (T0299)K173.CB only 0.000 apart, marking (T0299)K173.CB as missing # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS1 # ReadConformPDB reading from PDB file servers/ROKKY_TS2.pdb.gz looking for model 1 WARNING: atoms too close: (T0299)K16.CA and (T0299)K16.CB only 0.000 apart, marking (T0299)K16.CB as missing WARNING: atoms too close: (T0299)M21.CA and (T0299)M21.CB only 0.000 apart, marking (T0299)M21.CB as missing WARNING: atoms too close: (T0299)L33.CA and (T0299)L33.CB only 0.000 apart, marking (T0299)L33.CB as missing WARNING: atoms too close: (T0299)S49.CA and (T0299)S49.CB only 0.000 apart, marking (T0299)S49.CB as missing WARNING: atoms too close: (T0299)I50.CA and (T0299)I50.CB only 0.000 apart, marking (T0299)I50.CB as missing WARNING: atoms too close: (T0299)V66.CA and (T0299)V66.CB only 0.000 apart, marking (T0299)V66.CB as missing WARNING: atoms too close: (T0299)P69.CA and (T0299)P69.CB only 0.000 apart, marking (T0299)P69.CB as missing WARNING: atoms too close: (T0299)L103.CA and (T0299)L103.CB only 0.000 apart, marking (T0299)L103.CB as missing WARNING: atoms too close: (T0299)V111.CA and (T0299)V111.CB only 0.000 apart, marking (T0299)V111.CB as missing WARNING: atoms too close: (T0299)E126.CA and (T0299)E126.CB only 0.000 apart, marking (T0299)E126.CB as missing WARNING: atoms too close: (T0299)Y129.CA and (T0299)Y129.CB only 0.000 apart, marking (T0299)Y129.CB as missing WARNING: atoms too close: (T0299)L133.CA and (T0299)L133.CB only 0.000 apart, marking (T0299)L133.CB as missing WARNING: atoms too close: (T0299)F136.CA and (T0299)F136.CB only 0.000 apart, marking (T0299)F136.CB as missing WARNING: atoms too close: (T0299)Y145.CA and (T0299)Y145.CB only 0.000 apart, marking (T0299)Y145.CB as missing WARNING: atoms too close: (T0299)L155.CA and (T0299)L155.CB only 0.000 apart, marking (T0299)L155.CB as missing WARNING: atoms too close: (T0299)A168.CA and (T0299)A168.CB only 0.000 apart, marking (T0299)A168.CB as missing # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS2 # ReadConformPDB reading from PDB file servers/ROKKY_TS3.pdb.gz looking for model 1 WARNING: atoms too close: (T0299)V8.CA and (T0299)V8.CB only 0.000 apart, marking (T0299)V8.CB as missing WARNING: atoms too close: (T0299)I11.CA and (T0299)I11.CB only 0.000 apart, marking (T0299)I11.CB as missing WARNING: atoms too close: (T0299)R25.CA and (T0299)R25.CB only 0.000 apart, marking (T0299)R25.CB as missing WARNING: atoms too close: (T0299)N30.CA and (T0299)N30.CB only 0.000 apart, marking (T0299)N30.CB as missing WARNING: atoms too close: (T0299)K53.CA and (T0299)K53.CB only 0.000 apart, marking (T0299)K53.CB as missing WARNING: atoms too close: (T0299)E58.CA and (T0299)E58.CB only 0.000 apart, marking (T0299)E58.CB as missing WARNING: atoms too close: (T0299)K59.CA and (T0299)K59.CB only 0.000 apart, marking (T0299)K59.CB as missing WARNING: atoms too close: (T0299)F70.CA and (T0299)F70.CB only 0.000 apart, marking (T0299)F70.CB as missing WARNING: atoms too close: (T0299)F74.CA and (T0299)F74.CB only 0.000 apart, marking (T0299)F74.CB as missing WARNING: atoms too close: (T0299)F82.CA and (T0299)F82.CB only 0.000 apart, marking (T0299)F82.CB as missing WARNING: atoms too close: (T0299)E85.CA and (T0299)E85.CB only 0.000 apart, marking (T0299)E85.CB as missing WARNING: atoms too close: (T0299)N88.CA and (T0299)N88.CB only 0.000 apart, marking (T0299)N88.CB as missing WARNING: atoms too close: (T0299)W92.CA and (T0299)W92.CB only 0.000 apart, marking (T0299)W92.CB as missing WARNING: atoms too close: (T0299)A98.CA and (T0299)A98.CB only 0.000 apart, marking (T0299)A98.CB as missing WARNING: atoms too close: (T0299)K100.CA and (T0299)K100.CB only 0.000 apart, marking (T0299)K100.CB as missing WARNING: atoms too close: (T0299)E119.CA and (T0299)E119.CB only 0.000 apart, marking (T0299)E119.CB as missing WARNING: atoms too close: (T0299)L121.CA and (T0299)L121.CB only 0.000 apart, marking (T0299)L121.CB as missing WARNING: atoms too close: (T0299)E126.CA and (T0299)E126.CB only 0.000 apart, marking (T0299)E126.CB as missing WARNING: atoms too close: (T0299)F130.CA and (T0299)F130.CB only 0.000 apart, marking (T0299)F130.CB as missing WARNING: atoms too close: (T0299)K139.CA and (T0299)K139.CB only 0.000 apart, marking (T0299)K139.CB as missing WARNING: atoms too close: (T0299)Y145.CA and (T0299)Y145.CB only 0.000 apart, marking (T0299)Y145.CB as missing WARNING: atoms too close: (T0299)L155.CA and (T0299)L155.CB only 0.000 apart, marking (T0299)L155.CB as missing WARNING: atoms too close: (T0299)K180.CA and (T0299)K180.CB only 0.000 apart, marking (T0299)K180.CB as missing # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS3 # ReadConformPDB reading from PDB file servers/ROKKY_TS4.pdb.gz looking for model 1 WARNING: atoms too close: (T0299)Y4.CA and (T0299)Y4.CB only 0.000 apart, marking (T0299)Y4.CB as missing WARNING: atoms too close: (T0299)A5.CA and (T0299)A5.CB only 0.000 apart, marking (T0299)A5.CB as missing WARNING: atoms too close: (T0299)L6.CA and (T0299)L6.CB only 0.000 apart, marking (T0299)L6.CB as missing WARNING: atoms too close: (T0299)I11.CA and (T0299)I11.CB only 0.000 apart, marking (T0299)I11.CB as missing WARNING: atoms too close: (T0299)K16.CA and (T0299)K16.CB only 0.000 apart, marking (T0299)K16.CB as missing WARNING: atoms too close: (T0299)V19.CA and (T0299)V19.CB only 0.000 apart, marking (T0299)V19.CB as missing WARNING: atoms too close: (T0299)L33.CA and (T0299)L33.CB only 0.000 apart, marking (T0299)L33.CB as missing WARNING: atoms too close: (T0299)I45.CA and (T0299)I45.CB only 0.000 apart, marking (T0299)I45.CB as missing WARNING: atoms too close: (T0299)Y68.CA and (T0299)Y68.CB only 0.000 apart, marking (T0299)Y68.CB as missing WARNING: atoms too close: (T0299)P69.CA and (T0299)P69.CB only 0.000 apart, marking (T0299)P69.CB as missing WARNING: atoms too close: (T0299)F70.CA and (T0299)F70.CB only 0.000 apart, marking (T0299)F70.CB as missing WARNING: atoms too close: (T0299)Q72.CA and (T0299)Q72.CB only 0.000 apart, marking (T0299)Q72.CB as missing WARNING: atoms too close: (T0299)F82.CA and (T0299)F82.CB only 0.000 apart, marking (T0299)F82.CB as missing WARNING: atoms too close: (T0299)L89.CA and (T0299)L89.CB only 0.000 apart, marking (T0299)L89.CB as missing WARNING: atoms too close: (T0299)A91.CA and (T0299)A91.CB only 0.000 apart, marking (T0299)A91.CB as missing WARNING: atoms too close: (T0299)L128.CA and (T0299)L128.CB only 0.000 apart, marking (T0299)L128.CB as missing WARNING: atoms too close: (T0299)F130.CA and (T0299)F130.CB only 0.000 apart, marking (T0299)F130.CB as missing WARNING: atoms too close: (T0299)K132.CA and (T0299)K132.CB only 0.000 apart, marking (T0299)K132.CB as missing WARNING: atoms too close: (T0299)L133.CA and (T0299)L133.CB only 0.000 apart, marking (T0299)L133.CB as missing WARNING: atoms too close: (T0299)W137.CA and (T0299)W137.CB only 0.000 apart, marking (T0299)W137.CB as missing WARNING: atoms too close: (T0299)E143.CA and (T0299)E143.CB only 0.000 apart, marking (T0299)E143.CB as missing WARNING: atoms too close: (T0299)Y153.CA and (T0299)Y153.CB only 0.000 apart, marking (T0299)Y153.CB as missing WARNING: atoms too close: (T0299)K156.CA and (T0299)K156.CB only 0.000 apart, marking (T0299)K156.CB as missing # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS4 # ReadConformPDB reading from PDB file servers/ROKKY_TS5.pdb.gz looking for model 1 WARNING: atoms too close: (T0299)L28.CA and (T0299)L28.CB only 0.000 apart, marking (T0299)L28.CB as missing WARNING: atoms too close: (T0299)T29.CA and (T0299)T29.CB only 0.000 apart, marking (T0299)T29.CB as missing WARNING: atoms too close: (T0299)K35.CA and (T0299)K35.CB only 0.000 apart, marking (T0299)K35.CB as missing WARNING: atoms too close: (T0299)Y39.CA and (T0299)Y39.CB only 0.000 apart, marking (T0299)Y39.CB as missing WARNING: atoms too close: (T0299)S49.CA and (T0299)S49.CB only 0.000 apart, marking (T0299)S49.CB as missing WARNING: atoms too close: (T0299)D51.CA and (T0299)D51.CB only 0.000 apart, marking (T0299)D51.CB as missing WARNING: atoms too close: (T0299)F64.CA and (T0299)F64.CB only 0.000 apart, marking (T0299)F64.CB as missing WARNING: atoms too close: (T0299)V66.CA and (T0299)V66.CB only 0.000 apart, marking (T0299)V66.CB as missing WARNING: atoms too close: (T0299)Y68.CA and (T0299)Y68.CB only 0.000 apart, marking (T0299)Y68.CB as missing WARNING: atoms too close: (T0299)F74.CA and (T0299)F74.CB only 0.000 apart, marking (T0299)F74.CB as missing WARNING: atoms too close: (T0299)L76.CA and (T0299)L76.CB only 0.000 apart, marking (T0299)L76.CB as missing WARNING: atoms too close: (T0299)L79.CA and (T0299)L79.CB only 0.000 apart, marking (T0299)L79.CB as missing WARNING: atoms too close: (T0299)E80.CA and (T0299)E80.CB only 0.000 apart, marking (T0299)E80.CB as missing WARNING: atoms too close: (T0299)E85.CA and (T0299)E85.CB only 0.000 apart, marking (T0299)E85.CB as missing WARNING: atoms too close: (T0299)L86.CA and (T0299)L86.CB only 0.000 apart, marking (T0299)L86.CB as missing WARNING: atoms too close: (T0299)A91.CA and (T0299)A91.CB only 0.000 apart, marking (T0299)A91.CB as missing WARNING: atoms too close: (T0299)S94.CA and (T0299)S94.CB only 0.000 apart, marking (T0299)S94.CB as missing WARNING: atoms too close: (T0299)L103.CA and (T0299)L103.CB only 0.000 apart, marking (T0299)L103.CB as missing WARNING: atoms too close: (T0299)V118.CA and (T0299)V118.CB only 0.000 apart, marking (T0299)V118.CB as missing WARNING: atoms too close: (T0299)E126.CA and (T0299)E126.CB only 0.000 apart, marking (T0299)E126.CB as missing WARNING: atoms too close: (T0299)K139.CA and (T0299)K139.CB only 0.000 apart, marking (T0299)K139.CB as missing WARNING: atoms too close: (T0299)S144.CA and (T0299)S144.CB only 0.000 apart, marking (T0299)S144.CB as missing WARNING: atoms too close: (T0299)L155.CA and (T0299)L155.CB only 0.000 apart, marking (T0299)L155.CB as missing WARNING: atoms too close: (T0299)P158.CA and (T0299)P158.CB only 0.000 apart, marking (T0299)P158.CB as missing WARNING: atoms too close: (T0299)F171.CA and (T0299)F171.CB only 0.000 apart, marking (T0299)F171.CB as missing # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS5 # ReadConformPDB reading from PDB file servers/SAM-T02_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 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 T0299 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 T0299 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 T0299 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 T0299 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL5 # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS1.pdb.gz looking for model 1 # Found a chain break before 165 # 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 T0299 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 T0299 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 T0299 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 T0299 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 # naming current conformation SP3_TS1 # ReadConformPDB reading from PDB file servers/SP3_TS2.pdb.gz looking for model 1 # Found a chain break before 171 # 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 89 # 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 157 # 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 89 # 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 133 # copying to AlignedFragments data structure # naming current conformation SP4_TS1 # ReadConformPDB reading from PDB file servers/SP4_TS2.pdb.gz looking for model 1 # naming current conformation SP4_TS2 # ReadConformPDB reading from PDB file servers/SP4_TS3.pdb.gz looking for model 1 # Found a chain break before 175 # 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 149 # 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 89 # 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 106 # 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 140 # 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 77 # 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 148 # 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 101 # 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 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 T0299 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL5 # ReadConformPDB reading from PDB file servers/Zhang-Server_TS1.pdb.gz looking for model 1 # Found a chain break before 161 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS1 # ReadConformPDB reading from PDB file servers/Zhang-Server_TS2.pdb.gz looking for model 1 # Found a chain break before 161 # 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 174 # 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 166 # 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 177 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS5 # ReadConformPDB reading from PDB file servers/beautshot_TS1.pdb.gz looking for model 1 # Found a chain break before 174 # copying to AlignedFragments data structure # naming current conformation beautshot_TS1 # ReadConformPDB reading from PDB file servers/beautshotbase_TS1.pdb.gz looking for model 1 # Found a chain break before 174 # copying to AlignedFragments data structure # naming current conformation beautshotbase_TS1 # ReadConformPDB reading from PDB file servers/forecast-s_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 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 T0299 can't currently be optimized by undertaker # naming current conformation forecast-s_AL2 # ReadConformPDB reading from PDB file servers/forecast-s_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 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 Skipped atom 5, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL4.pdb.gz # WARNING: incomplete conformation T0299 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 T0299 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 74 # 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 92 # 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 97 # 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 177 # 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 152 # 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 178 # 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 177 # 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: (T0299)G131.O and (T0299)K132.N only 0.000 apart, marking (T0299)K132.N as missing # WARNING: incomplete conformation T0299 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 177 # 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 179 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS5 # ReadConformPDB reading from PDB file servers/keasar-server_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # naming current conformation keasar-server_TS1 # ReadConformPDB reading from PDB file servers/keasar-server_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # naming current conformation keasar-server_TS2 # ReadConformPDB reading from PDB file servers/keasar-server_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # naming current conformation keasar-server_TS3 # ReadConformPDB reading from PDB file servers/keasar-server_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # naming current conformation keasar-server_TS4 # ReadConformPDB reading from PDB file servers/keasar-server_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 can't currently be optimized by undertaker # naming current conformation keasar-server_TS5 # ReadConformPDB reading from PDB file servers/mGen-3D_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 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 T0299 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation nFOLD_TS1 # ReadConformPDB reading from PDB file servers/nFOLD_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 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 T0299 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation nFOLD_TS3 # ReadConformPDB reading from PDB file servers/nFOLD_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0299 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 T0299 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: incomplete conformation T0299 can't currently be optimized by undertaker # naming current conformation panther2_TS1 # ReadConformPDB reading from PDB file servers/shub_TS1.pdb.gz looking for model 1 # Found a chain break before 169 # copying to AlignedFragments data structure # naming current conformation shub_TS1 # command:Using radius: 8.0000 Using models AND alignments for constraints model score 1.3326 model score 1.2854 model score 1.6941 model score 1.3220 model score 1.2773 model score 1.6190 model score 1.2723 model score 1.3906 model score 1.2745 model score 1.2745 model score 1.4858 model score 2.0076 model score 1.7585 model score 1.3903 model score 1.2745 model score 1.9855 model score 1.9076 model score 1.8731 model score 2.2919 model score 1.0554 model score 1.0554 model score 1.0678 model score 1.4179 model score 1.3577 model score 1.1951 model score 1.6438 model score 1.5355 model score 1.5278 model score 1.5386 model score 1.5324 model score 1.5352 model score 1.7218 model score 1.6614 model score 1.1508 model score 1.7303 model score 1.7838 model score 1.8504 model score 1.4803 model score 1.4888 model score 1.2657 model score 1.5943 model score 1.2809 model score 1.2787 model score 1.2797 model score 1.2786 model score 1.2803 model score 1.8586 model score 0.9531 model score 1.8698 model score 0.9479 model score 1.4302 model score 1.7303 model score 1.8698 model score 1.2692 model score 1.7218 model score 1.1508 model score 2.2875 model score 1.9613 model score 1.9753 model score 2.1036 model score 1.7819 model score 1.2849 model score 1.2771 model score 1.2794 model score 1.2788 model score 1.2769 model score 1.2771 model score 1.2794 model score 1.2769 model score 1.2771 model score 1.2832 model score 2.1225 model score 2.3984 model score 2.2432 model score 2.3661 model score 2.4365 model score 1.7676 model score 1.5584 model score 2.2288 model score 1.3409 model score 1.8432 model score 1.2831 model score 1.2755 model score 1.2819 model score 1.2731 model score 1.2792 model score 2.0866 model score 1.8626 model score 2.0327 model score 2.3292 model score 2.4591 model score 1.8984 model score 1.6462 model score 1.7129 model score 2.1672 model score 1.8499 model score 1.8094 model score 3.0324 model score 2.4182 model score 1.8532 model score 1.9997 model score 0.9265 model score 1.7802 model score 2.0730 model score 1.3326 model score 1.2747 model score 1.6270 model score 1.3840 model score 1.3250 model score 1.5122 model score 1.2767 model score 1.6956 model score 1.8926 model score 1.3187 model score 1.4166 model score 1.4321 model score 1.0212 model score 0.9993 model score 1.2342 model score 0.8729 model score 1.0393 model score 1.2747 model score 1.4732 model score 1.4939 model score 1.4665 model score 1.4490 model score 1.4797 model score 1.4305 model score 1.4939 model score 1.4867 model score 1.4490 model score 1.3890 model score 1.3140 model score 1.2027 model score 1.3395 model score 1.3714 model score 1.3599 model score 1.2784 model score 1.7752 model score 2.0761 model score 1.9116 model score 1.8218 model score 2.0036 model score 1.0596 model score 1.3714 model score 1.2027 model score 1.3395 model score 1.6624 model score 0.7978 model score 1.8106 model score 1.1981 model score 1.6435 model score 1.1082 model score 1.2963 model score 1.0553 model score 1.3684 model score 1.1655 model score 1.2692 model score 1.0398 model score 1.3587 model score 0.8653 model score 1.1044 model score 1.3385 model score 1.0596 model score 1.3227 model score 1.3817 model score 1.3599 model score 1.5840 model score 1.7864 model score 1.7878 model score 1.6727 model score 1.9914 model score 1.5347 model score 1.2771 model score 1.2794 model score 1.2773 model score 1.2771 model score 1.2771 model score 1.8480 model score 1.2216 model score 1.3279 model score 1.1400 model score 1.0167 model score 1.7178 model score 1.3810 model score 1.8845 model score 1.6890 model score 1.6419 model score 1.2128 model score 1.6334 model score 1.7232 model score 0.8020 model score 1.8234 model score 1.3326 model score 2.1303 model score 1.1388 model score 1.7252 model score 2.1605 model score 1.2775 model score 1.2772 model score 1.2797 model score 1.2801 model score 1.2804 model score 1.4978 model score 1.2775 model score 1.2771 model score 1.2771 model score 1.2797 model score 1.2801 model score 1.3475 model score 0.9533 model score 0.7931 model score 1.0717 model score 0.9142 model score 1.0982 model score 1.4524 model score 1.2771 model score 1.2810 model score 1.2778 model score 1.2773 model score 1.2771 model score 1.1057 model score 1.5786 model score 1.7684 model score 1.3125 model score 1.4144 model score 2.1645 model score 2.3141 model score 1.8332 model score 2.0812 model score 1.8235 model score 1.5641 model score 1.5233 model score 1.3808 model score 1.5048 model score 1.5454 model score 1.4110 model score 2.0215 model score 1.7459 model score 1.8199 model score 2.2548 model score 1.6090 model score 1.2848 model score 1.5695 USE_META, weight: 0.7831 cost: 1.3326 min: 0.7931 max: 3.0324 USE_META, weight: 0.8021 cost: 1.2854 min: 0.7931 max: 3.0324 USE_META, weight: 0.6379 cost: 1.6941 min: 0.7931 max: 3.0324 USE_META, weight: 0.7874 cost: 1.3220 min: 0.7931 max: 3.0324 USE_META, weight: 0.8054 cost: 1.2773 min: 0.7931 max: 3.0324 USE_META, weight: 0.6681 cost: 1.6190 min: 0.7931 max: 3.0324 USE_META, weight: 0.8074 cost: 1.2723 min: 0.7931 max: 3.0324 USE_META, weight: 0.7599 cost: 1.3906 min: 0.7931 max: 3.0324 USE_META, weight: 0.8065 cost: 1.2745 min: 0.7931 max: 3.0324 USE_META, weight: 0.8065 cost: 1.2745 min: 0.7931 max: 3.0324 USE_META, weight: 0.7216 cost: 1.4858 min: 0.7931 max: 3.0324 USE_META, weight: 0.5119 cost: 2.0076 min: 0.7931 max: 3.0324 USE_META, weight: 0.6120 cost: 1.7585 min: 0.7931 max: 3.0324 USE_META, weight: 0.7600 cost: 1.3903 min: 0.7931 max: 3.0324 USE_META, weight: 0.8065 cost: 1.2745 min: 0.7931 max: 3.0324 USE_META, weight: 0.5208 cost: 1.9855 min: 0.7931 max: 3.0324 USE_META, weight: 0.5521 cost: 1.9076 min: 0.7931 max: 3.0324 USE_META, weight: 0.5659 cost: 1.8731 min: 0.7931 max: 3.0324 USE_META, weight: 0.3976 cost: 2.2919 min: 0.7931 max: 3.0324 USE_META, weight: 0.8946 cost: 1.0554 min: 0.7931 max: 3.0324 USE_META, weight: 0.8946 cost: 1.0554 min: 0.7931 max: 3.0324 USE_META, weight: 0.8896 cost: 1.0678 min: 0.7931 max: 3.0324 USE_META, weight: 0.7489 cost: 1.4179 min: 0.7931 max: 3.0324 USE_META, weight: 0.7731 cost: 1.3577 min: 0.7931 max: 3.0324 USE_META, weight: 0.8384 cost: 1.1951 min: 0.7931 max: 3.0324 USE_META, weight: 0.6581 cost: 1.6438 min: 0.7931 max: 3.0324 USE_META, weight: 0.7016 cost: 1.5355 min: 0.7931 max: 3.0324 USE_META, weight: 0.7047 cost: 1.5278 min: 0.7931 max: 3.0324 USE_META, weight: 0.7004 cost: 1.5386 min: 0.7931 max: 3.0324 USE_META, weight: 0.7029 cost: 1.5324 min: 0.7931 max: 3.0324 USE_META, weight: 0.7017 cost: 1.5352 min: 0.7931 max: 3.0324 USE_META, weight: 0.6267 cost: 1.7218 min: 0.7931 max: 3.0324 USE_META, weight: 0.6510 cost: 1.6614 min: 0.7931 max: 3.0324 USE_META, weight: 0.8562 cost: 1.1508 min: 0.7931 max: 3.0324 USE_META, weight: 0.6233 cost: 1.7303 min: 0.7931 max: 3.0324 USE_META, weight: 0.6018 cost: 1.7838 min: 0.7931 max: 3.0324 USE_META, weight: 0.5751 cost: 1.8504 min: 0.7931 max: 3.0324 USE_META, weight: 0.7238 cost: 1.4803 min: 0.7931 max: 3.0324 USE_META, weight: 0.7204 cost: 1.4888 min: 0.7931 max: 3.0324 USE_META, weight: 0.8100 cost: 1.2657 min: 0.7931 max: 3.0324 USE_META, weight: 0.6780 cost: 1.5943 min: 0.7931 max: 3.0324 USE_META, weight: 0.8039 cost: 1.2809 min: 0.7931 max: 3.0324 USE_META, weight: 0.8048 cost: 1.2787 min: 0.7931 max: 3.0324 USE_META, weight: 0.8044 cost: 1.2797 min: 0.7931 max: 3.0324 USE_META, weight: 0.8049 cost: 1.2786 min: 0.7931 max: 3.0324 USE_META, weight: 0.8042 cost: 1.2803 min: 0.7931 max: 3.0324 USE_META, weight: 0.5718 cost: 1.8586 min: 0.7931 max: 3.0324 USE_META, weight: 0.9357 cost: 0.9531 min: 0.7931 max: 3.0324 USE_META, weight: 0.5673 cost: 1.8698 min: 0.7931 max: 3.0324 USE_META, weight: 0.9378 cost: 0.9479 min: 0.7931 max: 3.0324 USE_META, weight: 0.7439 cost: 1.4302 min: 0.7931 max: 3.0324 USE_META, weight: 0.6233 cost: 1.7303 min: 0.7931 max: 3.0324 USE_META, weight: 0.5673 cost: 1.8698 min: 0.7931 max: 3.0324 USE_META, weight: 0.8086 cost: 1.2692 min: 0.7931 max: 3.0324 USE_META, weight: 0.6267 cost: 1.7218 min: 0.7931 max: 3.0324 USE_META, weight: 0.8562 cost: 1.1508 min: 0.7931 max: 3.0324 USE_META, weight: 0.3994 cost: 2.2875 min: 0.7931 max: 3.0324 USE_META, weight: 0.5305 cost: 1.9613 min: 0.7931 max: 3.0324 USE_META, weight: 0.5249 cost: 1.9753 min: 0.7931 max: 3.0324 USE_META, weight: 0.4733 cost: 2.1036 min: 0.7931 max: 3.0324 USE_META, weight: 0.6026 cost: 1.7819 min: 0.7931 max: 3.0324 USE_META, weight: 0.8023 cost: 1.2849 min: 0.7931 max: 3.0324 USE_META, weight: 0.8055 cost: 1.2771 min: 0.7931 max: 3.0324 USE_META, weight: 0.8045 cost: 1.2794 min: 0.7931 max: 3.0324 USE_META, weight: 0.8048 cost: 1.2788 min: 0.7931 max: 3.0324 USE_META, weight: 0.8055 cost: 1.2769 min: 0.7931 max: 3.0324 USE_META, weight: 0.8055 cost: 1.2771 min: 0.7931 max: 3.0324 USE_META, weight: 0.8045 cost: 1.2794 min: 0.7931 max: 3.0324 USE_META, weight: 0.8055 cost: 1.2769 min: 0.7931 max: 3.0324 USE_META, weight: 0.8055 cost: 1.2771 min: 0.7931 max: 3.0324 USE_META, weight: 0.8030 cost: 1.2832 min: 0.7931 max: 3.0324 USE_META, weight: 0.4657 cost: 2.1225 min: 0.7931 max: 3.0324 USE_META, weight: 0.3548 cost: 2.3984 min: 0.7931 max: 3.0324 USE_META, weight: 0.4172 cost: 2.2432 min: 0.7931 max: 3.0324 USE_META, weight: 0.3678 cost: 2.3661 min: 0.7931 max: 3.0324 USE_META, weight: 0.3395 cost: 2.4365 min: 0.7931 max: 3.0324 USE_META, weight: 0.6083 cost: 1.7676 min: 0.7931 max: 3.0324 USE_META, weight: 0.6924 cost: 1.5584 min: 0.7931 max: 3.0324 USE_META, weight: 0.4230 cost: 2.2288 min: 0.7931 max: 3.0324 USE_META, weight: 0.7798 cost: 1.3409 min: 0.7931 max: 3.0324 USE_META, weight: 0.5780 cost: 1.8432 min: 0.7931 max: 3.0324 USE_META, weight: 0.8031 cost: 1.2831 min: 0.7931 max: 3.0324 USE_META, weight: 0.8061 cost: 1.2755 min: 0.7931 max: 3.0324 USE_META, weight: 0.8035 cost: 1.2819 min: 0.7931 max: 3.0324 USE_META, weight: 0.8071 cost: 1.2731 min: 0.7931 max: 3.0324 USE_META, weight: 0.8046 cost: 1.2792 min: 0.7931 max: 3.0324 USE_META, weight: 0.4801 cost: 2.0866 min: 0.7931 max: 3.0324 USE_META, weight: 0.5702 cost: 1.8626 min: 0.7931 max: 3.0324 USE_META, weight: 0.5018 cost: 2.0327 min: 0.7931 max: 3.0324 USE_META, weight: 0.3826 cost: 2.3292 min: 0.7931 max: 3.0324 USE_META, weight: 0.3304 cost: 2.4591 min: 0.7931 max: 3.0324 USE_META, weight: 0.5557 cost: 1.8984 min: 0.7931 max: 3.0324 USE_META, weight: 0.6571 cost: 1.6462 min: 0.7931 max: 3.0324 USE_META, weight: 0.6303 cost: 1.7129 min: 0.7931 max: 3.0324 USE_META, weight: 0.4477 cost: 2.1672 min: 0.7931 max: 3.0324 USE_META, weight: 0.5753 cost: 1.8499 min: 0.7931 max: 3.0324 USE_META, weight: 0.5915 cost: 1.8094 min: 0.7931 max: 3.0324 USE_META, weight: 0.1000 cost: 3.0324 min: 0.7931 max: 3.0324 USE_META, weight: 0.3469 cost: 2.4182 min: 0.7931 max: 3.0324 USE_META, weight: 0.5739 cost: 1.8532 min: 0.7931 max: 3.0324 USE_META, weight: 0.5150 cost: 1.9997 min: 0.7931 max: 3.0324 USE_META, weight: 0.9464 cost: 0.9265 min: 0.7931 max: 3.0324 USE_META, weight: 0.6033 cost: 1.7802 min: 0.7931 max: 3.0324 USE_META, weight: 0.4856 cost: 2.0730 min: 0.7931 max: 3.0324 USE_META, weight: 0.7832 cost: 1.3326 min: 0.7931 max: 3.0324 USE_META, weight: 0.8064 cost: 1.2747 min: 0.7931 max: 3.0324 USE_META, weight: 0.6648 cost: 1.6270 min: 0.7931 max: 3.0324 USE_META, weight: 0.7625 cost: 1.3840 min: 0.7931 max: 3.0324 USE_META, weight: 0.7862 cost: 1.3250 min: 0.7931 max: 3.0324 USE_META, weight: 0.7110 cost: 1.5122 min: 0.7931 max: 3.0324 USE_META, weight: 0.8056 cost: 1.2767 min: 0.7931 max: 3.0324 USE_META, weight: 0.6373 cost: 1.6956 min: 0.7931 max: 3.0324 USE_META, weight: 0.5581 cost: 1.8926 min: 0.7931 max: 3.0324 USE_META, weight: 0.7888 cost: 1.3187 min: 0.7931 max: 3.0324 USE_META, weight: 0.7494 cost: 1.4166 min: 0.7931 max: 3.0324 USE_META, weight: 0.7432 cost: 1.4321 min: 0.7931 max: 3.0324 USE_META, weight: 0.9083 cost: 1.0212 min: 0.7931 max: 3.0324 USE_META, weight: 0.9171 cost: 0.9993 min: 0.7931 max: 3.0324 USE_META, weight: 0.8227 cost: 1.2342 min: 0.7931 max: 3.0324 USE_META, weight: 0.9679 cost: 0.8729 min: 0.7931 max: 3.0324 USE_META, weight: 0.9011 cost: 1.0393 min: 0.7931 max: 3.0324 USE_META, weight: 0.8064 cost: 1.2747 min: 0.7931 max: 3.0324 USE_META, weight: 0.7266 cost: 1.4732 min: 0.7931 max: 3.0324 USE_META, weight: 0.7183 cost: 1.4939 min: 0.7931 max: 3.0324 USE_META, weight: 0.7293 cost: 1.4665 min: 0.7931 max: 3.0324 USE_META, weight: 0.7364 cost: 1.4490 min: 0.7931 max: 3.0324 USE_META, weight: 0.7240 cost: 1.4797 min: 0.7931 max: 3.0324 USE_META, weight: 0.7438 cost: 1.4305 min: 0.7931 max: 3.0324 USE_META, weight: 0.7183 cost: 1.4939 min: 0.7931 max: 3.0324 USE_META, weight: 0.7212 cost: 1.4867 min: 0.7931 max: 3.0324 USE_META, weight: 0.7364 cost: 1.4490 min: 0.7931 max: 3.0324 USE_META, weight: 0.7605 cost: 1.3890 min: 0.7931 max: 3.0324 USE_META, weight: 0.7906 cost: 1.3140 min: 0.7931 max: 3.0324 USE_META, weight: 0.8354 cost: 1.2027 min: 0.7931 max: 3.0324 USE_META, weight: 0.7804 cost: 1.3395 min: 0.7931 max: 3.0324 USE_META, weight: 0.7676 cost: 1.3714 min: 0.7931 max: 3.0324 USE_META, weight: 0.7722 cost: 1.3599 min: 0.7931 max: 3.0324 USE_META, weight: 0.8050 cost: 1.2784 min: 0.7931 max: 3.0324 USE_META, weight: 0.6053 cost: 1.7752 min: 0.7931 max: 3.0324 USE_META, weight: 0.4844 cost: 2.0761 min: 0.7931 max: 3.0324 USE_META, weight: 0.5504 cost: 1.9116 min: 0.7931 max: 3.0324 USE_META, weight: 0.5865 cost: 1.8218 min: 0.7931 max: 3.0324 USE_META, weight: 0.5135 cost: 2.0036 min: 0.7931 max: 3.0324 USE_META, weight: 0.8929 cost: 1.0596 min: 0.7931 max: 3.0324 USE_META, weight: 0.7676 cost: 1.3714 min: 0.7931 max: 3.0324 USE_META, weight: 0.8354 cost: 1.2027 min: 0.7931 max: 3.0324 USE_META, weight: 0.7804 cost: 1.3395 min: 0.7931 max: 3.0324 USE_META, weight: 0.6506 cost: 1.6624 min: 0.7931 max: 3.0324 USE_META, weight: 0.9981 cost: 0.7978 min: 0.7931 max: 3.0324 USE_META, weight: 0.5910 cost: 1.8106 min: 0.7931 max: 3.0324 USE_META, weight: 0.8372 cost: 1.1981 min: 0.7931 max: 3.0324 USE_META, weight: 0.6582 cost: 1.6435 min: 0.7931 max: 3.0324 USE_META, weight: 0.8734 cost: 1.1082 min: 0.7931 max: 3.0324 USE_META, weight: 0.7977 cost: 1.2963 min: 0.7931 max: 3.0324 USE_META, weight: 0.8946 cost: 1.0553 min: 0.7931 max: 3.0324 USE_META, weight: 0.7688 cost: 1.3684 min: 0.7931 max: 3.0324 USE_META, weight: 0.8503 cost: 1.1655 min: 0.7931 max: 3.0324 USE_META, weight: 0.8086 cost: 1.2692 min: 0.7931 max: 3.0324 USE_META, weight: 0.9008 cost: 1.0398 min: 0.7931 max: 3.0324 USE_META, weight: 0.7727 cost: 1.3587 min: 0.7931 max: 3.0324 USE_META, weight: 0.9710 cost: 0.8653 min: 0.7931 max: 3.0324 USE_META, weight: 0.8749 cost: 1.1044 min: 0.7931 max: 3.0324 USE_META, weight: 0.7808 cost: 1.3385 min: 0.7931 max: 3.0324 USE_META, weight: 0.8929 cost: 1.0596 min: 0.7931 max: 3.0324 USE_META, weight: 0.7871 cost: 1.3227 min: 0.7931 max: 3.0324 USE_META, weight: 0.7634 cost: 1.3817 min: 0.7931 max: 3.0324 USE_META, weight: 0.7722 cost: 1.3599 min: 0.7931 max: 3.0324 USE_META, weight: 0.6821 cost: 1.5840 min: 0.7931 max: 3.0324 USE_META, weight: 0.6008 cost: 1.7864 min: 0.7931 max: 3.0324 USE_META, weight: 0.6002 cost: 1.7878 min: 0.7931 max: 3.0324 USE_META, weight: 0.6465 cost: 1.6727 min: 0.7931 max: 3.0324 USE_META, weight: 0.5184 cost: 1.9914 min: 0.7931 max: 3.0324 USE_META, weight: 0.7019 cost: 1.5347 min: 0.7931 max: 3.0324 USE_META, weight: 0.8055 cost: 1.2771 min: 0.7931 max: 3.0324 USE_META, weight: 0.8045 cost: 1.2794 min: 0.7931 max: 3.0324 USE_META, weight: 0.8054 cost: 1.2773 min: 0.7931 max: 3.0324 USE_META, weight: 0.8055 cost: 1.2771 min: 0.7931 max: 3.0324 USE_META, weight: 0.8055 cost: 1.2771 min: 0.7931 max: 3.0324 USE_META, weight: 0.5760 cost: 1.8480 min: 0.7931 max: 3.0324 USE_META, weight: 0.8278 cost: 1.2216 min: 0.7931 max: 3.0324 USE_META, weight: 0.7850 cost: 1.3279 min: 0.7931 max: 3.0324 USE_META, weight: 0.8606 cost: 1.1400 min: 0.7931 max: 3.0324 USE_META, weight: 0.9101 cost: 1.0167 min: 0.7931 max: 3.0324 USE_META, weight: 0.6283 cost: 1.7178 min: 0.7931 max: 3.0324 USE_META, weight: 0.7637 cost: 1.3810 min: 0.7931 max: 3.0324 USE_META, weight: 0.5614 cost: 1.8845 min: 0.7931 max: 3.0324 USE_META, weight: 0.6399 cost: 1.6890 min: 0.7931 max: 3.0324 USE_META, weight: 0.6589 cost: 1.6419 min: 0.7931 max: 3.0324 USE_META, weight: 0.8313 cost: 1.2128 min: 0.7931 max: 3.0324 USE_META, weight: 0.6623 cost: 1.6334 min: 0.7931 max: 3.0324 USE_META, weight: 0.6262 cost: 1.7232 min: 0.7931 max: 3.0324 USE_META, weight: 0.9964 cost: 0.8020 min: 0.7931 max: 3.0324 USE_META, weight: 0.5859 cost: 1.8234 min: 0.7931 max: 3.0324 USE_META, weight: 0.7831 cost: 1.3326 min: 0.7931 max: 3.0324 USE_META, weight: 0.4625 cost: 2.1303 min: 0.7931 max: 3.0324 USE_META, weight: 0.8611 cost: 1.1388 min: 0.7931 max: 3.0324 USE_META, weight: 0.6254 cost: 1.7252 min: 0.7931 max: 3.0324 USE_META, weight: 0.4504 cost: 2.1605 min: 0.7931 max: 3.0324 USE_META, weight: 0.8053 cost: 1.2775 min: 0.7931 max: 3.0324 USE_META, weight: 0.8054 cost: 1.2772 min: 0.7931 max: 3.0324 USE_META, weight: 0.8044 cost: 1.2797 min: 0.7931 max: 3.0324 USE_META, weight: 0.8043 cost: 1.2801 min: 0.7931 max: 3.0324 USE_META, weight: 0.8041 cost: 1.2804 min: 0.7931 max: 3.0324 USE_META, weight: 0.7168 cost: 1.4978 min: 0.7931 max: 3.0324 USE_META, weight: 0.8053 cost: 1.2775 min: 0.7931 max: 3.0324 USE_META, weight: 0.8055 cost: 1.2771 min: 0.7931 max: 3.0324 USE_META, weight: 0.8055 cost: 1.2771 min: 0.7931 max: 3.0324 USE_META, weight: 0.8044 cost: 1.2797 min: 0.7931 max: 3.0324 USE_META, weight: 0.8043 cost: 1.2801 min: 0.7931 max: 3.0324 USE_META, weight: 0.7772 cost: 1.3475 min: 0.7931 max: 3.0324 USE_META, weight: 0.9356 cost: 0.9533 min: 0.7931 max: 3.0324 USE_META, weight: 1.0000 cost: 0.7931 min: 0.7931 max: 3.0324 USE_META, weight: 0.8880 cost: 1.0717 min: 0.7931 max: 3.0324 USE_META, weight: 0.9513 cost: 0.9142 min: 0.7931 max: 3.0324 USE_META, weight: 0.8774 cost: 1.0982 min: 0.7931 max: 3.0324 USE_META, weight: 0.7350 cost: 1.4524 min: 0.7931 max: 3.0324 USE_META, weight: 0.8055 cost: 1.2771 min: 0.7931 max: 3.0324 USE_META, weight: 0.8039 cost: 1.2810 min: 0.7931 max: 3.0324 USE_META, weight: 0.8052 cost: 1.2778 min: 0.7931 max: 3.0324 USE_META, weight: 0.8054 cost: 1.2773 min: 0.7931 max: 3.0324 USE_META, weight: 0.8055 cost: 1.2771 min: 0.7931 max: 3.0324 USE_META, weight: 0.8744 cost: 1.1057 min: 0.7931 max: 3.0324 USE_META, weight: 0.6843 cost: 1.5786 min: 0.7931 max: 3.0324 USE_META, weight: 0.6080 cost: 1.7684 min: 0.7931 max: 3.0324 USE_META, weight: 0.7912 cost: 1.3125 min: 0.7931 max: 3.0324 USE_META, weight: 0.7503 cost: 1.4144 min: 0.7931 max: 3.0324 USE_META, weight: 0.4488 cost: 2.1645 min: 0.7931 max: 3.0324 USE_META, weight: 0.3887 cost: 2.3141 min: 0.7931 max: 3.0324 USE_META, weight: 0.5820 cost: 1.8332 min: 0.7931 max: 3.0324 USE_META, weight: 0.4823 cost: 2.0812 min: 0.7931 max: 3.0324 USE_META, weight: 0.5859 cost: 1.8235 min: 0.7931 max: 3.0324 USE_META, weight: 0.6901 cost: 1.5641 min: 0.7931 max: 3.0324 USE_META, weight: 0.7065 cost: 1.5233 min: 0.7931 max: 3.0324 USE_META, weight: 0.7638 cost: 1.3808 min: 0.7931 max: 3.0324 USE_META, weight: 0.7140 cost: 1.5048 min: 0.7931 max: 3.0324 USE_META, weight: 0.6976 cost: 1.5454 min: 0.7931 max: 3.0324 USE_META, weight: 0.7516 cost: 1.4110 min: 0.7931 max: 3.0324 USE_META, weight: 0.5063 cost: 2.0215 min: 0.7931 max: 3.0324 USE_META, weight: 0.6170 cost: 1.7459 min: 0.7931 max: 3.0324 USE_META, weight: 0.5873 cost: 1.8199 min: 0.7931 max: 3.0324 USE_META, weight: 0.4125 cost: 2.2548 min: 0.7931 max: 3.0324 USE_META, weight: 0.6721 cost: 1.6090 min: 0.7931 max: 3.0324 USE_META, weight: 0.8024 cost: 1.2848 min: 0.7931 max: 3.0324 USE_META, weight: 0.6880 cost: 1.5695 min: 0.7931 max: 3.0324 USE_EVALUE, weight: 0.3746 eval: 54.4000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.3746 eval: 54.4000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.3746 eval: 54.4000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 1.0000 eval: 1.5677 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 1.0000 eval: 1.5677 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 1.0000 eval: 1.5677 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9517 eval: 5.6463 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9517 eval: 5.6463 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9517 eval: 5.6463 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8365 eval: 15.3820 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8365 eval: 15.3820 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8365 eval: 15.3820 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9853 eval: 2.8133 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9853 eval: 2.8133 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9853 eval: 2.8133 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9330 eval: 7.2303 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9330 eval: 7.2303 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9330 eval: 7.2303 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8265 eval: 16.2220 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8265 eval: 16.2220 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8265 eval: 16.2220 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8412 eval: 14.9820 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8412 eval: 14.9820 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8412 eval: 14.9820 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9478 eval: 5.9782 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9478 eval: 5.9782 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9478 eval: 5.9782 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8201 eval: 16.7690 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8201 eval: 16.7690 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8201 eval: 16.7690 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.6078 eval: 34.7000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.6078 eval: 34.7000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.6078 eval: 34.7000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.1000 eval: 77.6000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.1000 eval: 77.6000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.1000 eval: 77.6000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8721 eval: 12.3690 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8721 eval: 12.3690 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8721 eval: 12.3690 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8771 eval: 11.9510 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8771 eval: 11.9510 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8771 eval: 11.9510 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8280 eval: 16.1020 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8280 eval: 16.1020 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8280 eval: 16.1020 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.6078 eval: 34.7000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.6078 eval: 34.7000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.6078 eval: 34.7000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9052 eval: 9.5731 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9052 eval: 9.5731 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9052 eval: 9.5731 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9697 eval: 4.1246 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9697 eval: 4.1246 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9697 eval: 4.1246 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.2693 eval: 63.3000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.2693 eval: 63.3000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.2693 eval: 63.3000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8322 eval: 15.7460 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8322 eval: 15.7460 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8322 eval: 15.7460 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9309 eval: 7.4060 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9309 eval: 7.4060 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9309 eval: 7.4060 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9098 eval: 9.1869 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9098 eval: 9.1869 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9098 eval: 9.1869 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8813 eval: 11.5970 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8813 eval: 11.5970 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8813 eval: 11.5970 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.5084 eval: 43.1000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.5084 eval: 43.1000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.5084 eval: 43.1000 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8474 eval: 14.4560 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8474 eval: 14.4560 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.8474 eval: 14.4560 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9309 eval: 7.4056 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9309 eval: 7.4056 min: 1.5677 max: 77.6000 USE_EVALUE, weight: 0.9309 eval: 7.4056 min: 1.5677 max: 77.6000 Number of contacts in models: 244 Number of contacts in alignments: 78 NUMB_ALIGNS: 78 Adding 11076 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: -306.7833, CN propb: -306.7833 weights: 0.2332 constraints: 873 # command:Found ConstraintSet # PrintContacts align.constraints_meta03 Number of constraints in align3.constraints 873 # command:Found ConstraintSet # PrintContacts align_bonus.constraints_meta03 Number of constraints in align3.constraints.bonus 873 # command:Found ConstraintSet # PrintContacts rejected.constraints_meta03 Number of constraints in rejected3.constraints 10203 # command:Found ConstraintSet # PrintContacts rejected_bonus.constraints_meta03 Number of constraints in rejected3.constraints.bonus 10203 # 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 11076 # command: