promod3_modelling_out.txt 393 KB
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Build model with the following alignment:
target              MHHHHHHSSGVDLGTENLYFQSMKWDMPMAYAATNFHSEHGVIFADKVKAYTGGKLEITT
pdb_id=2pfz, cha... ----------------------TKWDLPTAYPASNLHVENLTQFVKDVDSLSGGKLKITL

target              HPGGSLFKGGEIKRAVQTGQAPIGERFMSAHANEAPLLGWDNLPFLATSYEDNDKLWAAA
pdb_id=2pfz, cha... HNNASLYKAPEIKRAVQGNQAQIGEILLTNFANEDPVYELDGLPFLATGYDASFKLYQAQ

target              KDKVNAQLADLNLVALYTCPWPGQGFYFKKEVTSSADTQGIKFRSYNSATATFAKELGML
pdb_id=2pfz, cha... KPFLEKKLASQGMMLLYSVAWPPQGIFANRDIKQVSDMKGLKWRAYSPVTAKIAELVGAQ

target              PVQVEAAELSQALATGVAEAFISSGSTGYDRKVWEHLSHYYKVNAWLPRNYVIINKGIYE
pdb_id=2pfz, cha... PVTVQQAELAQAMATGVIDSYMSSGSTGFDTKTYEYIKKFYDTEAWLPKNAVLVNKKAFD

target              GLSDDIRSALHKAADETGAACAAKSAELANWYFEQLEANGMKVEDAGPAFLKELKSIGAK
pdb_id=2pfz, cha... ALDPATQQALKKAGAQAEERGWKLSQEKNSWYKEQLAKNGMAIIAPTAELKSGLTEVGKR

target              MQADWLASVGADGQAIVDAYKKM
pdb_id=2pfz, cha... MLDDWLKKAGADGQAMIDAYRK-

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 1.80271e+12)
Perform energy minimization (iteration 2, energy: 25920.1)
No more stereo-chemical problems -> final energy: 23536.8


Build model with the following alignment:
target              QVQLQESGGGSVQAGGSLRLSCVASGSIFSINAMDWYRQAPGKQRELVAGITSGGSTNYG
pdb_id=6mxt, cha... QVQLQESGGGLVQPGGSLRLSCAASGFAFSSYELRWYRQAPGKQHELVAGITTGGNTYYA

target              DFVKGRFTISRDNAKNTVYLQMDSLKPEDTAVYYCAAEVGGWGPPRPDYWGHGTQVTVSS
pdb_id=6mxt, cha... DSVKGRFTISRDNAKNTVYLQMSNLRPEDTAVYACNANWD-L---LSDYWGQGTQVTVSS

target              GSLEVLFQ
pdb_id=6mxt, cha... H-------

Starting modelling based on a raw model.
Removed 1 terminal gap(s).
Trying to close small deletions (no. of gap(s): 2).
Initialized default backbone scoring for modelling.
Trying to merge 2 gap(s) with distance 0.
Merged gap A.GLY100-(G)-A.TRP102 and A.TRP102-(GPP)-A.ARG106 into A.GLY100-(GWGPP)-A.ARG106
Trying to fill 1 gap(s) by database.
Resolved A.GLY100-(GWGPP)-A.ARG106 by filling A.VAL99-(GGWGPPR)-A.PRO107 (51 candidates, BB_DB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 2.24144e+10)
No more stereo-chemical problems -> final energy: 5365.27


Build model with the following alignment:
target              MAHHHHHHMTAATDPLISLSHYYLPVYKPRQVVLERGQGARVWDSQGREFIDLAAGIAVC
pdb_id=4e3r, cha... -----------------------------GTVVVTHGEGPYIVDVNGRRYLDANSGLFNM

target              GLGHNDPDLVAALVEQAGKLWHTSN--VFYSAPPLHLAEELVKASR-FAERVFLCNSGAE
pdb_id=4e3r, cha... VAGFDHKGLIDAAKAQYERFPGYHAAFGKMSDQTVMLSEKLVEVSPFDSGRVFYTNSGSE

target              ANEVAIKMVRKWASSQGRPADKRVIITFRGSFHGRTMGAVTATAQPKYQEGYEPLPGGFR
pdb_id=4e3r, cha... ANDTMVKMLWFLHAAEGKP-QKRKILTRWNAYHGATAVSASMTGFPY-NSVFGLPLPGFV

target              YID----F-----ND---------EVQLETAMAA---GDVAAVMLEPIQGEGGVMPAKSG
pdb_id=4e3r, cha... HLTCPHYWRYGEEGETEEQFVARLARELEETIQREGADTIAGFFAEPVMGAGGVIPPAKG

target              FLKRVRELCDQHDALLVLDEIQAGMGRTGTLFAHWQDDVVPDMVTLAKALGGG-FPIGAM
pdb_id=4e3r, cha... YFQAILPILRKYDIPVISDEVVCGFGRTGNTWGCVTYDFTPDAIISSKNLTAGFFPMGAV

target              LAGPKVAETMQFG-------AHGTTFGGNPLAAAVARVALRKLASSEIAANVSRQSKALR
pdb_id=4e3r, cha... ILGPELSKRLETAIEAIEEFPHGFTASGHPVGCAIALKAIDVVMNEGLAENVRRLAPRFE

target              DGFARINEEFGVFSEVRGRGLMLGAVLSKDF----A--G-QA--GAILDHAAGQGLLTLQ
pdb_id=4e3r, cha... ERLKHIA-ERPNIGEYRGIGFMWALEAVKDKASKTPFDGNLSVSERIANTCTDLGLICFP

target              AGPDVLRFVPSLNITDEEVAEGLKRLRAAIAAFIAAR
pdb_id=4e3r, cha... L-GQSVVLCPPFILTEAQMDEMFDKLEKALDKVFA--

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Trying to close small deletions (no. of gap(s): 16).
Initialized default backbone scoring for modelling.
Closed: A.ARG104-()-A.PHE105 by relaxing A.ALA102-(SR)-A.PHE105
Closed: A.ALA193-()-A.GLY194 by relaxing A.ALA193-(GDV)-A.ALA197
Closed: A.GLY269-()-A.PHE270 by relaxing A.GLY269-(F)-A.PRO271
Closed: A.GLY361-()-A.GLN362 by relaxing A.GLY361-(Q)-A.ALA363
Closed: A.ALA363-()-A.GLY364 by relaxing A.ALA363-(GA)-A.ILE366
Trying to merge 11 gap(s) with distance 0.
Merged gap A.ASP180-()-A.PHE181 and A.PHE181-()-A.ASN182 into A.ASP180-(F)-A.ASN182
Merged gap A.PHE359-()-A.ALA360 and A.ALA360-()-A.GLY361 into A.PHE359-(A)-A.GLY361
Trying to fill 9 gap(s) by database.
Resolved A.ASN85-()-A.VAL86 by filling A.SER84-(NVF)-A.TYR88 (92 candidates, BB_DB)
Resolved A.PRO136-(A)-A.ASP138 by filling A.PRO136-(ADKR)-A.VAL141 (130 candidates, BB_DB)
Resolved A.LYS164-(Y)-A.GLN166 by filling A.ALA161-(QPKY)-A.GLN166 (69 candidates, BB_DB)
Resolved A.ASP180-(F)-A.ASN182 by filling A.ILE179-(DFND)-A.GLU184 (72 candidates, BB_DB)
Resolved A.GLY288-()-A.ALA289 by filling A.MET285-(QFGAH)-A.GLY291 (85 candidates, BB_DB)
Resolved A.ASN335-(E)-A.GLU337 by filling A.ASN335-(EEF)-A.GLY339 (103 candidates, BB_DB)
Resolved A.PHE359-(A)-A.GLY361 by filling A.LEU355-(SKDFA)-A.GLY361 (45 candidates, BB_DB)
Resolved A.ALA380-(G)-A.PRO382 by filling A.GLN379-(AGPD)-A.VAL384 (87 candidates, BB_DB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 1.95994e+11)
No more stereo-chemical problems -> final energy: 12756.9


Build model with the following alignment:
target              GSMRGKVSLEEAFELPKFAAQTKEK-------A--------ELYIAPNNRDRYFEEILNP
pdb_id=4qrn, cha... -GYL-RIATEEAFATREIIDVYLRMIRDGTADKGMVSLWGFYAQSPSERATQILERLLDL

target              CGNRLELSNKHGIGYTIYSIYSPGPQGWTERAECEEYARECNDYISGEIANHKDRMGAFA
pdb_id=4qrn, cha... GERRIADMDATGIDKAILALTSPGVQPLHDLDEARTLATRANDTLADACQKYPDRFIGMG

target              ALSMHDPKQASEELTRCVKELGFLGALVNDVQHAGPEGETHIFYDQPEWDIFWQTCVDLD
pdb_id=4qrn, cha... TVAPQDPEWSAREIHRGARELGFKGIQINSHTQG-------RYLDEEFFDPIFRALVEVD

target              VPFYLHPEPPFGSYLRNQYEGRKYLIGPPVSFANGVSLHVLGMIVNGVFDRFPKLKVILG
pdb_id=4qrn, cha... QPLYIHPATSPDSMI-DPM-LEAGLDGAIFGFGVETGMHLLRLITIGIFDKYPSLQIMVG

target              HLGEHIPGDFWRIEHWFEHCSRP----LAKSRGDVFAEKPLLHYFRNNIWLTTSGNFSTE
pdb_id=4qrn, cha... HMGEALPYWLYRLDYMHQAGVRSQRYERMK-----PLKKTIEGYLKSNVLVTNSGVAWEP

target              TLKFCVEHVGAERILFSVDSPYEHIDVGCGWYDDNAKAIMEAVGGEKAYKDIGRDNAKKL
pdb_id=4qrn, cha... AIKFCQQVMGEDRVMYAMDYPYQYVADEVRAMDAMD--M-SA--QT--KKKFFQTNAEKW

target              FKLGKFYDSEA
pdb_id=4qrn, cha... FKL--------

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Trying to close small deletions (no. of gap(s): 12).
Initialized default backbone scoring for modelling.
Trying to merge 12 gap(s) with distance 0.
Merged gap A.LYS25-()-A.ALA26 and A.ALA26-()-A.GLU27 into A.LYS25-(A)-A.GLU27
Merged gap A.ALA317-(KA)-A.ILE320 and A.ILE320-(M)-A.GLU322 into A.ALA317-(KAIM)-A.GLU322
Trying to fill 10 gap(s) by database.
Resolved A.ARG4-(G)-A.LYS6 by filling A.SER2-(MRGK)-A.VAL7 (68 candidates, BB_DB)
Resolved A.LYS25-(A)-A.GLU27 by filling A.THR22-(KEKA)-A.GLU27 (74 candidates, BB_DB)
Resolved A.ALA139-(GPEGETH)-A.ILE147 by filling A.GLN137-(HAGPEGETH)-A.ILE147 (869 candidates, BB_DB)
Resolved A.LEU180-(R)-A.ASN182 by filling A.GLY177-(SYLR)-A.ASN182 (49 candidates, BB_DB)
Resolved A.TYR184-(E)-A.GLY186 by filling A.TYR184-(EGRKY)-A.LEU190 (52 candidates, BB_DB)
Resolved A.PRO248-()-A.LEU249 by filling A.CYS245-(SRP)-A.LEU249 (40 candidates, BB_DB)
Resolved A.LYS251-(SRGDV)-A.PHE257 by filling A.ALA250-(KSRGDVF)-A.ALA258 (65 candidates, BB_DB)
Resolved A.ALA317-(KAIM)-A.GLU322 by filling A.ASP315-(NAKAIM)-A.GLU322 (150 candidates, BB_DB)
Resolved A.ALA323-(VG)-A.GLY326 by filling A.ALA319-(IMEAVG)-A.GLY326 (91 candidates, BB_DB)
Resolved A.GLU327-(KA)-A.TYR330 by filling A.ALA323-(VGGEKA)-A.TYR330 (46 candidates, BB_DB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 3.89497e+21)
No more stereo-chemical problems -> final energy: 21458.6


Build model with the following alignment:
target              GHMMVKIMPNLPGLYFLQAYPSEEIWRLFVDGRFWSKENGWRGYESREPGSLNAALESLC
pdb_id=4bet, cha... -------MPNLPGLYFLQAYPSEEIWRLFVDGRFWSKENGWRGYESREPGCLNAALESLC

target              SIALQVEKSGEEFELSVDLIKRIHKKSGKKVEELQEKNPGELRTDEPVSFCIPAGRASIK
pdb_id=4bet, cha... SIALQVEKSGEEFELSVDLIKRIHKKCGKKVEELQEKNPGELRTDEPVSFGIPAGRASIK

target              GIEEFLSLVFLTEGGAEFGPGKAGPFGPRFDKNYFKNLNPEQIPDLAKQIYFDMSKYGHS
pdb_id=4bet, cha... GIEEFLSLVFLTEGGAEFGPGKAGPFGPRFDKNYFKNLNPEQIPDLAKQIYFDMCKYGHS

target              NTNHFYLAVMKNVDVYLEKITQSYNKEIKTAETLDEKLKIIVKHIRMYEVLHPFRDANGR
pdb_id=4bet, cha... NTNHFYLAVMKNVDVYLEKITQSYNKEIKTAETLDEKLKIIVKHIRMYEVLAPFRDANGR

target              TFVNNLLNILLMQQGLPPATFYEPNVFDLYSAEELVVVVKEAIFNTVEII--------EQ
pdb_id=4bet, cha... TFVNNLLNIPLMQQGLPPATFYEPNVFDLYSAEE--------LVVVVKEAIFNTVEIIEQ

target              SKRKTPITLYGYHSSLEEQTKFRDMLDSPSYEKIKHMDFSDLNPEKLHLKTQKCLSSLNE
pdb_id=4bet, cha... SKRKTPITLYGYHSSLEEQTKFRDMLDSPSYEKIKHMDFSDLNPEKLHLKTQKCLSSLNE

target              QYPLHRGAIYLSDPGEIKLLLSNRNESQINQQIEQGAPPIYVGKTPAHLAVISGNMAMLD
pdb_id=4bet, cha... QYPLHRGAIYLSDPGEIKLLLSNRNESQINQQIEQGAPPIYVGKTPAHLAVISGNMAMLD

target              ELIAKKADLSLQDYDGKTALHYAAECGNMQIMGKILKVVLSQEDAIKVLNIKDNHGKTAF
pdb_id=4bet, cha... ELIAKKADLSLQDYDGKTALHYAAECGNMQIMGKILKVVLSQEDAIKVLNIKDNHGKTAF

target              HYAAEFGTPELISALTTTEVIQINEPDNSGSSAITLAYKNHKLKIFDELLNSGADISDEL
pdb_id=4bet, cha... HYAAEFGTPELISAL---------------------------------------------

target              LDAIWARKDKETLGKIIAKNEKILLNKEAFRIAISLGSVSLVKKFLRAGVDIDIPLTKDK
pdb_id=4bet, cha... ------------------------------------------------------------

target              ATPLMLSINSGNPKLVSYLLKKGANTRLTDTSGNSVLHYVFYSKAENREALANIITEKDK
pdb_id=4bet, cha... ------------------------------------------------------------

target              KLINQPNANGNPPLYNAVVVNDLKMATILLEMGARVDFEDRLGNNILHSAMRRCDLPIIL
pdb_id=4bet, cha... ------------------------------------------------------------

target              DIVKKDSTLLHKRNSERRNPFHQALHEMHTFPSSKETEEIHFMNLSDLLLKEGVDLNKKD
pdb_id=4bet, cha... ------------------------------------------------------------

target              IKGKTILDIALSKQYFHLCVKLMKAGAHTNI
pdb_id=4bet, cha... -------------------------------

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Trying to close small deletions (no. of gap(s): 2).
Initialized default backbone scoring for modelling.
Trying to merge 2 gap(s) with distance 0.
Trying to fill 2 gap(s) by database.
Failed at loop insertion (A.GLU274-(LVVVVKEA)-A.ILE283), only 31 candidates
Resolved A.ILE290-()-A.GLU291 by filling A.ILE289-(IEQSKR)-A.LYS296 (61 candidates, BB_DB)
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.GLU274-(LVVVVKEA)-A.ILE283), only 31 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.GLU274-(LVVVVKEA)-A.ILE283), only 31 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.GLU274-(LVVVVKEA)-A.ILE283), only 31 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.GLU274-(LVVVVKEA)-A.ILE283), only 31 candidates
Trying to fill 1 gap(s) by database.
Resolved A.GLU274-(LVVVVKEA)-A.ILE283 by filling A.SER271-(AEELVVVVKEA)-A.ILE283 (49 candidates, BB_DB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 1.06821e+18)
No more stereo-chemical problems -> final energy: 30215.6


Build model with the following alignment:
target              MSKTIT-YYN-SGA-VPLINA-SELPYDVVNLAFLSSSSNNP-FNLVLSGAIAATESSFT
pdb_id=3hu7, cha... --LDIAVYWGQNFDERSLEATCDTGNYAYVIIGFLNTFGGGQTPALDISGH----S----

target              T-NTIEAIKVMQHKGQKVLISFGGGTMGSNAYRSLSEDTAKLADSLA------------S
pdb_id=3hu7, cha... PSGLEPQIKHCQSKNVKVLLSIGGPKGPY-SL-DSRSDANDLAVYLFNNFLLPPGHSENR

target              FVKNNQLDGVDIDYEDTAAFTGQAGYDGAQFLISLTQELRKRLP-SPDYIISHAPQPPYL
pdb_id=3hu7, cha... PFGNAVLDGIDFHIEHGGP----------SQYQLLANILSSFRLAGTEFALTAAPQCVYP

target              EQGGYMAGYVEVVELVGQEIDWLNVQFYNNPPWSA---NPDQIVSSYLNYTKLPNMSPEK
pdb_id=3hu7, cha... DP------NLGTVIN-SATFDAIWVQFYNNPQCSYSSGNAEALMNAWREWS--MKARTKK

target              VIAGFPVTQNDAGSGYMPVQTIINEVIKPIQQQSSLGGIMNWQFSSDHNGDWIKAIAQSL
pdb_id=3hu7, cha... VFLGFPAHPDAAGSGYMPPEKVKFHVFPAAKKSYKFGGIMLWDSYWDTVSNFSSKILGE-

target              NSLEHHHHHH
pdb_id=3hu7, cha... ----------

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Trying to close small deletions (no. of gap(s): 17).
Initialized default backbone scoring for modelling.
Closed: A.ASN9-()-A.SER10 by relaxing A.TYR8-(NS)-A.GLY11
Closed: A.ALA12-()-A.VAL13 by relaxing A.SER10-(GAV)-A.PRO14
Closed: A.ALA18-()-A.SER19 by relaxing A.ASN17-(AS)-A.GLU20
Closed: A.PRO146-()-A.SER147 by relaxing A.LEU145-(PS)-A.PRO148
Trying to merge 13 gap(s) with distance 0.
Merged gap A.ALA46-(IAAT)-A.GLU51 and A.GLU51-(SSFT)-A.THR56 into A.ALA46-(IAATESSFT)-A.THR56
Merged gap A.ALA46-(IAATESSFT)-A.THR56 and A.THR56-()-A.ASN57 into A.ALA46-(IAATESSFTT)-A.ASN57
Trying to fill 11 gap(s) by database.
Resolved A.THR6-()-A.TYR7 by filling A.THR6-(YYNSGA)-A.VAL13 (99 candidates, BB_DB)
Resolved A.PRO38-()-A.PHE39 by filling A.SER35-(NNP)-A.PHE39 (43 candidates, BB_DB)
Resolved A.ALA46-(IAATESSFTT)-A.ASN57 by filling A.ALA46-(IAATESSFTTN)-A.THR58 (71 candidates, BB_DB)
Resolved A.SER83-(N)-A.ALA85 by filling A.GLY79-(TMGSN)-A.ALA85 (46 candidates, BB_DB)
Resolved A.TYR86-(R)-A.SER88 by filling A.TYR86-(RSL)-A.SER90 (49 candidates, BB_DB)
Resolved A.ALA101-()-A.SER102 by filling A.ALA101-(SFVKN)-A.ASN107 (84 candidates, BB_DB)
Failed at loop insertion (A.ALA121-(FTGQAGYDGA)-A.GLN132), only 11 candidates
Resolved A.GLN163-(GGYMAG)-A.TYR170 by filling A.TYR160-(LEQGGYMAGY)-A.VAL171 (59 candidates, BB_DB)
Resolved A.LEU176-(V)-A.GLY178 by filling A.LEU176-(VGQE)-A.ILE181 (104 candidates, BB_DB)
Resolved A.ALA196-()-A.ASN197 by filling A.ASN191-(PPWSA)-A.ASN197 (40 candidates, BB_DB)
Resolved A.THR209-(KL)-A.PRO212 by filling A.THR209-(KLPNM)-A.SER215 (46 candidates, BB_DB)
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.ALA121-(FTGQAGYDGA)-A.GLN132), only 11 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.ALA121-(FTGQAGYDGA)-A.GLN132), only 11 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.ALA121-(FTGQAGYDGA)-A.GLN132), only 11 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.ALA121-(FTGQAGYDGA)-A.GLN132), only 11 candidates
Trying to fill 1 gap(s) by database.
Resolved A.ALA121-(FTGQAGYDGA)-A.GLN132 by filling A.THR119-(AAFTGQAGYDGA)-A.GLN132 (68 candidates, BB_DB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 5.00794e+12)
No more stereo-chemical problems -> final energy: 29955.2


Build model with the following alignment:
target              MTAVEFIEPLTHEEGVSQATKLFVDTYGAAPEGVWAAPGRVNLIGEHTDYNAGLCLPIAL
pdb_id=2aj4, cha... --------------KCPSIIKKFISAYDAKPDFVARSPGRVNLIGEHIDYCDFSVLPLAI

target              PHRTFIALKPREDTK--VRVVSGVAPDKVAEADLDG------LKARGVDGWSAYPTGV--
pdb_id=2aj4, cha... DFDMLCAVKVLNEKNPSITLINADPKFAQRKFDLPLDGSYVTID-PSVSDWSNYFKCGLH

target              --AWALRQA---GFD--KVKGFDAAFVSCVPLGSGLSSSAAMTCSTALALDDVYGLG---
pdb_id=2aj4, cha... VAHSFLKKLAPERFASAPLAGLQVFCEGDVPTGSGLSSSAAFICAVALAVVKANMGPGYH

target              YGDSDAGRVTLINAAIKSENEMAGASTGGLDQNASMRCTEGHALLLDCRPELTPLENVSQ
pdb_id=2aj4, cha... M-----SKQNLMRITVVAEH-YVGVNNGGMDQAASVCGEEDHALYVEFKP----QLKATP

target              QEFDLDKY-NLELLVVDTQAPHQL---NDGQYAQRRATCEEAAKILG----VA-------
pdb_id=2aj4, cha... FKFPQLKNHEISFVIANTLVVSNKFETAPTNYNLRVVEVTTAANVLAATYGVVLL-----

target              ------NLRVTADGISK----------------ADDQFQALKETLDALPD----------
pdb_id=2aj4, cha... ---NKGNLRDFMNVYYARYHNISTPWNGDIESGIERLTKMLVLVEESLANKKQGFSVDDV

target              -------------------E------TMKKRVRHVVTEIERVRSFVRAFAQ-----GD--
pdb_id=2aj4, cha... AQSLNCSREEFTRDYLTTSPVRFQVLKLYQRAKHVYSESLRVLKAVKLMTT--FTADEDF

target              IKAAGRLFNASHDSLAADYEVTVPELDIAVDVARKNGAYGARMTGGGFGGSIIALVDK--
pdb_id=2aj4, cha... FKQFGALMNESQASCDKLYECSCPEIDKICSIALSNGSYGSRLTGAGWGGCTVHLVPGGP

target              -GQGHEIAQKIADRFEKEGFN-------APRALPAFAAASASREAKLAAALEHHHHHH
pdb_id=2aj4, cha... NGNIEKVKEALANEFYKVKYPKITDAELENAIIVSKPALGSCLY--------------

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Trying to close small deletions (no. of gap(s): 21).
Initialized default backbone scoring for modelling.
Trying to merge 21 gap(s) with distance 0.
Merged gap A.GLY160-()-A.TYR161 and A.TYR161-(GDSDA)-A.GLY167 into A.GLY160-(YGDSDA)-A.GLY167
Merged gap A.ASP293-()-A.GLU294 and A.GLU294-()-A.THR295 into A.ASP293-(E)-A.THR295
Trying to fill 19 gap(s) by database.
Resolved A.LYS75-()-A.VAL76 by filling A.PRO70-(REDTK)-A.VAL76 (66 candidates, BB_DB)
Resolved A.GLY94-()-A.LEU95 by filling A.ALA90-(DLDG)-A.LEU95 (57 candidates, BB_DB)
Resolved A.LYS96-(A)-A.ARG98 by filling A.LYS96-(ARG)-A.VAL100 (86 candidates, BB_DB)
Resolved A.VAL110-()-A.ALA111 by filling A.PRO107-(TGV)-A.ALA111 (113 candidates, BB_DB)
Resolved A.ALA117-()-A.GLY118 by filling A.ALA117-(GFDKV)-A.LYS123 (251 candidates, BB_DB)
Resolved A.GLY160-(YGDSDA)-A.GLY167 by filling A.GLY160-(YGDSDA)-A.GLY167 (184 candidates, BB_DB)
Resolved A.ASN180-(E)-A.MET182 by filling A.ASN180-(EMAGA)-A.SER186 (121 candidates, BB_DB)
Resolved A.PRO210-(ELTP)-A.LEU215 by filling A.ARG209-(PELTPL)-A.GLU216 (42 candidates, BB_DB)
Resolved A.TYR228-()-A.ASN229 by filling A.LEU225-(DKY)-A.ASN229 (47 candidates, BB_DB)
Resolved A.LEU243-()-A.ASN244 by filling A.LEU243-(NDGQ)-A.TYR248 (75 candidates, BB_DB)
Resolved A.GLY263-()-A.VAL264 by filling A.ILE261-(LGVAN)-A.LEU267 (83 candidates, BB_DB)
Resolved A.LYS276-()-A.ALA277 by filling A.ALA271-(DGISK)-A.ALA277 (143 candidates, BB_DB)
Resolved A.ASP293-(E)-A.THR295 by filling A.LEU291-(PDET)-A.MET296 (49 candidates, BB_DB)
Resolved A.GLN319-()-A.GLY320 by filling A.ALA316-(FAQGD)-A.ILE322 (98 candidates, BB_DB)
Resolved A.LYS379-()-A.GLY380 by filling A.ASP378-(KGQ)-A.GLY382 (52 candidates, BB_DB)
Resolved A.ASN399-()-A.ALA400 by filling A.GLU394-(KEGFN)-A.ALA400 (99 candidates, BB_DB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 1.03913e+17)
Perform energy minimization (iteration 2, energy: 19876.9)
Perform energy minimization (iteration 3, energy: 14656.3)
Perform energy minimization (iteration 4, energy: 12708.1)
No more stereo-chemical problems -> final energy: 11707.8


Build model with the following alignment:
target              GSGSGDETKTVEGNGTILVKGNVTIIVEGNADITVKGDATTLVEGNQTNTVNGNLSWKVA
pdb_id=3a1m, cha... -----------EGNGTILVKGNVTIIVEGNADITVKGDATTLVEGNQTNTVNGNLSWKVA

target              GTVDWDVGGDWTEKMASMSSKGNVTHEGNYNQLGNYTVQGNVGIQGAFSQFGGAGSVEGG
pdb_id=3a1m, cha... GTVDWDVGGDWTEKMASMSSISS-------------------------------------

target              WTIDNIRYLGHRHGGVQSGGSKTDTPSA
pdb_id=3a1m, cha... ----------------------------

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 17360.7)
No more stereo-chemical problems -> final energy: 9023.14


Build model with the following alignment:
target              MAHHHHHHMFRTHTNGELSLKNLNEEVTLSGWVQTIRDKGFMIWIDLRDRYGITQLVFDQ
pdb_id=4rmf, cha... -------------AAGSLRPADAGQTVTLAGWVARRRDHGGVIFIDLRDASGVSQVVFRE

target              DRSSAALLEEAKKLGREFVIQVSGKVIERASK--NPKIPTGEIEILVEKLTILNNSELPP
pdb_id=4rmf, cha... G----DVLAAAHRLRAEFCVAVTGVVEVRPEGNENPEIPTGQIEVNATELTVLGESAPLP

target              FTIEDETDGGEELRMKYRYLDIRRNPVKEKLIFRHKIAQKVRNYLSDQGFIEVETPVLIK
pdb_id=4rmf, cha... FQLDEQ--AGEEARLKYRYLDLRREGPGNALRLRSKVNAAARSVLAEHDFVEIETPTLTR

target              STPEGARDFVVPSRMNPGQFYALPQSPQTFKQLLMVGGMDKYFQIVKCFRDEDLRADRQP
pdb_id=4rmf, cha... STPEGARDFLVPARLQPGSFYALPQSPQLFKQLLMVAGMERYYQIARCYRDEDFRADRQP

target              EFTQIDCEMAFVEQEDVMNIFEGLTQNLLKDIAGQEFGK-FPRMTFAEAMKKYGNDKPDI
pdb_id=4rmf, cha... EFTQLDMEMSFVEADDVIAISEQVLKAVWATI-GYDLPLPLPRISYEEAMRRFGSDKPDL

target              RFGMEFHELNDLVKGKDFKIFDEAELVVGINVEGCAEYTRKQIDELTDWIKRPQIGATGM
pdb_id=4rmf, cha... RFGIELVECTEYFKDTTFRVFQA-PYVGAVVMPGGASQPRRTLDGWQEFAKQ--RGHKGL

target              VWIKYQADGIVTSSVNKFYNEEDLKKIAEEFGAKPGDLMLVLSGNENKVRAQLSALRMEL
pdb_id=4rmf, cha... AYVLVGEDGTLGGPVAKNLSDAERDGLVAHVGANPGDCIFFAAGPAKGARALLGATRIEI

target              GNRLGLRKGNEFAPLWVIDFPLLEWDEDT----------QRYHAMHHPFTSPKPEDIHLL
pdb_id=4rmf, cha... AKRLDLIDPNAWAFTWVVDFPMFEAADEATAAGDVAVGSGAWTAMHHAFTAPKPDSVDTF

target              ENEAGKARANAYDLVINGNEIGGGSIRIFDKDLQAQMFSLLGFTPEEAEAQFGFLMNAFK
pdb_id=4rmf, cha... DSDPGNALSDAYDIVCNGNEIGGGSIRIHRRDIQERVFAMMGIDHDEAQEKFGFLLDAFS

target              YGAPPHGGLAFGFDRLVAVLDGNEVIRDYIAFPKNNSGRDVMIDAPASIANEQLDELALT
pdb_id=4rmf, cha... YGAPPHGGIAFGWDRITALLAGVDSIREVIAFPKSGGGVDPLTDAPAPITPQQRKESG--

target              ININE
pdb_id=4rmf, cha... -----

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Trying to close small deletions (no. of gap(s): 8).
Initialized default backbone scoring for modelling.
Trying to merge 8 gap(s) with distance 0.
Trying to fill 8 gap(s) by database.
Resolved A.ASP61-(RSSA)-A.ALA66 by filling A.ASP59-(QDRSSA)-A.ALA66 (94 candidates, BB_DB)
Resolved A.LYS92-()-A.ASN93 by filling A.GLU88-(RASK)-A.ASN93 (119 candidates, BB_DB)
Resolved A.GLU124-(TD)-A.GLY127 by filling A.GLU122-(DETD)-A.GLY127 (66 candidates, BB_DB)
Resolved A.ILE270-(A)-A.GLY272 by filling A.LYS268-(DIAG)-A.GLN273 (78 candidates, BB_DB)
Resolved A.LYS277-()-A.PHE278 by filling A.PHE275-(GKF)-A.PRO279 (51 candidates, BB_DB)
Resolved A.GLU320-(A)-A.GLU322 by filling A.PHE318-(DEAE)-A.LEU323 (187 candidates, BB_DB)
Resolved A.ARG349-(PQ)-A.ILE352 by filling A.ARG349-(PQIGA)-A.THR355 (40 candidates, BB_DB)
Resolved A.THR446-()-A.GLN447 by filling A.TRP442-(DEDT)-A.GLN447 (71 candidates, BB_DB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 1.84798e+12)
Perform energy minimization (iteration 2, energy: 21361.8)
No more stereo-chemical problems -> final energy: 17003.6


Build model with the following alignment:
target              MGSSHHHHHHSSGLVPRGSHMATKSVKRGVAYDVASPADLSALSTGMSWWYNWSPKPHDR
pdb_id=5u22, cha... ------------------------------------------------------------

target              LAAYDYAGQYNVDFVPMVWNANLDDGQLKLYLLAHPGIRYLLVINEPNLVDQANMTPQAA
pdb_id=5u22, cha... ---------------------------------------GNEIWNEPDVTWK--DSNGLS

target              -AQLWPRLEQISAQ--TGVKLVGPAMNWGTMTGYGDPVAWLDAFYAAYASAHQGRDPQID
pdb_id=5u22, cha... FNQMWKQTYDLLRQIDPNEKIIGPSFSW-----Y--EENKMKNFLQFSKQ----NNCLPD

target              YLAFHWYDY--GLSSMLDRL----SRYG---KPFWVTEFANWHTLDDGLQIDSLEKQKQQ
pdb_id=5u22, cha... IIAWHELSGIDGVSSHFRSYRNLEKSLGISERPITINEYCDENHDL----EGQPGSSARF

target              MAEMVTMLERRSDV-FRYAWFTGRMTPDPHFSSLLDAEGRLTELGQYYLSLPYSE
pdb_id=5u22, cha... IGR----FERYKVDSGMITWWFVP-HPGR-LGSLLASDTQKGAGWYFY-------

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Trying to close small deletions (no. of gap(s): 14).
Initialized default backbone scoring for modelling.
Closed: A.ALA120-()-A.ALA121 by relaxing A.ALA120-(A)-A.GLN122
Closed: A.TYR186-()-A.GLY187 by relaxing A.TRP183-(YDY)-A.GLY187
Trying to merge 12 gap(s) with distance 0.
Merged gap A.TRP145-(GTMTG)-A.TYR151 and A.TYR151-(GD)-A.PRO154 into A.TRP145-(GTMTGYGD)-A.PRO154
Trying to fill 11 gap(s) by database.
Resolved A.GLN112-(AN)-A.MET115 by filling A.LEU109-(VDQAN)-A.MET115 (170 candidates, BB_DB)
Resolved A.GLN133-()-A.THR134 by filling A.GLN133-(TGVKL)-A.VAL139 (111 candidates, BB_DB)
Resolved A.TRP145-(GTMTGYGD)-A.PRO154 by filling A.ASN144-(WGTMTGYGDP)-A.VAL155 (52 candidates, BB_DB)
Resolved A.SER167-(AHQG)-A.ARG172 by filling A.SER167-(AHQGRD)-A.PRO174 (59 candidates, BB_DB)
Resolved A.LEU195-()-A.SER196 by filling A.LEU195-(SRY)-A.GLY199 (42 candidates, BB_DB)
Resolved A.GLY199-()-A.LYS200 by filling A.LEU195-(SRYG)-A.LYS200 (41 candidates, BB_DB)
Resolved A.ASP214-(DGLQ)-A.ILE219 by filling A.LEU213-(DDGLQIDS)-A.LEU222 (148 candidates, BB_DB)
Resolved A.GLU231-(MVTM)-A.LEU236 by filling A.GLU231-(MVTMLER)-A.ARG239 (41 candidates, BB_DB)
Resolved A.VAL242-()-A.PHE243 by filling A.GLU237-(RRSDV)-A.PHE243 (42 candidates, BB_DB)
Resolved A.ARG251-(M)-A.THR253 by filling A.PHE248-(TGRM)-A.THR253 (42 candidates, BB_DB)
Resolved A.PRO256-(H)-A.PHE258 by filling A.THR253-(PDPH)-A.PHE258 (40 candidates, BB_DB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 8.81665e+13)
Perform energy minimization (iteration 2, energy: 12675.2)
No more stereo-chemical problems -> final energy: 10253.3


Build model with the following alignment:
target              GAMAESFFSDFGLLWYLKELRKEEFWKFKELLKQPLEKFELKPIPWAELKKASKEDVAKL
pdb_id=4n1k, cha... -----SFFPDFGLLLYLEELNKEELNTFKLFLKETMEPEH-GLTPWNEVKKARREDLANL

target              LDKHYPGKQAWEVTLNLFLQINRKDLWTKAQEEMRNKLN
pdb_id=4n1k, cha... MKKYYPGEKAWSVSLKIFGKMNLKVLCERAKE-------

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Trying to close small deletions (no. of gap(s): 1).
Initialized default backbone scoring for modelling.
Trying to fill 1 gap(s) by database.
Resolved A.GLU40-(L)-A.LYS42 by filling A.GLU40-(LKPI)-A.PRO45 (58 candidates, BB_DB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 135452)
No more stereo-chemical problems -> final energy: 8102.49


Build model with the following alignment:
target              QGTGCSVEIINSNQVSVGSGCARINSVTNIGDNQGRRWGVLANSSCGLST-TQNLPSGWS
pdb_id=2mm0, cha... ----CVANILNINEAVIATGCVPAGGELRIFVGSSHSYLIKATSSCGLSLTNQVFINGES

target              LRQTGFCNA
pdb_id=2mm0, cha... VQSGGRC--

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Trying to close small deletions (no. of gap(s): 1).
Initialized default backbone scoring for modelling.
Closed: A.THR50-()-A.THR51 by relaxing A.THR50-(T)-A.GLN52
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 1.51763e+07)
No more stereo-chemical problems -> final energy: 2148.45


Build model with the following alignment:
target              GPGSDAEQRAVAKALFDAVNKHLS--NPFIEVEMRLGQFKVEED----------------
pdb_id=3kyh, cha... ----DDLTKSVQDWVYATIYSIAPELRSFIELEMKFGVIIDAKGPDRVNPPVSSQCVFTE

target              --ANFTACVSTEDYERIKTYLMTEME------NSSMTRSVTHDVSLR---------GWRH
pdb_id=3kyh, cha... LDAHLTPNIDASLFKELSKYIRGISEVTENTGKFSIIESQTRDSVYRVG-----PRFLRM

target              TYATDENGNPTRCVSIVRKKRLFVKNIVVPLGAYNLRFAVSTETPGDLRFSGA---GPRA
pdb_id=3kyh, cha... STDI----KTGRVGQFIEKRHVAQLLLYSPKDSYDVKISLNLELPVPDNDPPEKYKSQSP

target              GHTRLKDRLSITDG--MFRYDMTQVTEKGV--------LMHEVEIEGVFSS--H--EKQL
pdb_id=3kyh, cha... ISERTKDRVSYIHNDSCTRIDITKVENH--------SETTHEVELEINTPALLNAFDNIT

target              TE-SWLEELLRRAMRLATLRTN
pdb_id=3kyh, cha... NDSKEYASLIRTFLNNGT----

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Trying to close small deletions (no. of gap(s): 11).
Initialized default backbone scoring for modelling.
Closed: A.GLU190-()-A.SER191 by relaxing A.GLU190-(S)-A.TRP192
Trying to merge 10 gap(s) with distance 0.
Merged gap A.SER183-()-A.HIS184 and A.HIS184-()-A.GLU185 into A.SER183-(H)-A.GLU185
Trying to fill 9 gap(s) by database.
Resolved A.SER24-()-A.ASN25 by filling A.LYS21-(HLS)-A.ASN25 (64 candidates, BB_DB)
Resolved A.ASP42-()-A.ALA43 by filling A.LYS38-(VEED)-A.ALA43 (44 candidates, BB_DB)
Resolved A.GLU66-()-A.ASN67 by filling A.MET65-(ENSS)-A.MET70 (82 candidates, BB_DB)
Resolved A.ARG81-()-A.GLY82 by filling A.VAL78-(SLRG)-A.TRP83 (89 candidates, BB_DB)
Resolved A.THR89-(DENG)-A.ASN94 by filling A.THR89-(DENGNPTR)-A.CYS98 (249 candidates, BB_DB)
Resolved A.ALA138-()-A.GLY139 by filling A.ALA138-(GPRA)-A.GLY143 (109 candidates, BB_DB)
Resolved A.GLY156-()-A.MET157 by filling A.THR154-(DGM)-A.PHE158 (62 candidates, BB_DB)
Resolved A.LYS168-(GV)-A.LEU171 by filling A.THR166-(EKGV)-A.LEU171 (43 candidates, BB_DB)
Resolved A.SER183-(H)-A.GLU185 by filling A.SER183-(HEKQ)-A.LEU188 (138 candidates, BB_DB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 3.4402e+10)
No more stereo-chemical problems -> final energy: 1128.7


Build model with the following alignment:
target              MKLGVCYYPEHWPKSRWVEDAQHMRRIGIQYVRVGEFSWSTIEPTPGELHWEWLDESLDI
pdb_id=1kwk, cha... -MLGVCYYPEHWPKERWKEDARRMREAGLSHVRIGEFAWALLEPEPGRLEWGWLDEAIAT

target              LHSQGLKVILGTPTATPPKWLVDRHPSMLAKDEAGRVRGFGSRRHYTFASLEYREECRRM
pdb_id=1kwk, cha... LAAEGLKVVLGTPTATPPKWLVDRYPEILPVDREGRRRRFGGRRHYCFSSPVYREEARRI

target              VTMMAERYGHHPAVASWQTDNEYGCHDTVLSYAEADLAAFRLWLAEKYGTVEALNKAWGN
pdb_id=1kwk, cha... VTLLAERYGGLEAVAGFQTDNEYGCHDTVRCYCPRCQEAFRGWLEARYGTIEALNEAWGT

target              VFWSMDYRSFDEIELPNLTVTEANPSHRLDFQRCCSDQVVAFNKLQVDILREHSAGRDLV
pdb_id=1kwk, cha... AFWSQRYRSFAEVELPHLTVAEPNPSHLLDYYRFASDQVRAFNRLQVEILRAHAPGKFVT

target              HNYMGFFTAFDHHKVGQDLDVASWDSYPLGSLDKEPLYTEDEKHTYLRVGHPDAGAFHHD
pdb_id=1kwk, cha... HNFMGFFTDLDAFALAQDLDFASWDSYPLGFTDLMP-LPPEEKLRYARTGHPDVAAFHHD

target              LYRGCGNGRLWIMEQQPGPVNWAPHNPTPADGAVRLWTWEAFSHGAELVSYFRWRQAPFG
pdb_id=1kwk, cha... LYRGVGRGRFWVMEQQPGPVNWAPHNPSPAPGMVRLWTWEALAHGAEVVSYFRWRQAPFA

target              QEQMHAGLLRPDAQEAEAAKEATLVAQEVKVLAESIGLDADELMSLPSAGKVALMFDYDA
pdb_id=1kwk, cha... QEQMHAGLHRPDSAPDQGFFEAKRVAEELAAL----------ALPPVAQAPVALVFDYEA

target              CWSLDIQPQSRAYRYFFWCYRMYEAMRELGLSVDIVPSNAPLDMYELLVLPAQAHITPEL
pdb_id=1kwk, cha... AWIYEVQPQGAEWSYLGLVYLFYSALRRLGLDVDVVPPGASLRGYAFAVVPSLPIVREEA

target              QNRLNSY-QGVLLAGPRTGSKTETYQIPENLAPGPLASLLPLTVERVDALPEHTQPAVSG
pdb_id=1kwk, cha... LEAF-REAEGPVLFGPRSGSKTETFQIPKELPPGPLQALLPLKVVRVESLPPGLLEVAE-

target              RW-GAGKLKHWHEQIKTEL-PCLLKDDGGNPVLMGEGRHYYLGSCIDNTLLKASLAKLSE
pdb_id=1kwk, cha... GALGRFPLGLWREWV-EAPLKPLLTFQDGKGALYREGRYLYLAAWPSPELAGRLLSALAA

target              VAGLSTYYLPKGVRVRERGNVIFAFNYSSNTVVFEPQ-NAELVIGSMCLGAADVAIWKKQ
pdb_id=1kwk, cha... EAGLKVLSLPEGLRLRRRGTWVFAFNYGPEAVEAPASEGARFLLGSRRVGPYDLAVWE--

target              HHHHHH
pdb_id=1kwk, cha... ------

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Trying to close small deletions (no. of gap(s): 9).
Initialized default backbone scoring for modelling.
Closed: A.TYR487-()-A.GLN488 by relaxing A.TYR487-(QG)-A.VAL490
Trying to merge 8 gap(s) with distance 0.
Trying to fill 8 gap(s) by database.
Resolved A.PRO276-(L)-A.TYR278 by filling A.GLU275-(PLY)-A.THR279 (52 candidates, BB_DB)
Failed at loop insertion (A.LEU392-(AESIGLDADE)-A.LEU403), only 26 candidates
Resolved A.LEU484-(N)-A.SER486 by filling A.LEU484-(NSYQG)-A.VAL490 (124 candidates, BB_DB)
Resolved A.SER538-(G)-A.ARG540 by filling A.SER538-(GRW)-A.GLY542 (63 candidates, BB_DB)
Resolved A.ILE553-(K)-A.THR555 by filling A.ILE553-(KTEL)-A.PRO558 (85 candidates, BB_DB)
Resolved A.GLN634-()-A.ASN635 by filling A.PRO633-(QNA)-A.GLU637 (41 candidates, BB_DB)
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.LEU392-(AESIGLDADE)-A.LEU403), only 26 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.LEU392-(AESIGLDADE)-A.LEU403), only 26 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.LEU392-(AESIGLDADE)-A.LEU403), only 26 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.LEU392-(AESIGLDADE)-A.LEU403), only 26 candidates
Trying to fill 1 gap(s) by database.
Resolved A.LEU392-(AESIGLDADE)-A.LEU403 by filling A.VAL391-(LAESIGLDADEL)-A.MET404 (48 candidates, BB_DB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 6.83643e+11)
Perform energy minimization (iteration 2, energy: 19587.9)
No more stereo-chemical problems -> final energy: 14801.9


Build model with the following alignment:
target              GPLGSLAQFFLLNEDDDDQPRGLTKEQIDNLAMRSFGENDALKTCSVCITEYTEGNKLRK
pdb_id=5zbu, cha... --------------------NRLRKDQLKKLPVHKFKKGDEYDVCAICLDEYEDGDKLRI

target              LPCSHEYHVHCIDRWLSE-NSTCPICRRAVLASGNRESVV
pdb_id=5zbu, cha... LPCSHAYHCKCVDPWLTKTKKTCPVCKQKVV---------

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Trying to close small deletions (no. of gap(s): 1).
Initialized default backbone scoring for modelling.
Trying to fill 1 gap(s) by database.
Resolved A.GLU78-()-A.ASN79 by filling A.LEU76-(SEN)-A.SER80 (79 candidates, BB_DB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 10618.1)
No more stereo-chemical problems -> final energy: 109.582


Build model with the following alignment:
target              AASSPLLIGDSVMVDIGNVFTKKIPNAQIDGKVGRQLVDATPIVKSQYKDYAKKGQKVVV
pdb_id=5ug1, cha... -ADGTMLIGDSVALRANTALQTALPGAQINAQVSVTTKTANEIML-NNSQNKFLPKTVVI

target              ELGTN-GAFTKDQLNELLDSFG-KADIYLVSIRVPRDYE------GRINKLIYEAAAARS
pdb_id=5ug1, cha... ATGVNNPENYKDDWDSIVKNLPKGHHMILVTPYEGDKTKETYAIVEKAAAYMRELAEKTP

target              NVHLVDWYKASAGHPE-YFAYDGIHLEYA------GSKALTDLIVKTMETHATN
pdb_id=5ug1, cha... YITIADWNQVAKEHPEIWAGTDQVHFGSESSTIEAGAKLYADTIATALQTAQD-

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Trying to close small deletions (no. of gap(s): 6).
Initialized default backbone scoring for modelling.
Closed: A.ASN65-()-A.GLY66 by relaxing A.THR64-(NG)-A.ALA67
Closed: A.GLY81-()-A.LYS82 by relaxing A.SER79-(FGKA)-A.ASP84
Closed: A.GLU128-()-A.TYR129 by relaxing A.PRO127-(EY)-A.PHE130
Trying to merge 3 gap(s) with distance 0.
Trying to fill 3 gap(s) by database.
Resolved A.LYS45-(S)-A.GLN47 by filling A.VAL44-(KSQ)-A.TYR48 (72 candidates, BB_DB)
Resolved A.GLU97-()-A.GLY98 by filling A.VAL92-(PRDYE)-A.GLY98 (215 candidates, BB_DB)
Resolved A.ALA140-()-A.GLY141 by filling A.ILE135-(HLEYA)-A.GLY141 (41 candidates, BB_DB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 1.36639e+15)
Perform energy minimization (iteration 2, energy: 14410.2)
No more stereo-chemical problems -> final energy: 12049


Build model with the following alignment:
target              MIICSVDIGIKNPAYAIFNYDNTSNTIKLIAIEKSDWTKNWERSVARDLTRYNPDVVILE
pdb_id=5e6f, cha... TIICSVDIGIKNPAYTIFRYEDS--KVSLIAIEKSDWSDNWEYNVTKDLTKYNPDIIVLE

target              KQGFKSPNSKIIYFIKGFFYNSNTKVIVRNPTFKGGSYRNRKKQSIDVFIQKISEYTDYK
pdb_id=5e6f, cha... KQGYRSPNAKIIYFIKGFFYNTNTSVIVRNPTFQGGSYSDRKKQSVITFMDKLS------

target              NDILNKYTKLDDIANSFNLGLSYMESLLK
pdb_id=5e6f, cha... --------KLDDIADSFNLGIAYIES---

Starting modelling based on a raw model.
Removed 1 terminal gap(s).
Trying to close small deletions (no. of gap(s): 2).
Initialized default backbone scoring for modelling.
Trying to merge 2 gap(s) with distance 0.
Trying to fill 2 gap(s) by database.
Resolved A.THR23-(SN)-A.THR26 by filling A.TYR20-(DNTSN)-A.THR26 (149 candidates, BB_DB)
Failed at loop insertion (A.SER114-(EYTDYKNDILNKYT)-A.LYS129), only 0 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.SER114-(EYTDYKNDILNKYT)-A.LYS129), only 0 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.SER114-(EYTDYKNDILNKYT)-A.LYS129), only 0 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.SER114-(EYTDYKNDILNKYT)-A.LYS129), only 0 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.SER114-(EYTDYKNDILNKYT)-A.LYS129), only 0 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.SER114-(EYTDYKNDILNKYT)-A.LYS129), only 0 candidates
Trying to fill 1 gap(s) by Monte Carlo.
Resolved A.SER114-(EYTDYKNDILNKYT)-A.LYS129 by filling A.SER114-(EYTDYKNDILNKYT)-A.LYS129 (6 candidates, BB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 1.39902e+14)
No more stereo-chemical problems -> final energy: 8229.76


Build model with the following alignment:
target              MKIVSWNINGIRATR----VGLKETLDSLDADIICLQETKVTRDLLD--EPSAIVEGYNS
pdb_id=2j63, cha... YKFITWNVAGLRGLLKKNASALRAFMEAEKPDVLCLQETKLNVDEADANATLGVVDGYSF

target              YFSFSRVRSGYSGVATFCKSSTT--PQAA--EEGLSGVFCNRTGSVGCYGNTEQFLEEEL
pdb_id=2j63, cha... VDHPCAFKRGYSGTRTYMKNSTTVKGLHARCTRGFALPSE-----------L------VE

target              QSLDQEGRAVLTQHRILNCED-KEETLTVINVYCPRADPEKPERKTYKLR-FYHLLQTRA
pdb_id=2j63, cha... GAGDEEGRVLTTFLSPDPD----SSRIALVNTYVANSG-MGLTRLPYRVQSFDPSMREYL

target              EAILQN------------------GGHVIILGDVNTSHRPLDHCD---PTDL--ETFEEN
pdb_id=2j63, cha... HRLDTWATENAA----------SSPHGFIWAGDLNVAERDYDRYYAGTFKSMQECSGFAP

target              PGRQWLNQFLGDPIPSQKGDSETVMPPSAGSGLFYDSFRYFHPTQKNAFTCWCSASGARQ
pdb_id=2j63, cha... EERMSFRETM-----Q--------------RTNSVDIFRQLYPQAGPVYSFWSQRINGRP

target              TNYGTRIDYILGNRELVESEFLDSVIMPEVEGSDHCPVKAFMKCQPIAANKCPPLCTKYL
pdb_id=2j63, cha... RNLGWRLDYFVVSSRLA-SYVVDCFPMPTVMGSDHCPFQMWMRH----------------

target              PEFAGRQQKLLQFLVKKENTLGNTTEESSE
pdb_id=2j63, cha... ------------------------------

Starting modelling based on a raw model.
Removed 1 terminal gap(s).
Trying to close small deletions (no. of gap(s): 15).
Initialized default backbone scoring for modelling.
Closed: A.ARG159-()-A.PHE160 by relaxing A.LEU158-(RF)-A.TYR161
Trying to merge 14 gap(s) with distance 0.
Merged gap A.CYS90-(NRTGSVGCYGN)-A.THR102 and A.THR102-(EQFLEE)-A.GLU109 into A.CYS90-(NRTGSVGCYGNTEQFLEE)-A.GLU109
Merged gap A.LEU215-(GDPIP)-A.SER221 and A.SER221-(QKGDSETVMPPSAG)-A.SER236 into A.LEU215-(GDPIPSQKGDSETVMPPSAG)-A.SER236
Trying to fill 12 gap(s) by database.
Resolved A.ARG15-()-A.VAL16 by filling A.THR14-(RVGL)-A.LYS19 (66 candidates, BB_DB)
Resolved A.ASP43-()-A.GLU44 by filling A.ASP43-(EPSA)-A.ILE48 (90 candidates, BB_DB)
Resolved A.THR77-()-A.PRO78 by filling A.THR77-(PQAA)-A.GLU82 (57 candidates, BB_DB)
Failed at loop insertion (A.CYS90-(NRTGSVGCYGNTEQFLEE)-A.GLU109), only 0 candidates
Resolved A.CYS129-(EDK)-A.GLU133 by filling A.CYS129-(EDKE)-A.GLU134 (46 candidates, BB_DB)
Resolved A.ASP147-(P)-A.GLU149 by filling A.PRO144-(RADP)-A.GLU149 (41 candidates, BB_DB)
Resolved A.ASN174-()-A.GLY175 by filling A.ASN174-(GGHV)-A.ILE179 (41 candidates, BB_DB)
Resolved A.ASP195-()-A.PRO196 by filling A.ARG189-(PLDHCD)-A.PRO196 (47 candidates, BB_DB)
Resolved A.LEU199-()-A.GLU200 by filling A.LEU199-(ETFE)-A.GLU204 (80 candidates, BB_DB)
Failed at loop insertion (A.LEU215-(GDPIPSQKGDSETVMPPSAG)-A.SER236), only 0 candidates
Resolved A.VAL282-(E)-A.SER284 by filling A.LEU281-(VES)-A.GLU285 (90 candidates, BB_DB)
Trying to merge 2 gap(s) with distance 1.
Trying to fill 2 gap(s) by database.
Failed at loop insertion (A.CYS90-(NRTGSVGCYGNTEQFLEE)-A.GLU109), only 0 candidates
Failed at loop insertion (A.LEU215-(GDPIPSQKGDSETVMPPSAG)-A.SER236), only 0 candidates
Trying to merge 2 gap(s) with distance 2.
Trying to fill 2 gap(s) by database.
Failed at loop insertion (A.CYS90-(NRTGSVGCYGNTEQFLEE)-A.GLU109), only 0 candidates
Failed at loop insertion (A.LEU215-(GDPIPSQKGDSETVMPPSAG)-A.SER236), only 0 candidates
Trying to merge 2 gap(s) with distance 3.
Trying to fill 2 gap(s) by database.
Failed at loop insertion (A.CYS90-(NRTGSVGCYGNTEQFLEE)-A.GLU109), only 0 candidates
Failed at loop insertion (A.LEU215-(GDPIPSQKGDSETVMPPSAG)-A.SER236), only 0 candidates
Trying to fill 2 gap(s) by database.
Failed at loop insertion (A.CYS90-(NRTGSVGCYGNTEQFLEE)-A.GLU109), only 0 candidates
Failed at loop insertion (A.LEU215-(GDPIPSQKGDSETVMPPSAG)-A.SER236), only 0 candidates
Trying to fill 2 gap(s) by database.
Failed at loop insertion (A.CYS90-(NRTGSVGCYGNTEQFLEE)-A.GLU109), only 0 candidates
Failed at loop insertion (A.LEU215-(GDPIPSQKGDSETVMPPSAG)-A.SER236), only 0 candidates
Trying to fill 2 gap(s) by Monte Carlo.
Resolved A.CYS90-(NRTGSVGCYGNTEQFLEE)-A.GLU109 by filling A.CYS90-(NRTGSVGCYGNTEQFLEEE)-A.LEU110 (6 candidates, BB)
Resolved A.LEU215-(GDPIPSQKGDSETVMPPSAG)-A.SER236 by filling A.LEU215-(GDPIPSQKGDSETVMPPSAG)-A.SER236 (6 candidates, BB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 8.31872e+16)
Perform energy minimization (iteration 2, energy: 13810.9)
No more stereo-chemical problems -> final energy: 10923.7


Build model with the following alignment:
target              VQLAETGGGLAQAGGSLRLSCAASGSIFSINAMGWYRQAPGKERELVADISGSGRTNYAD
pdb_id=5f7l, cha... VQLQESGGGLVQPGGSLRLSCAASGSIYSLIAMGWYRQAPGKEHELVATISSGSTTYYAD

target              SVKGRFTISRDNAKNTVSLQMNSLKPEDTAVYYCNVVG---GSYYYDEYNYWGQGTQVTV
pdb_id=5f7l, cha... SVKGRFTISRDNAKNTLYLQMNSLKPEDTAMYYCAAYSDRLTDCSNCEADYWGQGTQVTV

target              SSEP
pdb_id=5f7l, cha... ----

Starting modelling based on a raw model.
Removed 1 terminal gap(s).
Trying to close small deletions (no. of gap(s): 1).
Initialized default backbone scoring for modelling.
Trying to fill 1 gap(s) by database.
Resolved A.GLY98-()-A.GLY99 by filling A.GLY98-(GSYYY)-A.ASP104 (98 candidates, BB_DB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 60978.3)
Perform energy minimization (iteration 2, energy: 4616.96)
Perform energy minimization (iteration 3, energy: 3965.27)
Perform energy minimization (iteration 4, energy: 3620.18)
Perform energy minimization (iteration 5, energy: 3334.43)
No more stereo-chemical problems -> final energy: 3186.06


Build model with the following alignment:
target              MSYYHHHHHHDYDIPTTENLYFQGAMDPEFASLDRVKVLVLGDSGVGKSSLVHLLCHNQV
pdb_id=5u4v, cha... ---------------------------------DKVNLFILGKDGLAQ-----ELANE-I

target              LGNPSWTVGCSVDIRVHDYKEGTPEEKTYYIELWDVGGSVGSASSVKSTRAVFYN----S
pdb_id=5u4v, cha... R--TQST-DDEYA-----L-----DGKIYELDLRPVDA----------------------

target              VNGIILVHDLTNKKSSQNLYRWSLEVLN-RDAVPTGVLVTNGDYDREQFADNQIPL-LVI
pdb_id=5u4v, cha... PHGCFCVFN--SIESLSFIGEFIGKIRTEASQI-----------------MANLPFTLIL

target              GTKLDQIHETKRHEVLIRTAFLAEDFNAEEINLDCTNPRSSAAGSSN---A---VKLSRF
pdb_id=5u4v, cha... AN--------NLPILRHQGQQLANKLQCP--FVDVP-------------RKFNETQIKQA

target              FDKVIEKRYFFREGNQI
pdb_id=5u4v, cha... LRGVLESVKH-------

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Trying to close small deletions (no. of gap(s): 15).
Initialized default backbone scoring for modelling.
Trying to merge 15 gap(s) with distance 0.
Merged gap A.ASP73-(IRVHD)-A.TYR79 and A.TYR79-(KEGTP)-A.GLU85 into A.ASP73-(IRVHDYKEGTP)-A.GLU85
Merged gap A.THR210-(NPRSSAAGSSN)-A.ALA222 and A.ALA222-()-A.VAL223 into A.THR210-(NPRSSAAGSSNA)-A.VAL223
Trying to fill 13 gap(s) by database.
Resolved A.LYS48-(SSLVH)-A.LEU54 by filling A.SER44-(GVGKSSLVH)-A.LEU54 (67 candidates, BB_DB)
Resolved A.ASN58-(Q)-A.VAL60 by filling A.LEU55-(CHNQ)-A.VAL60 (42 candidates, BB_DB)
Resolved A.LEU61-(GN)-A.PRO64 by filling A.VAL60-(LGNPSW)-A.THR67 (89 candidates, BB_DB)
Resolved A.THR67-(V)-A.GLY69 by filling A.PRO64-(SWTV)-A.GLY69 (98 candidates, BB_DB)
Failed at loop insertion (A.ASP73-(IRVHDYKEGTP)-A.GLU85), only 3 candidates
Failed at loop insertion (A.GLY98-(SVGSASSVKSTRAVFYNS)-A.VAL117), only 0 candidates
Resolved A.ASP125-(LT)-A.ASN128 by filling A.HIS124-(DLTN)-A.LYS129 (50 candidates, BB_DB)
Resolved A.ASN144-()-A.ARG145 by filling A.LEU143-(NRDA)-A.VAL148 (128 candidates, BB_DB)
Failed at loop insertion (A.VAL148-(PTGVLVTNGDYDREQFA)-A.ASP166), only 0 candidates
Resolved A.LEU171-()-A.LEU172 by filling A.ASN167-(QIPL)-A.LEU172 (60 candidates, BB_DB)
Resolved A.THR176-(KLDQIHET)-A.LYS185 by filling A.THR176-(KLDQIHET)-A.LYS185 (159 candidates, BB_DB)
Resolved A.GLU203-(EI)-A.ASN206 by filling A.PHE200-(NAEEI)-A.ASN206 (64 candidates, BB_DB)
Resolved A.THR210-(NPRSSAAGSSNA)-A.VAL223 by filling A.THR210-(NPRSSAAGSSNA)-A.VAL223 (131 candidates, BB_DB)
Trying to merge 3 gap(s) with distance 1.
Trying to fill 3 gap(s) by database.
Failed at loop insertion (A.ASP73-(IRVHDYKEGTP)-A.GLU85), only 3 candidates
Failed at loop insertion (A.GLY98-(SVGSASSVKSTRAVFYNS)-A.VAL117), only 0 candidates
Failed at loop insertion (A.VAL148-(PTGVLVTNGDYDREQFA)-A.ASP166), only 0 candidates
Trying to merge 3 gap(s) with distance 2.
Trying to fill 3 gap(s) by database.
Failed at loop insertion (A.ASP73-(IRVHDYKEGTP)-A.GLU85), only 3 candidates
Failed at loop insertion (A.GLY98-(SVGSASSVKSTRAVFYNS)-A.VAL117), only 0 candidates
Failed at loop insertion (A.VAL148-(PTGVLVTNGDYDREQFA)-A.ASP166), only 0 candidates
Trying to merge 3 gap(s) with distance 3.
Trying to fill 3 gap(s) by database.
Failed at loop insertion (A.ASP73-(IRVHDYKEGTP)-A.GLU85), only 3 candidates
Failed at loop insertion (A.GLY98-(SVGSASSVKSTRAVFYNS)-A.VAL117), only 0 candidates
Failed at loop insertion (A.VAL148-(PTGVLVTNGDYDREQFA)-A.ASP166), only 0 candidates
Trying to fill 3 gap(s) by database.
Failed at loop insertion (A.ASP73-(IRVHDYKEGTP)-A.GLU85), only 3 candidates
Failed at loop insertion (A.GLY98-(SVGSASSVKSTRAVFYNS)-A.VAL117), only 0 candidates
Failed at loop insertion (A.VAL148-(PTGVLVTNGDYDREQFA)-A.ASP166), only 0 candidates
Trying to fill 3 gap(s) by database.
Resolved A.ASP73-(IRVHDYKEGTP)-A.GLU85 by filling A.ASP73-(IRVHDYKEGTPE)-A.GLU86 (32 candidates, BB_DB)
Failed at loop insertion (A.GLY98-(SVGSASSVKSTRAVFYNS)-A.VAL117), only 0 candidates
Failed at loop insertion (A.VAL148-(PTGVLVTNGDYDREQFA)-A.ASP166), only 0 candidates
Trying to fill 2 gap(s) by Monte Carlo.
Resolved A.GLY98-(SVGSASSVKSTRAVFYNS)-A.VAL117 by filling A.GLY98-(SVGSASSVKSTRAVFYNS)-A.VAL117 (6 candidates, BB)
Resolved A.VAL148-(PTGVLVTNGDYDREQFA)-A.ASP166 by filling A.VAL148-(PTGVLVTNGDYDREQFAD)-A.ASN167 (6 candidates, BB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 4.23913e+13)
No more stereo-chemical problems -> final energy: 12048.1


Build model with the following alignment:
target              MNHKVHHHHHHLQENLYFQGMGAEPQQLHVVFFPIMAHGHMIPTLDIARLFAA-RNVRAT
pdb_id=6jtd, cha... -------------------------SKPHVFLLASPGMGHLIPFLELSKRLVTLNTLQVT

target              IITTP-L-N---AHTFTKAIEMGKKNGSPTIHLELFKFPAQDVGLPEGCENLEQALGSSL
pdb_id=6jtd, cha... LFIVSNEATKARSHLMESSNN-----FHPDLELVDLTPA----NLSELLST--D---ATV

target              IEKFFKGVGLLREQLEAYLEKT--RPNCLVADMFFPWATDSAAKFNIPRLVFHGTSFFSL
pdb_id=6jtd, cha... FKRIFLITQAAIKDLESRISSMSTPPAALIVDVFSMDAFPVADRFGIKKYVFVTLNAWFL

target              CALEVVRLYEP-HK-NVSSDEELFSLPLFPHDIKMMRLQLPEDVWKHEKAEGKTRLKLIK
pdb_id=6jtd, cha... ALTTYVRTLDREIEGEYVDLPEPIAIPGCKP---LRPEDVFDPMLSRSSDGYRPYL-GMS

target              ESELKSYGVIVNSFYELEPNYAEFFRKEL------GRRAWNIGPVSLCNRSTEDKAQRGK
pdb_id=6jtd, cha... ERLTKADGLLLNTWEALEPVSLKALRENEKLNQIMTPPLYPVGPVARTTV---Q------

target              QTSIDEHECLKWLNSKKKNSVIYICFGSTAHQIAPQLYEIAMALEASGQEFIWVVRNNN-
pdb_id=6jtd, cha... --EVVGNECLDWLSKQPTESVLYVALGSGGIISYKQMTELAWGLEMSRQRFIWVVRLPTM

target              ---N-----NDD-D-DDDSWLPRGFEQRVEGKGLIIRGWAPQVLILEHEAIGAFVTHCGW
pdb_id=6jtd, cha... EKDGACRFFSDVNVKGPLEYLPEGFLDRNKELGMVLPNWGPQDAILAHPSTGGFLSHCGW

target              NSTLEGITAGVPMVTWPIFAEQFYNEKLVNQILKIGVPVGANKWSRETSIEDVIKKDAIE
pdb_id=6jtd, cha... NSSLESIVNGVPVIAWPLYAEQKMNATLLTEELGVAVRPEVLPT------KAVVSRDEIE

target              KALREIMVGDEAEERRSRAKKLKEMAWKAVEEGGSSYSDLSALIEELRGYHA
pdb_id=6jtd, cha... KMVRRVIESKEGKMKRNRARSVQSDALKAIEKGGSSYNTLIEVAKEFEKNH-

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Trying to close small deletions (no. of gap(s): 21).
Initialized default backbone scoring for modelling.
Closed: A.THR136-()-A.ARG137 by relaxing A.GLU134-(KTR)-A.PRO138
Closed: A.PRO183-()-A.HIS184 by relaxing A.GLU182-(PH)-A.LYS185
Closed: A.LYS185-()-A.ASN186 by relaxing A.HIS184-(KN)-A.VAL187
Trying to merge 18 gap(s) with distance 0.
Merged gap A.PRO64-()-A.LEU65 and A.LEU65-()-A.ASN66 into A.PRO64-(L)-A.ASN66
Merged gap A.PRO64-(L)-A.ASN66 and A.ASN66-()-A.ALA67 into A.PRO64-(LN)-A.ALA67
Merged gap A.ASN105-(LE)-A.GLN108 and A.GLN108-(ALG)-A.SER112 into A.ASN105-(LEQALG)-A.SER112
Merged gap A.ARG274-(STE)-A.ASP278 and A.ASP278-(KAQRGKQT)-A.SER287 into A.ARG274-(STEDKAQRGKQT)-A.SER287
Merged gap A.ASN343-()-A.ASN344 and A.ASN344-()-A.ASN345 into A.ASN343-(N)-A.ASN345
Merged gap A.ASP347-()-A.ASP348 and A.ASP348-()-A.ASP349 into A.ASP347-(D)-A.ASP349
Trying to fill 12 gap(s) by database.
Resolved A.ALA53-()-A.ARG54 by filling A.ALA53-(RNVR)-A.ALA58 (60 candidates, BB_DB)
Resolved A.PRO64-(LN)-A.ALA67 by filling A.ILE61-(TTPLN)-A.ALA67 (62 candidates, BB_DB)
Resolved A.GLU75-(MGKKN)-A.GLY81 by filling A.GLU75-(MGKKNGSPT)-A.ILE85 (41 candidates, BB_DB)
Resolved A.PRO93-(AQDV)-A.GLY98 by filling A.PRO93-(AQDVGL)-A.PRO100 (200 candidates, BB_DB)
Resolved A.ASN105-(LEQALG)-A.SER112 by filling A.ASN105-(LEQALGS)-A.SER113 (48 candidates, BB_DB)
Resolved A.HIS201-(DIK)-A.MET205 by filling A.LEU198-(FPHDIK)-A.MET205 (59 candidates, BB_DB)
Resolved A.LEU226-(K)-A.LEU228 by filling A.LEU226-(KLI)-A.LYS230 (41 candidates, BB_DB)
Resolved A.LEU259-()-A.GLY260 by filling A.GLU258-(LGRRA)-A.TRP264 (52 candidates, BB_DB)
Failed at loop insertion (A.ARG274-(STEDKAQRGKQT)-A.SER287), only 1 candidates
Resolved A.ASN343-(N)-A.ASN345 by filling A.VAL339-(RNNNN)-A.ASN345 (62 candidates, BB_DB)
Resolved A.ASP347-(D)-A.ASP349 by filling A.ASN345-(DDDD)-A.ASP350 (188 candidates, BB_DB)
Resolved A.TRP437-(SRETSI)-A.GLU444 by filling A.ALA434-(NKWSRETSI)-A.GLU444 (41 candidates, BB_DB)
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.ARG274-(STEDKAQRGKQT)-A.SER287), only 1 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.ARG274-(STEDKAQRGKQT)-A.SER287), only 1 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.ARG274-(STEDKAQRGKQT)-A.SER287), only 1 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.ARG274-(STEDKAQRGKQT)-A.SER287), only 1 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.ARG274-(STEDKAQRGKQT)-A.SER287), only 1 candidates
Trying to fill 1 gap(s) by Monte Carlo.
Resolved A.ARG274-(STEDKAQRGKQT)-A.SER287 by filling A.ARG274-(STEDKAQRGKQTS)-A.ILE288 (6 candidates, BB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 4.44107e+13)
Perform energy minimization (iteration 2, energy: 26761.7)
No more stereo-chemical problems -> final energy: 21660


Build model with the following alignment:
target              NTIRVFLPNKQRTVVNVRNGMSLHDCLMKALKVRGLQPECCAVFRLLQEHKGKKARLDWN
pdb_id=6nyb, cha... ------------------------------------------------------------

target              TDAASLIGEELQVDFLDHVPLTTHNFARKTFLKLAFCDICQKFLLNGFRCQTCGYKFHEH
pdb_id=6nyb, cha... ---------------------TTHNFVRKTFFTLAFCDFCRKLLFQGFRCQTCGYKFHQR

target              CSTKVPTMCVDW
pdb_id=6nyb, cha... CSTEVPLMCV--

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 11960.5)
No more stereo-chemical problems -> final energy: 4175.88


Build model with the following alignment:
target              GAMGIELFVKAGIDGESIGNCPFSQRLFMILWLKGVVFNVTTVDLKRKPADLHNLAPGTH
pdb_id=6erz, cha... ----ITLFVKAGYDGESIGNCPFSQRLFMILWLKGVIFNVTTVDL-------------TN

target              PPFLTFNGDVKTDVNKIEEFLEETLTPEKYPKLAAKHRESNTAGIDIFSKFSAYIKNTKQ
pdb_id=6erz, cha... PPFMTFDGEVKTDVNKIEEFLEEKLVPPRYPKLGTQHPESNSAGNDVFAKFSAFIKNTKK

target              QNNAALERGLTKALKKLDDYLNTPLPEEIDANTCGEDKGSRRKFLDGDELTLADCNLLPK
pdb_id=6erz, cha... DANEIYEKNLLRALKKLDSYLNSPLPDEIDADSSEDVTVSQRKFLDGDELTLADCNLLPK

target              LHVVKIVAKKYRNYDIPAEMTGLWRYLKNAYARDEFTNTCAADSEIELAYADVAKRLSRS
pdb_id=6erz, cha... LHIIKIVAKKYRDFEFPSEMTGIWRYLNNAYARDEFTNTCPADREIEHAYSDAAKRMK--

Starting modelling based on a raw model.
Removed 2 terminal gap(s).
Trying to close small deletions (no. of gap(s): 1).
Initialized default backbone scoring for modelling.
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.LEU45-(KRKPADLHNLAPG)-A.THR59), only 0 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.LEU45-(KRKPADLHNLAPG)-A.THR59), only 0 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.LEU45-(KRKPADLHNLAPG)-A.THR59), only 0 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.LEU45-(KRKPADLHNLAPG)-A.THR59), only 0 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.LEU45-(KRKPADLHNLAPG)-A.THR59), only 0 candidates
Trying to fill 1 gap(s) by database.
Failed at loop insertion (A.LEU45-(KRKPADLHNLAPG)-A.THR59), only 0 candidates
Trying to fill 1 gap(s) by Monte Carlo.
Resolved A.LEU45-(KRKPADLHNLAPG)-A.THR59 by filling A.ASP44-(LKRKPADLHNLAPG)-A.THR59 (6 candidates, BB)
Rebuilding sidechains.
Minimize energy.
Perform energy minimization (iteration 1, energy: 305550)
No more stereo-chemical problems -> final energy: 8961.06


Build model with the following alignment:
target              ADTLDNVNLVSSPVHSGFLVSFMVDARGGSMRGSRHHGMRIIIPPRKCTAPTRITCRLVK
pdb_id=4d8o, cha... ---------------SGFLVSFMVDARGGAMRGCRHNGLRIIIPPRKCTAPTRVTCRLVK

target              RHKLANPPPMVEGEGLASRLVEMGPAGAQFLGPVIVEIPHFGSMRGKERELIVLRSENGE
pdb_id=4d8o, cha... RHRLATMPPMVEGEGLASRLIEVGPSGAQFLGPVIVEIPHFAALRGKERELVVLRSENGD

target              TWKEHQFDSKNEDLSELLNGMDEELDSPEELGTKRICRIITKDFPQYFAVVSRIKQESNQ
pdb_id=4d8o, cha... SWKEHFCDY----------GMDEVLDSPEDLEKKRICRIITRDFPQYFAVVSRIKQDSNL

target              IGPEGGILSSTTVPLVQASFPEGALTKRIRVGLQAQPVPEETVKKILGNKATFSPIVTVE
pdb_id=4d8o, cha... IGPEGGVLSSTVVPQVQAVFPEGALTKRIRVGLQAQPMHSELVKKILGNKATFSPIVTLE

target              PRRRKFHKPITMTIPVPPPSGEGVSNGYKGDTTPSLRLLCSITGGTSPAQWEDITGTTPL
pdb_id=4d8o, cha... PRRRKFHKPITMTIPVPKA---------SGD-APTLRLLCSITGGTTPAQWEDITGTTPL

target              TFIKDCVSFTTNVSARFWLADCHQVLETVGLASQLYRELICVPYMAKFVVFAKTNDPVES
pdb_id=4d8o, cha... TFVNECVSFTTNVSARFWLIDCRQIQESVTFASQVYREIICVPYMAKFVVFAKSHDPIEA

target              SLRCFCMTDDRVDKTLEQQENFEEVARSKDIEVLEGKPIYVDCYGNLAPLTKGGQQLVFN
pdb_id=4d8o, cha... RLRCFCMTDDKVDKTLEQQENFAEVARSRDVEVLEGKPIYVDCFGNLVPLT---QHHIFS

target              FYSFKENRLPFSIKVRDTSQEPCGRLSFLKEPKTTKGLPQTAVCNLNITLPAHKKAEKAD
pdb_id=4d8o, cha... FFAFKENRLPLFVKVRDTTQEPCGRLSFMKEP-------HQAICNLNITLPIYT------

target              RRQSFTSLALR
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