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I-TASSER I-TASSER-MTD C-I-TASSER CR-I-TASSER QUARK C-QUARK LOMETS MUSTER CEthreader SEGMER DeepFold DeepFoldRNA FoldDesign COFACTOR COACH MetaGO TripletGO IonCom FG-MD ModRefiner REMO DEMO DEMO-EM DMFold SPRING COTH Threpp PEPPI BSpred ANGLOR EDock BSP-SLIM SAXSTER FUpred ThreaDom ThreaDomEx EvoDesign BindProf BindProfX SSIPe GPCR-I-TASSER MAGELLAN ResQ STRUM DAMpred

TM-score TM-align US-align MM-align RNA-align NW-align LS-align EDTSurf MVP MVP-Fit SPICKER HAAD PSSpred 3DRobot MR-REX I-TASSER-MR SVMSEQ NeBcon ResPRE TripletRes DeepPotential WDL-RF ATPbind DockRMSD DeepMSA FASPR EM-Refiner GPU-I-TASSER

BioLiP E. coli GLASS GPCR-HGmod GPCR-RD GPCR-EXP Tara-3D TM-fold DECOYS POTENTIAL RW/RWplus EvoEF HPSF THE-DB ADDRESS Alpaca-Antibody CASP7 CASP8 CASP9 CASP10 CASP11 CASP12 CASP13 CASP14

BioLiP
>protein
PPQLHNGLDFSAKVIQGSLDSLPQEVRKFVEGNAQLCQPEYIHICDGSEEEYGRLLAHMQEEGVIRKLKKYDNCWLALTD
PRDVARIESKTVIITQEQRDTVPIPKSGQSQLGRWMSEEDFEKAFNARFPGCMKGRTMYVIPFSMGPLGSPLAKIGIELT
DSPYVVASMRIMTRMGTSVLEALGDGEFIKCLHSVGCPLPLKKPLVNNWACNPELTLIAHLPDRREIISFGSGYGGNSLL
GKKCFALRIASRLAKEEGWLAEHMLILGITNPEGKKKYLAAAFPSACGKTNLAMMNPTLPGWKVECVGDDIAWMKFDAQG
NLRAINPENGFFGVAPGTSVKTNPNAIKTIQKNTIFTNVAETSDGGVYWEGIDEPLAPGVTITSWKNKEWRPQDEEPCAH
PNSRFCTPASQCPIIDPAWESPEGVPIEGIIFGGRRPAGVPLVYEALSWQHGVFVGAAMRSEGGIMHDPFAMRPFFGYNF
GKYLAHWLSMAHRPAAKLPKIFHVNWFRKDKNGKFLWPGFGENSRVLEWMFGRIEGEDSAKLTPIGYVPKEDALNLKGLG
DVNVEELFGISKEFWEKEVEEIDKYLEDQVNADLPYEIERELRALKQRISQM

The query sequence (length=612) is searched through a non-redundant set of database sequences protein_nr.fasta.gz clustered at 90% identity cutoff to identify representative hits. Homologs that belong to the same sequence cluster of the representative hit are listed in the last column of the table.

# Hit Hit
length
Aligned
length
Identity
(normalized by query)
Identity
(normalized by hit)
Identity (normalized
by aligned length)
E-value Homologs
to hit
1 3dt7:A 624 621 0.9967 0.9776 0.9823 0.0 3dt2:A, 3dt4:A, 3dt4:C, 3dt7:B, 3dtb:A, 3dtb:B, 5fh0:A, 5fh1:A, 5fh2:A, 5fh3:A, 5fh4:A, 5fh5:A, 2gmv:A, 2gmv:B, 4gmm:A, 4gmu:A, 4gmw:A, 4gmz:A, 4gnl:A, 4gnm:A, 4gno:A, 4gnp:A, 4gnq:A, 1khb:A, 1khe:A, 1khf:A, 1khg:A, 7l36:A, 7l3m:A, 7l3v:A, 1m51:A, 3moe:A, 3mof:A, 3mof:B, 3moh:A, 3moh:B, 1nhx:A, 4ox2:A, 4ox2:B, 6p5o:A, 2qew:A, 2qey:A, 2qf1:A, 2qf2:A, 2qf2:B, 2rk7:A, 2rk7:B, 2rk8:A, 2rk8:B, 2rka:A, 2rka:C, 2rkd:A, 2rke:A, 5v97:A, 5v9f:A, 5v9g:A, 5v9h:A, 5v9h:B, 4yw8:A, 4yw9:A, 4ywb:A, 4ywb:C, 4ywd:A
2 5v95:A 592 604 0.9657 0.9983 0.9785 0.0
3 2fah:C 608 609 0.6307 0.6349 0.6338 0.0 2faf:A, 2faf:B, 2fah:D, 2fah:A, 2fah:B, 2qzy:A, 2qzy:B
4 4r43:A 601 612 0.5082 0.5175 0.5082 0.0 5i67:A, 4rcg:A, 4wie:A, 4wiu:A, 4wl8:A, 4wou:A, 4wpt:A, 4wpu:A, 4wpv:A
5 7vxw:A 224 84 0.0441 0.1205 0.3214 0.50 7vy4:A, 7vy7:A
6 3en9:A 519 99 0.0458 0.0539 0.2828 0.92 3en9:B, 3enh:A, 3enh:B, 5jmv:A, 5jmv:B, 5jmv:C, 2vwb:A, 2vwb:B
7 4gsk:B 572 87 0.0359 0.0385 0.2529 1.6 4gsk:A
8 6c6q:F 113 36 0.0261 0.1416 0.4444 3.0 6c6q:D, 6c74:A, 6e47:F, 6e47:G, 6e48:G, 6e48:F
9 3gwg:A 123 80 0.0376 0.1870 0.2875 4.9 3h1e:A, 3h1g:A
10 2why:A 283 60 0.0294 0.0636 0.3000 4.9 2xuz:A, 2xv1:A
11 1ko7:A 285 58 0.0327 0.0702 0.3448 4.9 1ko7:B
12 6tl0:B 61 36 0.0196 0.1967 0.3333 5.0
13 4n8c:I 221 81 0.0343 0.0950 0.2593 5.3 4n8c:H
14 6uex:A 247 79 0.0408 0.1012 0.3165 5.3
15 4faj:A 507 50 0.0294 0.0355 0.3600 7.0

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Reference:
  • Chengxin Zhang, Xi Zhang, Peter L Freddolino, and Yang Zhang. BioLiP2: an updated structure database for biologically relevent ligand-protein interactions, Nucleic Acids Research, gkad630 (2023).
  • Jianyi Yang, Ambrish Roy, and Yang Zhang. BioLiP: a semi-manually curated database for biologically relevant ligand-protein interactions, Nucleic Acids Research, 41: D1096-D1103 (2013) (download the PDF file).
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