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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
GAPIHDPDFIGGIGKELIVDNASDVTSFYPSAFQEHLNFIPAPTTGSGCTRIPSFDMSATHYCYTHNVILSGCRDHSHSH
QYLALGVLRTTATGRIFFSTLRSISLDDTQNRKSCSVSATPLGCDMLCSKVTETEEEDYNSAVPTLMAHGRLGFDGQYHE
KDLDVTTLFEDWVANYPGVGGGSFIDGRVWFSVYGGLKPNSPSDTVQEGKYVIYKRYNDTCPDEQDYQIRMAKSSYKPGR
FGGKRIQQAILSIKVSTSLGEDPVLTVPPNTVTLMGAEGRILTVGTSHFLYQRGSSYFSPALLYPMTVSNKTATLHSPYT
FNAFTRPGSIPCQASARCPNSCVTGVYTDPYPLIFYRNHTLRGVFGTMLDSEQARLNPASAVFDSTSRSRITRVSSSSTK
AAYTTSTCFKVVKTNKTYCLSIAEISNTLFGEFRIVPLLVEILKND

The query sequence (length=446) 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 1e8u:B 449 446 1.0000 0.9933 1.0000 0.0 7bwu:B, 7bwu:D, 7bwu:A, 7bwu:C, 1e8t:A, 1e8u:A, 1e8v:A, 1e8v:B, 1usr:A, 1usr:B, 1usx:A, 1usx:B, 1usx:C
2 6jjm:A 452 449 0.3655 0.3606 0.3630 1.67e-87 5b2d:A, 5b2d:B, 6jjm:B, 6jjn:A, 6jjn:B
3 4jf7:A 501 415 0.3363 0.2994 0.3614 3.06e-84 4jf7:D, 4jf7:B, 4jf7:C, 1z4v:A, 1z4w:A, 1z4x:A, 1z4y:A, 1z4z:A, 1z50:A
4 4mza:B 437 413 0.2758 0.2815 0.2978 7.41e-42 6c0m:A, 6c0m:B, 5kv8:A, 5kv8:B, 5kv9:B, 4mza:A, 4mze:A, 4mze:B, 1v2i:A, 1v2i:B, 1v3b:A, 1v3b:B, 1v3c:A, 1v3c:B, 1v3d:A, 1v3d:B, 1v3e:A, 1v3e:B, 4wef:A, 4wef:B, 4xjq:A, 4xjq:B, 4xjr:A, 4xjr:B
5 6sg8:B 381 416 0.2489 0.2913 0.2668 2.32e-28 6sg8:A
6 7ty0:D 485 107 0.0830 0.0763 0.3458 8.90e-09 8ja5:A, 7txz:B, 2vwd:A, 2vwd:B, 8xc4:B
7 6pdl:E 421 194 0.1188 0.1259 0.2732 6.36e-07 6pdl:C, 7syy:A
8 6u5w:A 1435 24 0.0269 0.0084 0.5000 1.0
9 6ab6:C 337 40 0.0314 0.0415 0.3500 1.3 6ab6:A, 6ab6:B, 5yl1:A
10 4v59:D 1467 82 0.0516 0.0157 0.2805 3.5 4v59:A, 4v59:B, 4v59:C, 4v59:E, 4v59:F
11 6ql9:D 1765 24 0.0269 0.0068 0.5000 3.9 3hmj:A, 3hmj:B, 3hmj:C, 8prv:A, 8prv:B, 8prw:A, 8prw:B, 8prw:C, 8prw:D, 8prw:E, 8prw:F, 8ps1:A, 6ql6:F, 6ql6:E, 6ql6:D, 6ql6:C, 6ql6:B, 6ql6:A, 6ql9:F, 6ql9:A, 6ql9:E, 6ql9:B, 6ql9:C, 6ta1:A, 6ta1:B, 6ta1:D, 6ta1:K, 6ta1:F, 6ta1:I, 6u5u:A, 2vkz:A, 2vkz:B, 2vkz:C, 2wat:A, 2wat:B, 2wat:C, 2wat:D, 2wat:E, 2wat:F
12 8uy2:D 557 60 0.0359 0.0287 0.2667 5.4 8uy2:A, 8uy2:B, 8uy2:C
13 8hvc:A 602 63 0.0516 0.0382 0.3651 5.7 8hvb:A, 8hvd:A
14 8uy1:A 598 60 0.0359 0.0268 0.2667 6.4 8uy1:D, 8uy1:B, 8uy1:C
15 3fo9:H 218 47 0.0404 0.0826 0.3830 6.7 3bz4:B, 3bz4:D, 3bz4:F, 3bz4:H, 3c6s:B, 3c6s:D, 3c6s:F, 3c6s:H, 3fo9:B, 3ggw:B, 3ggw:D

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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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