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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
YEPPATWENVDYKRTIDVSNAYISETIEITIKNIASEPATEYFTAFESGIFSKVSFFSAYFTNEATFLNSQLLAEIRYGI
IQFPNAISPQEEVSLVIKSFYNTVGIPYPEHVGMSEEQHLLWETNRLPLSAYDTKKASFTLIGSSSFEEYHPPNDESLLG
KANGNSFEFGPWEDIPRFSSNETLAIVYSHNAPLNQVVNLRRDIWLSHWASTIQFEEYYELTNKAAKLSKGFSRLELMKQ
IQTQNMRQTHFVTVLDMLLPEGATDHYFTDLVGLVSTSHAERDHFFIRPRFPIFGGWNYNFTVGWTNKLSDFLHVSSGSD
EKFVASIPILNGPPDTVYDNVELSVFLPEGAEIFDIDSPVPFTNVSIETQKSYFDLNKGHVKLTFSYRNLISQVANGQVL
IKYDYPKSSFFKKPLSIACYIFTALMGVFVLKTLNMNV

The query sequence (length=438) 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 8agc:E 438 438 1.0000 1.0000 1.0000 0.0 8agb:E, 8age:E, 6c26:1, 6ezn:A
2 6s7o:E 560 443 0.2694 0.2107 0.2664 2.35e-42 6s7t:E
3 6ezl:A 392 45 0.0365 0.0408 0.3556 0.35 6ezl:B
4 7sf2:A 586 58 0.0411 0.0307 0.3103 1.1 7sf2:B, 7sf2:C, 7sf2:D, 7sf2:E, 7sf2:F
5 5n0c:A 1293 81 0.0457 0.0155 0.2469 1.4 1dfq:A, 1diw:A, 1dll:A, 1fv2:A, 1fv3:A, 1fv3:B, 3hmy:A, 3hn1:A, 5n0b:A, 5n0c:B, 1yxw:A, 1yyn:A, 1z7h:A
6 8brp:A 305 47 0.0388 0.0557 0.3617 3.0 8brp:B, 8brp:C, 8brp:D
7 2i2r:B 124 60 0.0457 0.1613 0.3333 4.9
8 7qkr:A 1199 83 0.0548 0.0200 0.2892 5.5 7qks:A
9 5x9u:A 494 56 0.0342 0.0304 0.2679 5.7 5x9u:B, 5x9u:C, 5x9u:D, 5x9v:A, 5x9v:B, 5x9v:C, 5x9v:D
10 7aor:ab 1110 56 0.0388 0.0153 0.3036 6.6
11 7xzh:B 730 48 0.0388 0.0233 0.3542 7.4 7m19:C, 7xzh:A, 7xzh:C, 7xzh:D, 7xzh:E, 7xzh:F
12 7o4n:A 226 74 0.0571 0.1106 0.3378 7.7 7o4o:A
13 4gpt:C 1017 48 0.0342 0.0147 0.3125 9.2 4gmx:C, 4hat:C, 4hau:C, 4hav:C, 4haw:C, 4hax:C, 4hay:C, 4haz:C, 4hb0:C, 4hb4:C, 5jlj:C, 7l5e:C, 6lq9:C, 5uwh:C, 5uwi:C, 5uwq:C, 5uwr:C, 5uwt:C, 5uww:C, 4wvf:C, 3wyg:C, 6xjp:C, 6xjr:C, 6xjs:C, 6xjt:C, 6xju:C, 5xoj:C, 5ysu:C, 5zpu:C
14 5uwu:C 998 48 0.0342 0.0150 0.3125 9.6 6a38:C, 6a3a:C, 6a3b:C, 6a3c:C, 6a3e:C, 6cit:C, 7cnd:C, 5dh9:C, 5dha:C, 5dhf:C, 5di9:C, 5dif:C, 8hq3:C, 8hq4:C, 8hq5:C, 8hq6:C, 8huf:C, 8hug:C, 8itv:C, 6kft:C, 6m60:C, 6m6x:C, 5uwj:C, 5uwo:C, 5uwp:C, 5uws:C, 6x2p:C, 6x2r:C, 6x2s:C, 6x2u:C, 6x2v:C, 6x2w:C, 6x2x:C, 6x2y:C, 7ypz:C

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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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