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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
PRFRDLSHNCRPSEAPRVMEPKNRDRTVDPAVLEMLVKSKDDKVITAFDRFVAQQPQCKIGYEGICCRFCMAGPCRIKAT
DGPGSRGICGASAWTIVARNVGLMILTGAAAHCEHGNHIAHALVEMAEGKAPDYSVKDEAKLKEVCRRVGIEVEGKSVLE
LAQEVGEKALEDFRRLKGEGEATWLMTTINEGRKEKFRTHNVVPFGIHASISELVNQAHMGMDNDPVNLVFSAIRVALAD
YTGEHIATDFSDILFGTPQPVVSEANMGVLDPDQVNFVLHGHNPLLSEIIVQAAREMEGEAKAAGAKGINLVGICCTGNE
VLMRQGIPLVTSFASQELAICTGAIDAMCVDVQCIMPSISAVAECYHTRIITTADNAKIPGAYHIDYQTATAIESAKTAI
RMAIEAFKERKESNRPVYIPQIKNRVVAGWSLEALTKLLATQNAQNPIRVLNQAILDGELAGVALICGCNNLKGFQDNSH
LTVMKELLKNNVFVVATGCSAQAAGKLGLLDPANVETYCGDGLKGFLKRLGEGANIEIGLPPVFHMGSCVDNSRAVDLLM
AMANDLGVDTPKVPFVASAPEAMSGKAAAIGTWWVSLGVPTHVGTMPPVEGSDLIYSILTQIASDVYGGYFIFEMDPQVA
ARKILDALEYRTWKLGVHKEVAERYETKLCQGY

The query sequence (length=673) 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 3i01:A 673 673 1.0000 1.0000 1.0000 0.0 3i01:B, 3i01:C, 3i01:D, 3i04:A, 3i04:B, 3i04:C, 3i04:D, 1mjg:A, 1mjg:B, 1mjg:C, 1mjg:D, 1oao:A, 1oao:B, 6x5k:A, 6x5k:B, 6x5k:C, 6x5k:D, 2z8y:A, 2z8y:B, 2z8y:C, 2z8y:D
2 8cja:A 669 673 0.6508 0.6547 0.6508 0.0 8cjb:A, 8cjc:A, 8cmw:A, 7zkj:A, 7zkk:A, 7zkv:A
3 3i39:X 635 632 0.4606 0.4882 0.4905 0.0 3b51:X, 3b52:X, 3b53:X, 7err:A, 5fle:X, 8omx:X, 8omy:X, 8on0:X, 8on1:X, 8on2:X, 8on3:X, 1su6:A, 1su7:A, 1su8:A, 1suf:A, 4udx:X, 4udy:X, 8x9d:A, 8x9e:A, 8x9f:A, 8x9g:A, 8x9h:A, 7xdm:A, 7xdn:A, 7xdp:A, 2yiv:X, 7zx3:X, 7zx5:X, 7zx6:X, 7zxc:X, 7zxj:X, 7zxl:X, 7zxx:X, 7zy1:X
4 6elq:X 630 627 0.4517 0.4825 0.4848 0.0 6elq:A, 6elq:B
5 1jqk:A 610 612 0.4264 0.4705 0.4690 0.0 1jqk:B, 1jqk:C, 1jqk:D, 1jqk:E, 1jqk:F
6 6t7j:B 632 628 0.4146 0.4415 0.4443 3.21e-168 6t7j:A, 6t7j:D
7 6ytt:C 630 645 0.3982 0.4254 0.4155 7.48e-167 6ytt:B, 6yu9:A, 6yu9:B, 6yu9:C, 6yu9:D, 6yua:B, 6yua:C
8 6b6w:B 628 639 0.3759 0.4029 0.3959 4.53e-140 6b6v:A, 6b6v:B, 6b6w:A, 6b6x:A, 6b6x:B, 6b6y:A, 6b6y:B, 6dc2:A, 6dc2:B, 6dc2:C, 6dc2:D, 6onc:A, 6onc:B, 6onc:C, 6onc:D, 6ond:A, 6ond:B, 6ond:C, 6ond:D, 6ons:A, 7tsj:A, 6vwy:A, 6vwy:B, 6vwz:A, 6vwz:B, 6vx0:A, 6vx0:B, 6vx1:A, 6vx1:B
9 7b7q:A 629 647 0.2749 0.2941 0.2859 1.49e-75 7b7q:B, 7b7t:A, 7b7t:B, 7b95:A, 7b95:B, 7b97:A, 7b97:B, 7b9a:A, 7b9a:B, 7b9a:C, 7b9a:D
10 3cf4:A 766 358 0.1189 0.1044 0.2235 1.16e-07
11 3cf4:A 766 178 0.0728 0.0640 0.2753 0.009
12 7e0l:A 491 378 0.1085 0.1487 0.1931 0.073 7e0l:B, 7e0l:K, 7e0l:M, 7wsx:A, 7wsx:B
13 3r4z:B 359 60 0.0297 0.0557 0.3333 0.20 3r4z:A
14 2huf:A 385 188 0.0684 0.1195 0.2447 0.72 2huf:B, 2hui:A, 2hui:B, 2huu:A, 2huu:B
15 8gju:J 689 94 0.0386 0.0377 0.2766 1.9 8gju:K, 8gju:L, 8gju:H
16 2wsw:A 508 52 0.0253 0.0335 0.3269 1.9 4m8j:A
17 7s3d:B 742 53 0.0297 0.0270 0.3774 5.0 7s3d:H, 7s3d:b
18 9cl9:A 278 117 0.0446 0.1079 0.2564 5.1 4lgt:A, 4lgt:D
19 6ywe:8 331 162 0.0579 0.1178 0.2407 5.5 6yws:8, 6ywv:8, 6ywx:8, 6ywy:8
20 3lbf:A 207 45 0.0267 0.0870 0.4000 5.8 3lbf:B, 3lbf:C, 3lbf:D
21 7sn8:I 634 79 0.0297 0.0315 0.2532 6.0
22 2wsx:A 496 52 0.0253 0.0343 0.3269 6.1 3hfx:A, 2wsx:B, 2wsx:C
23 1zgs:A 442 56 0.0267 0.0407 0.3214 6.8 4mq0:A, 1zgs:B
24 7yzm:A 422 287 0.1010 0.1611 0.2369 7.2 6eno:A, 7yyl:C, 7yyl:D, 7yyl:A, 7yyl:B, 7yzm:B, 7yzm:C, 7yzm:D, 7yzq:C, 7yzq:D, 7yzq:A, 7yzq:B
25 4b56:A 816 59 0.0253 0.0208 0.2881 8.6 6aek:A, 6ael:A, 4b56:B
26 1t9b:A 583 101 0.0401 0.0463 0.2673 9.1 1t9d:B, 1t9d:C
27 6u9d:B 607 101 0.0401 0.0445 0.2673 9.8 6bd3:A, 6bd3:B, 6bd9:A, 6bd9:B, 5fem:A, 5fem:B, 5ims:A, 5ims:B, 1jsc:A, 1jsc:B, 1n0h:A, 1n0h:B, 1t9a:A, 1t9a:B, 1t9b:B, 1t9c:A, 1t9c:B, 1t9d:A, 1t9d:D, 6u9d:A, 6u9d:E, 6u9d:F, 6u9d:I, 6u9d:J, 6u9d:M, 6u9d:N, 6u9d:Q, 6u9d:U, 6u9d:V, 5wkc:A, 5wkc:D, 5wkc:B, 5wkc:E
28 4gtw:A 706 59 0.0253 0.0241 0.2881 9.8 4gtw:B, 4gtx:A, 4gtx:B, 4gty:A, 4gty:B, 4gtz:A, 4gtz:B, 6xkd:B

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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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