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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
RPVIETVQRAAAALLGAVDPEAHFSDLGGDSLSALTYSNFLHEIFQVEVPVSVIVSAANNLRSVAAHIEKERSSDRPTFA
SVHGAGATTIRASDLKLEKFLDAQTLAAAPSLPRPASEVRTVLLTGSNGWLGRFLALAWLERLVPQGGKVVVIVRGKDDK
AAKARLDSVFESGDPALLAHYEDLADKGLEVLAGDFSDADLGLRKADWDRLADEVDLIVHSGALVNHVLPYSQLFGPNVV
GTAEVAKLALTKRLKPVTYLSTVAVAVGVEPSAFEEDGDIRDVSAVRSIYANGYGNSKWAGEVLLREAYEHAGLPVRVFR
SDMILAHRKYTGQLNVPDQFTRLILSLLATGIAPKSFYRQRAHYDGIPVDFTAEAITTLGLAGSDGYHSFDVFNPHHDGV
GLDEFVDWLVEAGHPISRVDDYAEWLSRFETSLRGLPEAQRQHSVLPLLHAFAQPAPAIDGSPFQTKNFQSSVQEAKVGA
EHDIPHLDKALIVKYAEDIKQLGL

The query sequence (length=504) 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 5msr:B 520 518 1.0000 0.9692 0.9730 0.0 5msp:A, 5msr:A, 5msr:C, 5msr:D, 5msv:A, 5msv:B, 5msv:C, 5msv:D
2 5msu:B 459 459 0.5476 0.6013 0.6013 0.0 5mso:A, 5msu:C, 5msu:A
3 4u7w:B 394 415 0.2560 0.3274 0.3108 3.09e-42 4u7w:A
4 5mss:A 717 73 0.1448 0.1018 1.0000 2.52e-37 5mst:A, 5mst:B, 5msw:A
5 6vtj:A 472 438 0.2004 0.2140 0.2306 7.63e-10
6 7eoz:A 482 155 0.0952 0.0996 0.3097 2.46e-07 7eoz:B
7 6nki:A 356 152 0.0813 0.1152 0.2697 0.006
8 8v4h:B 342 212 0.0853 0.1257 0.2028 0.087 8v4g:A, 8v4g:B, 8v4h:A
9 3sxp:D 314 149 0.0853 0.1369 0.2886 0.45 3sxp:A, 3sxp:B, 3sxp:C, 3sxp:E
10 3st7:A 369 37 0.0317 0.0434 0.4324 0.46 2zkl:A
11 2ze0:A 531 87 0.0575 0.0546 0.3333 1.1
12 8e73:AB 85 49 0.0397 0.2353 0.4082 1.4
13 5ovk:A 242 43 0.0397 0.0826 0.4651 1.5 5ovk:B, 5ovk:C, 5ovk:D, 5ovl:A, 5ovl:B, 5ovl:C, 5ovl:D
14 6kfu:A 527 64 0.0317 0.0304 0.2500 1.5 6kfm:A, 6kfm:B, 6kfr:A, 6kfr:B
15 4mrt:C 77 46 0.0258 0.1688 0.2826 1.7
16 8jfh:E 79 34 0.0317 0.2025 0.4706 1.7 8jfn:B
17 8fip:A 338 57 0.0337 0.0503 0.2982 1.8 8fio:A, 8fio:B, 8fip:B
18 7ar7:T 84 34 0.0298 0.1786 0.4412 2.1 7ar8:T, 8bq6:T
19 1g6k:A 261 60 0.0397 0.0766 0.3333 2.4 1g6k:B, 1g6k:E, 1g6k:F, 1gco:A, 1gco:B, 1gco:E, 1gco:F, 1gee:A, 1gee:B, 1gee:E, 1gee:F, 1rwb:A, 1rwb:B, 1rwb:E, 1rwb:F
20 5d0n:A 274 166 0.0853 0.1569 0.2590 3.1 5d1f:A
21 2pzm:A 316 232 0.1250 0.1994 0.2716 3.2 2pzk:A, 2pzk:B, 2pzl:A, 2pzl:B, 2pzm:B
22 7td3:R 292 57 0.0298 0.0514 0.2632 3.5 7eo2:A, 7eo4:A, 7evy:D, 7evz:D, 7ew0:D, 7ew7:D, 8g94:A, 7td4:R, 7vie:F, 7vif:F, 7vig:F, 7vih:F, 7wf7:A
23 3c1t:B 326 73 0.0496 0.0767 0.3425 3.5 3bxx:A, 3bxx:B, 3bxx:C, 3bxx:D, 3bxx:E, 3bxx:F, 3c1t:A, 3c1t:C, 3c1t:D, 2c29:D, 2c29:F, 2iod:A, 2iod:B, 2iod:C, 2iod:D, 2nnl:D, 2nnl:F
24 2eht:A 77 51 0.0377 0.2468 0.3725 3.8
25 4s2r:P 615 60 0.0357 0.0293 0.3000 4.1 4s2r:Q, 4s2t:P, 4s2t:Q
26 7xpo:A 344 70 0.0456 0.0669 0.3286 4.4 7xpo:B, 7xpp:B, 7xpp:A, 7xpq:A, 7xpq:B
27 8jat:A 204 50 0.0337 0.0833 0.3400 4.5
28 5bp4:A 1102 106 0.0595 0.0272 0.2830 5.3 5bp2:A, 5bp4:B, 5bp4:C, 5bp4:D, 5bp4:E, 5bp4:F, 5bp4:G, 5bp4:H, 5bp4:J, 5bp4:K, 5bp4:M, 5bp4:N, 5bp4:P
29 1gz6:B 278 65 0.0456 0.0827 0.3538 6.6
30 5hv8:A 95 38 0.0278 0.1474 0.3684 6.7
31 4ipi:A 351 112 0.0575 0.0826 0.2589 6.8 4ipj:A, 6ppw:A, 6ppy:A, 6ppz:A, 2wqp:A, 1xuu:A, 1xuz:A
32 3vvb:A 270 148 0.0714 0.1333 0.2432 8.0
33 4ews:A 472 100 0.0536 0.0572 0.2700 8.8 4f2a:A, 2obd:A
34 7qd4:A 908 37 0.0298 0.0165 0.4054 9.1 7qd4:D, 7qd5:A, 7qd5:D, 7qd6:A, 7qd6:D
35 5ts3:A 265 29 0.0258 0.0491 0.4483 9.3 5ts3:B
36 4hp8:B 246 110 0.0675 0.1382 0.3091 9.4 4hp8:A

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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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