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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
AGIVGAIAQRDVAEILLEGLRRLEYRGYDSAGLAVVDAEGHMTRLRRLGKVQMLAQAAEEHPLHGGTGIAHTRWATHGEP
SEVNAHPHVSEHIVVVHNGIIENHEPLREELKARGYTFVSETDTEVIAHLVNWELKQGGTLREAVLRAIPQLRGAYGTVI
MDSRHPDTLLAARSGSPLVIGLGMGENFIASDQLALLPVTRRFIFLEEGDIAEITRRSVNIFDKTGAEVKKGIYRHYMQK
EIYEQPNAIKNTLTGRISHGQVDLSELGPNADELLSKVEHIQILACGTSYNSGMVSRYWFESLAGIPCDVEIASEFRYRK
SAVRRNSLMITLSQSGETADTLAGLRLSKELGYLGSLAICNVPGSSLVRESDLALMTNAGTEIGVASTKAFTTQLTVLLM
LVAKLSRLKGLDASIEHDIVHGLQALPSRIEQMLSQDKRIEALAEDFSDKHHALFLGRGDQYPIALEGALKLKEISYIHA
EAYAAGELKHGPLALIDADMPVIVVAPNNELLEKLKSNIEEVRARGGQLYVFADQDAGFVSSDNMHIIEMPHVEEVIAPI
FYTVPLQLLAYHVALIKGTDVDQPRNLAKSVTVE

The query sequence (length=594) 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 4amv:A 608 608 0.9966 0.9737 0.9737 0.0 4amv:B, 4amv:C, 7dnr:A, 2j6h:A, 2j6h:B, 1jxa:A, 1jxa:B, 1moq:A, 1mor:A, 1mos:A, 3ooj:A, 3ooj:B, 3ooj:C, 3ooj:D, 3ooj:E, 3ooj:F, 3ooj:G, 3ooj:H, 2vf5:X, 1xff:A, 1xff:B, 1xfg:A, 1xfg:B
2 6r4e:A 663 654 0.4343 0.3891 0.3945 8.65e-143 7ndl:A, 7ndl:B, 6r4e:B, 6r4f:A, 6r4f:B, 6r4g:A, 6r4g:B, 6r4h:A, 6r4h:B, 6r4i:A, 6r4i:B, 6r4j:A, 6r4j:B, 6svm:A, 6svm:B, 6svo:A, 6svo:B, 6svp:A, 6svp:B, 6svq:A, 6svq:B, 2v4m:A, 2v4m:B, 2v4m:C, 2v4m:D, 2zj3:A, 2zj4:A, 6zmj:A, 6zmj:B, 6zmk:A, 6zmk:B
3 2poc:B 352 353 0.2492 0.4205 0.4193 4.87e-82 2poc:A, 2poc:C, 2poc:D, 2put:A, 2put:B, 2put:C, 2put:D, 2puv:A, 2puv:B, 2puv:C, 2puv:D, 2puw:A
4 2puw:B 331 351 0.2323 0.4169 0.3932 2.09e-68
5 8fdb:B 333 254 0.1263 0.2252 0.2953 1.59e-25 8eym:A, 8eym:B, 8fdb:A
6 2df8:A 325 340 0.1751 0.3200 0.3059 2.45e-23 2df8:B
7 1gph:1 465 206 0.0976 0.1247 0.2816 7.03e-17 1ao0:A, 1ao0:B, 1ao0:C, 1ao0:D, 1gph:2, 1gph:3, 1gph:4
8 6lbp:A 460 314 0.1313 0.1696 0.2484 9.13e-15 6lbp:B
9 1ecf:B 500 214 0.1044 0.1240 0.2897 4.94e-11 6czf:A, 6czf:C, 6czf:B, 6czf:D, 1ecb:A, 1ecb:B, 1ecb:C, 1ecb:D, 1ecc:A, 1ecc:B, 1ecf:A, 1ecg:A, 1ecg:B, 1ecj:A, 1ecj:C, 6ott:A, 6ott:B, 8w7d:A, 8w7d:B, 8w7d:C, 8w7d:D
10 1ct9:A 497 144 0.0690 0.0825 0.2847 0.001 1ct9:B, 1ct9:C, 1ct9:D
11 4lzj:B 299 79 0.0471 0.0936 0.3544 0.002 4lzj:C, 4lzj:D, 4lzj:A
12 4yws:B 393 55 0.0320 0.0483 0.3455 0.12
13 4z7k:B 195 50 0.0269 0.0821 0.3200 0.51
14 5xe0:A 457 143 0.0539 0.0700 0.2238 1.7 5zit:A
15 1tzc:A 301 158 0.0623 0.1229 0.2342 2.3 1tzc:B, 1x9h:A, 1x9h:B, 1x9i:A, 1x9i:B
16 5uqi:A 188 91 0.0505 0.1596 0.3297 2.6
17 7ec3:A 500 153 0.0758 0.0900 0.2941 2.6 7ec3:C, 7ec6:A, 7ec7:A, 7ec7:B, 7vfl:A, 7vfl:C, 7vfm:A, 7vfm:C, 7vfn:A, 7vfo:A, 7vfo:B
18 7mfm:G 1483 54 0.0303 0.0121 0.3333 3.5 7mfm:H, 7mft:G
19 4z17:A 424 56 0.0320 0.0448 0.3393 3.6 4yws:A, 4z17:B, 4z1y:A, 4z1y:B
20 1iyx:A 431 56 0.0303 0.0418 0.3214 4.1 1iyx:B
21 3l0s:A 223 57 0.0337 0.0897 0.3509 4.5 3l0p:A, 3l0s:C, 2xb4:A
22 6bfy:A 439 28 0.0185 0.0251 0.3929 4.9 6bfy:B, 6bfy:C, 6bfy:F, 6bfy:D, 6bfy:E, 6bfz:A, 6bfz:B, 6bfz:E, 6bfz:F, 6bfz:D, 6bfz:C, 6d3q:A, 6d3q:C, 6d3q:B, 6d3q:E, 6d3q:F, 6d3q:D, 1e9i:A, 1e9i:B, 1e9i:C, 1e9i:D, 2fym:A, 2fym:C, 2fym:D, 2fym:F, 3h8a:A, 3h8a:B, 3h8a:C, 3h8a:D, 6npf:A, 6npf:B, 6npf:C, 6npf:D, 6npf:F, 6npf:E, 5ohg:A, 5ohg:B, 5ohg:H, 5ohg:I
23 6bzc:A 548 78 0.0404 0.0438 0.3077 7.5 6bzc:B
24 1w6t:B 430 56 0.0286 0.0395 0.3036 8.0 1w6t:A
25 4mks:A 400 56 0.0303 0.0450 0.3214 8.2 4mks:B
26 5ltm:B 537 109 0.0471 0.0521 0.2569 8.8 5ltm: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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