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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
SQVLKIRRPDDWHLHLRDGDMLKTVVPYTSEIYGRAIVMPNLAPPVTTVEAAVAYRQRILDAVPAGHDFTPLMTCYLTDS
LDPNELERGFNEGVFTAAKLYPAGVTSVDAIMPVLERMEKIGMPLLVHGEVTHADIDIFDREARFIESVMEPLRQRLTAL
KVVFEHITTKDAADYVRDGNERLAATITPQHLMFNRNHMLVGGVRPHLYCLPILKRNIHQQALRELVASGFNRVFLGTDS
APHARHRKESSCGCAGCFNAPTALGSYATVFEEMNALQHFEAFCSVNGPQFYGLPVNDTFIELVREEQQVAESIALTDDT
LVPFLAGETVRWSVK

The query sequence (length=335) 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 3mjm:A 344 343 0.9970 0.9709 0.9738 0.0 2e25:A, 2eg6:A, 2eg6:B, 2eg7:A, 2eg7:B, 2eg8:A, 2eg8:B, 1j79:A, 1j79:B, 3mjm:B, 1xge:A, 1xge:B, 2z24:A, 2z24:B, 2z25:A, 2z25:B, 2z26:A, 2z26:B, 2z27:A, 2z27:B, 2z28:A, 2z28:B, 2z29:A, 2z29:B, 2z2a:A, 2z2a:B, 2z2b:A
2 3jze:A 344 343 0.8866 0.8634 0.8659 0.0 3jze:B, 3jze:C, 3jze:D
3 6cty:C 353 342 0.7194 0.6827 0.7047 0.0 6cty:A, 6cty:B, 6cty:D, 6cty:E, 6cty:F
4 5vgm:B 342 337 0.5463 0.5351 0.5430 2.61e-131 5vgm:A
5 4lfy:B 353 341 0.5612 0.5326 0.5513 8.82e-129 4lfy:A
6 3pnu:A 338 347 0.3791 0.3757 0.3660 1.92e-65 3pnu:B
7 6l0a:C 365 358 0.3284 0.3014 0.3073 4.29e-42 7ca0:A, 7ca0:B, 7ca0:C, 7ca0:D, 7ca1:A, 7ca1:C, 7ca1:B, 7ca1:D, 6l0a:A, 6l0a:B, 6l0a:D, 6l0b:A, 6l0b:C, 6l0b:B, 6l0b:D, 6l0f:A, 6l0f:B, 6l0f:C, 6l0f:D, 6l0g:A, 6l0g:B, 6l0g:C, 6l0g:D, 6l0h:A, 6l0h:B, 6l0h:C, 6l0h:D, 6l0i:A, 6l0i:B, 6l0i:C, 6l0i:D, 6l0j:A, 6l0j:D, 6l0j:B, 6l0j:C, 6l0k:A, 6l0k:B, 6l0k:C, 6l0k:D
8 2z00:A 426 327 0.2388 0.1878 0.2446 5.34e-05
9 4bjh:A 422 269 0.1940 0.1540 0.2416 0.001 3d6n:A
10 2gwn:A 451 243 0.1791 0.1330 0.2469 0.018
11 3gri:B 423 86 0.0746 0.0591 0.2907 0.089 3gri:A
12 4zxh:A 1314 66 0.0627 0.0160 0.3182 1.2 4zxi:A
13 3ppu:A 314 58 0.0567 0.0605 0.3276 2.6
14 3oy7:A 392 21 0.0388 0.0332 0.6190 5.4 3oy7:B
15 7ev9:A 382 13 0.0299 0.0262 0.7692 5.6 7ev9:E, 7ev9:I, 8oyi:A, 8oyi:E, 8oyi:I, 3rgb:A, 3rgb:E, 3rgb:I, 7s4h:A, 7s4h:E, 7s4h:I, 7s4i:A, 7s4i:E, 7s4i:I, 7s4j:A, 7s4j:E, 7s4j:I, 7s4k:A, 7s4k:E, 7s4k:I, 8sqw:A, 8sqw:E, 8sqw:I, 8sr1:A, 8sr1:E, 8sr1:I, 8sr2:A, 8sr2:E, 8sr2:I, 8sr4:A, 8sr4:E, 8sr4:I, 8sr5:A, 8sr5:E, 8sr5:I, 7t4o:A, 7t4o:E, 7t4o:I, 7t4p:A, 7t4p:E, 7t4p:I, 1yew:A, 1yew:E, 1yew:I
16 3hbg:A 353 25 0.0358 0.0340 0.4800 6.1
17 3nyc:A 381 108 0.0896 0.0787 0.2778 6.4 3nye:A, 3nyf:A, 6p9d:A, 6pld:A, 7rdf:A, 3sm8:A
18 4v6w:CX 120 67 0.0627 0.1750 0.3134 6.9 6xu6:CX, 6xu7:CX, 6xu8:CX
19 1sox:A 463 25 0.0358 0.0259 0.4800 7.3 2a9a:A, 2a9a:B, 2a9b:A, 2a9c:A, 2a9c:B, 2a9d:A, 2a9d:B, 3hbp:A, 3hbq:A, 1sox:B
20 8a42:A 627 24 0.0328 0.0175 0.4583 7.7 8qm0:A, 8qm0:B, 8qm0:C, 8qm0:D
21 8wuw:H 529 36 0.0358 0.0227 0.3333 7.9 8wuw:A, 8wuw:B, 8wuw:I, 8wuw:C, 8wuw:J, 8wuw:D, 8wuw:K, 8wuw:E, 8wuw:L, 8wuw:F, 8wuw:M, 8wuw:G, 8wuw:N, 8wux:A, 8wux:H, 8wux:B, 8wux:I, 8wux:C, 8wux:J, 8wux:D, 8wux:K, 8wux:E, 8wux:L, 8wux:F, 8wux:M, 8wux:G, 8wux:N
22 8qlj:A 621 30 0.0388 0.0209 0.4333 8.6 8qlk:A, 8qlm:A, 8qlm:B, 8qlv:A
23 4gu7:A 310 39 0.0448 0.0484 0.3846 9.5 4gu7:B, 4gu7:C, 4gu7:D, 8pws:A, 8pws:B, 8pws:C, 8pws:D, 8pws:E, 8pws:F, 8pwy:A, 8pwy:B, 8pwy:C, 8pwy:D, 8pwy:E, 8pwy:F, 7qze:A, 7qze:B, 7qze:C, 7qze:D, 7qze:E, 7qze:F, 7qzf:A, 7qzf:B, 7qzf:C, 7qzf:D, 7qzf:E, 7qzf:F, 7qzg:A, 7qzg:B, 7qzg:C, 7qzg:D, 7qzg:E, 7qzg:F, 7qzh:A, 7qzh:B, 7qzh:C, 7qzh:D, 7qzh:E, 7qzh:F, 8rwy:A, 8rwy:B, 8rwy:C, 8rwy:D, 8rwy:E, 8rwy:F, 6yr4:A, 6yr4:B, 6yr4:C, 6yr4:D, 6yr4:E, 6yr4:F, 6yrc:A, 6yrc:B, 6yrc:C, 6yrc:D, 6yrc:E, 6yrc:F, 6yrd:A, 6yrd:B, 6yrd:C, 6yrd:D, 6yrd:E, 6yrd:F, 6yrj:A, 6yrj:B, 6yrj:C, 6yrj:D, 6yrj:E, 6yrj:F, 7zmj:A, 7zmj:B, 7zmj:C, 7zmj:D, 7zmj:E, 7zmj:F

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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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