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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
DALILTGKPLSLEDVYSVAYNNRQVKISDDAEERVKKARQILFDMAAEGKPVYGLNRGVGWNKDKEFDEDFFATYNRNLL
NSHCLGVKPYHPDEQVRAILLLRLNKALTGHTGISAELLHHYRDFLNYGIHPRIPMRSSIGEGDITTLSHIGLAFIGEED
VSFNGEIMNSKKAMEKAGLKPAKLGPKDGLSIVSCNAQGEAMTAIVLKEIEDLVYMSNLIFCLSLEGLNGVVQSLREDVN
AVRGIKGQIKAAEMCREFLKGSFLYDPDPERALQDPLSFRCAHSVNGTMYDAMDYVREQLLTTMNTTDDNPCIIIDEHSS
FVSANFEITSLAIGVEMLATALSHLSKTSCYRMIKLADPSFTKLNRFLTPQDVKTIAFGTIQKTFTMLDTQNRGLANPSS
MDFYSLAGTIEDHASNLPLACYKIFQMLDNIRYIIGIEAMHAAQAIDLRGNKKLGEGTKKAYSLIREVLPFYNEDRNISR
DIETMYEFIKSKKLLNI

The query sequence (length=497) 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 6s7q:A 497 497 1.0000 1.0000 1.0000 0.0 6s7q:D, 6s7q:B, 6s7q:C, 6s7q:E, 6s7q:H, 6s7q:F, 6s7q:G
2 1gkm:A 507 500 0.2736 0.2682 0.2720 1.17e-57
3 3unv:A 514 509 0.2656 0.2568 0.2593 3.63e-52 3unv:B
4 3kdz:A 527 512 0.2636 0.2486 0.2559 3.76e-45 3kdz:B, 2qve:A, 2qve:B, 2rjr:A, 2rjs:A, 2rjs:B
5 5ltm:B 537 501 0.2555 0.2365 0.2535 1.68e-34 5ltm:A
6 2o7d:A 515 508 0.2636 0.2544 0.2579 3.46e-33 2o7d:D, 2o7d:B, 2o7d:C, 2o7d:E, 2o7d:H, 2o7d:F, 2o7d:G, 2o7e:A, 2o7e:D, 2o7e:B, 2o7e:C, 2o7e:E, 2o7e:H, 2o7e:F, 2o7e:G
7 9eq5:A 511 493 0.2414 0.2348 0.2434 4.33e-25 9eq5:D, 9eq5:B, 9eq5:C
8 6f6t:B 677 356 0.1811 0.1329 0.2528 2.26e-24 6f6t:A, 6hqf:A, 6hqf:B
9 6rgs:B 626 261 0.1368 0.1086 0.2605 2.10e-20
10 4c5s:C 642 458 0.2012 0.1558 0.2183 3.66e-20 4c5r:A, 4c5r:B, 4c5r:C, 4c5r:D, 4c5s:A, 4c5s:B, 4c5s:D
11 2q42:A 254 66 0.0483 0.0945 0.3636 0.95 2q42:B, 1xm8:A, 1xm8:B
12 6skf:Ap 135 39 0.0322 0.1185 0.4103 3.4 6skg:Ap, 6th6:Ap
13 6n8n:W 377 46 0.0322 0.0424 0.3478 5.3 6n8o:W
14 6qtz:o 325 46 0.0322 0.0492 0.3478 6.5 6qik:o, 6ri5:o, 6rzz:o, 6s05:o
15 5jb3:O 148 40 0.0322 0.1081 0.4000 9.4 5jbh:O, 6sw9:O, 6swc:O, 6swe:O, 4v4n:BO, 4v6u:AO, 7zag:O, 7zah:O, 7zai:O, 7zhg:O

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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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