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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
RLNDTANVKDYGAIADGAYHPLSERFATLAEAQAVYPHATALTDSIDWAAYQAAINSGAPHVHAPGGHYVMNRGTLAERD
IRYTGDGYATRVDFSLADGPGSCMLTQGELVQIGDLSVSVVKGARTLTFAAAPDLAPGDVVIVYNPANGSWLADRDPYRA
GEMWKVHSVSGSTVTIYGNSSSVYLFSEVDVYRMRGVRVSVDQMHFSPSDTYAIAPFRVVFGDGVKVSNYYASDVTRYTG
LEVERCFDVSINAVSSPNRSPAVNDEYGITISNCHNFSVYGGYAAATRHAVALGGMDAVCCVPNRNGLIYGMHIEGIDID
SDIGAGDMHGNADKITYDNCEFRNGVILQGRDATVRNSTIYGVSSVSGEALYGTEVYGGTYTIENNRFISYGNGASFGII
HISPGTSQREALLIIARNNTFELPNATGSTKVLFLRGRNSPLPCSVNIDGMHVHMAPVAMQCFLFADDQVAATLNSNYLI
IDGVYGPSGTYLLYPTSKNAAIPTRQMHQSGAVNVTTTASATVAAPAQTIRYPYSKIPNVSVQVSSQSGGGQSAIGSITP
VAIAYNVQPNSIRPAIMAPSGSFAAGGSARLHWSASLDDI

The query sequence (length=600) 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 4ru5:C 602 600 1.0000 0.9967 1.0000 0.0 4ru5:A, 4ru5:B
2 4ru4:B 590 612 0.3350 0.3407 0.3284 1.75e-77 4ru4:A, 4ru4:C, 4ru4:D, 4ru4:E, 4ru4:F
3 4y9v:A 603 574 0.2600 0.2587 0.2718 4.99e-45
4 7rty:A 244 132 0.0550 0.1352 0.2500 0.28 7rty:B
5 8tjj:C 330 120 0.0500 0.0909 0.2500 3.6 8tjj:A, 8tjj:B, 8tjj:D, 8tjk:A, 8tjk:B
6 5z7d:B 397 101 0.0517 0.0781 0.3069 6.7 5z7d:A, 5z7d:C
7 3bal:A 149 77 0.0350 0.1409 0.2727 7.5 3bal:B, 3bal:C, 3bal:D

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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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