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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
SKGCFVYKNGATRSLLGKEVVQQPFYEEYRKAWNQINDHIADLQHRSYARTLEQLVDFVVGQAEREVLPTAALLTGINQP
DHLSQFTALTQRLHAQRAAMVCVLQSRDCATLKAAVETLVFGLVEDNAEVERLRRSQCTMKQLKSWYTNNFDSERRQLVV
ILPDFECFNASVLQDLILILSAHCGSLPFVLVLGVATAMTAVHGTLPYHVSSKIRLRVFQTQAAPTGLNEVLDKVLLSPK
YAFHLSGKTFKFLTHIFLYYDFSIHGFIQGFKYCLMEHFFGGNAFALCTDYSKALGRIKQLTHEDMETIRRLPSFRPYVE
QIIIAVLTDDDYLKKKLPQLLRDCLLHFLLFRCSLEFLTELVGDLPRCPLGKLRRELYVNCLNRAIISTPEYKECLQMLS
FLSKDEFVAKVNRALERTEQFLVEEIAPLELGEACTAVLRPKLEAIRLAVDEVVKGRALQKTLQLIETQIVQDHLRALQD
APPIHELFVFSDIATVRRNIIGAPRAALHTALNNPHFYMQCKCCETLPDLSVVYKLHLECGRMINLFDWLQAFRSVVPQI
QARFTRAVAELQFLGYIKMSKRKTDHATRL

The query sequence (length=590) 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 7jgs:C 614 605 1.0000 0.9609 0.9752 0.0 7jgr:C, 7jk2:C, 7jk3:C, 7jk4:C, 7jk5:C, 7jk6:C
2 4xgc:C 567 576 0.9407 0.9788 0.9635 0.0
3 6eom:A 524 137 0.0559 0.0630 0.2409 0.71
4 6ut3:B 365 61 0.0339 0.0548 0.3279 4.1
5 5ere:A 540 38 0.0271 0.0296 0.4211 4.5
6 5kh0:A 363 103 0.0458 0.0744 0.2621 5.3 5kh0:B, 5kh0:C, 5kh0:D
7 7mca:C 584 32 0.0203 0.0205 0.3750 5.7 6rqc:C, 6wgi:C, 5zr1:C
8 7tjf:C 554 32 0.0203 0.0217 0.3750 6.0 7tjh:C, 7tji:C, 7tjj:C, 7tjk:C
9 5vvx:C 431 97 0.0458 0.0626 0.2784 6.3 5un8:A, 5un8:C, 5un8:B, 5un8:D, 5un9:A, 5un9:B, 5vvt:A, 5vvt:C, 5vvu:A, 5vvu:C, 5vvv:A, 5vvv:C
10 7vml:A 4044 115 0.0542 0.0079 0.2783 7.5 7aih:UA, 7am2:UA, 7ane:UA, 5dat:l1, 5gak:r, 6hd7:r, 6j3z:19, 6j40:19, 6j40:39, 5mc6:AZ, 6n8k:s, 6n8l:s, 6n8m:S, 6n8n:S, 6n8o:S, 7nrc:Lt, 6o1o:F, 6o1o:G, 6o1o:H, 6qik:p, 6qtz:p, 6ri5:p, 7rr5:L1, 6rzz:p, 6s05:p, 5t62:S, 5t6r:S, 6tnu:BT, 7vml:B, 7vml:C, 7vml:D, 7vmm:A, 7vmm:B, 7vmm:C, 7vmm:D, 7vmn:A, 7vmn:B, 7vmn:C, 7vmn:D, 7vmo:A, 7vmo:B, 7vmo:C, 7vmo:D, 7vmp:A, 7vmp:B, 7vmp:C, 7vmp:D, 7vmq:A, 7vmq:B, 7vmq:C, 7vmq:D, 7vmr:A, 7vmr:B, 7vmr:C, 7vmr:D, 7vms:A, 7vms:B, 7vms:C, 7vms:D
11 2a6o:A 152 57 0.0254 0.0987 0.2632 9.9 2a6o:B, 6fi8:A, 6fi8:B, 6fi8:G, 6fi8:H, 2vhg:A, 2vhg:B, 2vic:A, 2vic:B, 2vih:A, 2vih:B, 2vju:A, 2vju:B, 2vjv:A, 2vjv:B

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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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