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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
SPEFMSQYGFVRVPREVEKAIPVVNAPRPRAVVPPPNSETARLVREYAAKELTAPVLNHSLRVFQYSVAIIRDQFPAWDL
DQEVLYVTCLLHDIATTDKNMRATKMSFEYYGGILSRELVFNATGGNQDYADAVTEAIIRNQDLTGTGYITTLGLILQIA
TTLDNVGSNTDLIHIDTVSAINEQFPRLHWLSCFATVVDTENSRKPWGHTSSLGDDFSKKVICNTFGYT

The query sequence (length=229) 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 6dk9:F 232 229 0.9956 0.9828 0.9956 2.44e-173 6dk9:A, 6dk9:B, 6dk9:C, 6dk9:D, 6dk9:E, 6dk9:G, 6dk9:H, 6dk9:I, 6dka:A, 6dka:B, 6dka:C, 6dka:D, 6dka:E, 6dka:F, 6dka:G, 6dka:H, 6dka:I, 6dkc:A, 6dkc:B, 6dkc:C, 6dkc:D, 6dkc:E, 6dkc:F, 6dkc:G, 6dkc:H, 6dkc:I, 6dkd:A, 6dkd:B, 6dkd:C, 6dkd:D, 6dkd:E, 6dkd:F, 6dkd:G, 6dkd:H, 6dkd:I
2 1v9i:C 261 37 0.0611 0.0536 0.3784 0.89 5a25:A, 5a25:B, 4cnr:A, 4cnr:B, 4cnr:C, 4cnr:D, 4cnv:A, 4cnw:A, 4cnw:B, 4cnx:A, 5ezt:X, 6sks:A, 6skt:A, 6skv:A, 1v9e:A, 1v9e:B
3 4wzh:A 304 55 0.0655 0.0493 0.2727 2.1 4wzh:B
4 3w87:A 314 55 0.0655 0.0478 0.2727 2.2 3c3n:A, 3c3n:B, 3c3n:C, 3c3n:D, 2djl:A, 2djl:B, 2djx:A, 2djx:B, 2e68:A, 2e68:B, 2e6a:A, 2e6a:B, 2e6d:A, 2e6d:B, 2e6f:A, 2e6f:B, 5e93:A, 5e93:B, 5ea9:A, 5ea9:B, 4jd4:A, 4jd4:B, 4jdb:A, 4jdb:B, 3w1a:A, 3w1a:B, 3w1l:A, 3w1l:B, 3w1m:A, 3w1m:B, 3w1n:A, 3w1n:B, 3w1p:A, 3w1p:B, 3w1q:A, 3w1q:B, 3w1r:A, 3w1r:B, 3w1t:A, 3w1t:B, 3w1u:A, 3w1u:B, 3w1x:A, 3w1x:B, 3w22:A, 3w22:B, 3w23:A, 3w23:B, 3w2j:A, 3w2j:B, 3w2k:A, 3w2k:B, 3w2l:A, 3w2l:B, 3w2m:A, 3w2m:B, 3w2n:A, 3w2n:B, 3w2u:A, 3w2u:B, 3w3o:A, 3w3o:B, 3w6y:A, 3w6y:B, 3w70:A, 3w70:B, 3w71:A, 3w71:B, 3w72:A, 3w72:B, 3w73:A, 3w73:B, 3w74:A, 3w74:B, 3w75:A, 3w75:B, 3w76:A, 3w76:B, 3w7c:A, 3w7c:B, 3w7d:A, 3w7d:B, 3w7e:A, 3w7e:B, 3w7g:A, 3w7g:B, 3w7h:A, 3w7h:B, 3w7i:A, 3w7i:B, 3w7j:A, 3w7j:B, 3w7k:A, 3w7k:B, 3w7l:A, 3w7l:B, 3w7m:A, 3w7m:B, 3w7n:A, 3w7n:B, 3w7o:A, 3w7o:B, 3w7p:A, 3w7p:B, 3w7q:A, 3w7q:B, 3w83:A, 3w83:B, 3w84:A, 3w84:B, 3w85:A, 3w85:B, 3w86:A, 3w86:B, 3w87:B, 3w88:A, 3w88:B
5 7egv:A 590 52 0.0830 0.0322 0.3654 2.3 7egv:B, 7ehe:A, 7ehe:B
6 4pfb:A 308 43 0.0699 0.0519 0.3721 2.5
7 6pwy:B 513 93 0.1092 0.0487 0.2688 4.3 6pwy:A, 6pwy:D, 6pwy:C
8 4yis:A 295 64 0.0786 0.0610 0.2812 4.7 4yis:B
9 5dkv:A 303 66 0.0830 0.0627 0.2879 7.2 5dkv:B, 5dkv:C, 5dkv: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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