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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
PDGQYLLKPCLSHRERDFYLHIKDDKEWTGTGIIPKFYGVELHEFGFGELEFIRMENLMYKYKRPFVLDLKIGTQTWDPE
TASSKMKKRLVVDSTSTTTSLGVRFSGMERNIGEEKPILYSRYLCTHEVNTRDSLKEYIKLFFNDGKKYRKELVPYFISQ
LDKMIEVMKKREYKMFSSSVLFVYDSTTTLEDKKYNCKMIDFAHNWILSEEECTVEDGFLFGLNNLKSILEDIENEFKSL

The query sequence (length=240) 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 4o4e:A 246 240 1.0000 0.9756 1.0000 3.34e-180 4o4d:A, 4o4f:A, 8omi:A
2 5w2i:A 239 245 0.2625 0.2636 0.2571 8.34e-21 6m88:A, 6m89:A, 6m8a:A, 6m8b:A, 6m8c:A, 6m8d:A, 6m8e:A, 5w2h:A
3 8ppg:B 243 221 0.2375 0.2346 0.2579 1.36e-13
4 2iew:A 258 241 0.2667 0.2481 0.2656 1.77e-12 2if8:A
5 8ppb:A 276 255 0.2458 0.2138 0.2314 6.99e-10 8pp8:A, 8pp8:B, 8pp9:A, 8pp9:B, 8ppa:A, 8ppa:B, 8ppb:B, 8ppc:A, 8ppc:B, 8ppd:A, 8ppd:B, 8ppe:A, 8ppe:B, 8ppf:A, 8ppf:B, 8ppg:A, 8pph:A, 8pph:B, 8ppi:A, 8ppi:B, 8ppj:A, 8ppj:B, 1tzd:A, 1tzd:B, 1w2c:A, 1w2c:B, 1w2d:A, 1w2d:B
6 2a98:A 259 250 0.2208 0.2046 0.2120 3.28e-07
7 2aqx:A 289 253 0.2375 0.1972 0.2253 5.84e-05 2aqx:B
8 8t8z:A 217 49 0.0625 0.0691 0.3061 0.73 8t8u:A, 8t8v:A, 8t8w:A, 8t8x:A, 8t8y:A, 8t90:A, 8t91:A, 8t92:A, 8t93:A, 8t95:A, 8t96:A, 8t97:A
9 5yvg:B 764 45 0.0667 0.0209 0.3556 1.4
10 2ej0:B 305 41 0.0625 0.0492 0.3659 1.9 2eiy:A, 2eiy:B, 2eiy:C, 2ej0:A, 2ej0:C, 2ej0:D, 2ej0:E, 2ej0:F, 2ej2:A, 2ej2:B, 2ej2:C, 2ej2:D, 2ej2:E, 2ej2:F, 2ej3:A, 2ej3:B, 2ej3:C, 1wrv:A, 1wrv:B, 1wrv:C
11 8sgh:A 844 41 0.0625 0.0178 0.3659 3.4 7cyl:A, 4fdd:A, 4fq3:A, 2h4m:A, 5j3v:A, 5j3v:B, 4jlq:A, 4oo6:A, 2ot8:A, 5tqc:A, 7vpw:A, 5yvi:A, 2z5k:A, 2z5m:A, 2z5n:A, 2z5o:A
12 5yvg:A 830 41 0.0625 0.0181 0.3659 3.5 2h4m:B, 2ot8:B, 5yvh:A
13 6wmp:D 1159 37 0.0500 0.0104 0.3243 3.7 6wmr:D, 6wmt:D
14 8iwh:6 168 94 0.0958 0.1369 0.2447 4.2 8j0d:6
15 3al0:C 564 66 0.0833 0.0355 0.3030 5.0 3afh:A, 3akz:B, 3akz:D, 3akz:C, 3akz:A
16 2glu:A 234 123 0.1000 0.1026 0.1951 5.9 2glu:B
17 7bjv:D 240 45 0.0750 0.0750 0.4000 6.4 7bju:D, 7bjv:E, 7bjv:F, 3ixp:D, 1r1k:D, 1r20:D, 2r40:D, 4umm:G
18 3urm:A 329 20 0.0417 0.0304 0.5000 8.6 3urm:B, 3uug:A, 3uug: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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