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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
GYQFLNRDIFKSCPRIMERQFGECLHNRTHLIKDLISSGNVGLGPIEIVHMSYLNKHEKEEFGEYFYVTGIEVSGPAMPV
EFLEVLKSSKRISKNISNNIILTYCCFNFFSNLDIRIRYDADDTFQTTAIDCNKETTDLTMTEKMWEETFASSVIRAIIT
NTNPELKPPGLVECPFYVGKDTISSCKKIIELLCRFLPRSLNCGWDSTKSMQATIVNNYLMYSLKSFIAITPSLVDFTID
YLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARLMNCMSDLLNIQTNFLLNR
GDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMPRRFLTSNYYKKPLNGTREHYDLTAMEFTNLSG
TLRNWKEDELKRQIFGRIAMINEKKIGYTKEIWDDIAIKLGPICGPQSVNLINYVSPQEVKNIKNINLIARNTIGKQLGW
FSGKIYGLLMEIVNKIGWNGLLNIRTEAFMMCEGWLDDLFLDLYQDLKLSKISLSNKDEKHSGLEWELLGLIMLRTWHWE
DAVACLRTSIVARFDPVSCQQLLKIYLQPPKNIQEVTLLDTDTIISLLIKKISYDCRYYNYCQIFNLQLLEKLCNELGTH
ILRNKILLQPSIGDEIMVMIDAMLAWIADLDHT

The query sequence (length=673) 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 4wjw:B 673 673 1.0000 1.0000 1.0000 0.0
2 3kd7:A 102 47 0.0223 0.1471 0.3191 0.027 3kd7:B, 3kd7:C, 3kd7:D, 3kd7:E
3 3kd7:A 102 47 0.0193 0.1275 0.2766 1.1 3kd7:B, 3kd7:C, 3kd7:D, 3kd7:E
4 1na0:B 119 47 0.0223 0.1261 0.3191 0.041 1na3:A, 1na3:B
5 1na0:B 119 47 0.0223 0.1261 0.3191 0.041 1na3:A, 1na3:B
6 8chy:A 272 47 0.0238 0.0588 0.3404 0.23 8bu0:A, 8cig:A, 8ckr:A, 8cqp:C, 8cqq:A
7 8chy:A 272 47 0.0238 0.0588 0.3404 0.23 8bu0:A, 8cig:A, 8ckr:A, 8cqp:C, 8cqq:A
8 8chy:A 272 47 0.0238 0.0588 0.3404 0.23 8bu0:A, 8cig:A, 8ckr:A, 8cqp:C, 8cqq:A
9 8chy:A 272 47 0.0238 0.0588 0.3404 0.23 8bu0:A, 8cig:A, 8ckr:A, 8cqp:C, 8cqq:A
10 8chy:A 272 47 0.0238 0.0588 0.3404 0.23 8bu0:A, 8cig:A, 8ckr:A, 8cqp:C, 8cqq:A
11 8chy:A 272 47 0.0238 0.0588 0.3404 0.23 8bu0:A, 8cig:A, 8ckr:A, 8cqp:C, 8cqq:A
12 8chy:A 272 47 0.0238 0.0588 0.3404 0.23 8bu0:A, 8cig:A, 8ckr:A, 8cqp:C, 8cqq:A
13 8qvz:C 155 65 0.0282 0.1226 0.2923 3.3 8qvz:A, 8qvz:B, 8qvz:D, 8qvz:E, 8qvz:F, 8qw0:A, 8qw0:B, 8qw0:C, 8qw0:D, 8qw0:E, 8qw0:F, 8qw0:G, 8qw0:H, 8qw0:I, 8qw0:J, 8qw0:K, 8qw0:L, 8qw1:A, 8qw1:B, 8qw1:C, 8qw1:D, 8qw1:E, 8qw1:F, 8qw2:A, 8qw2:B, 8qw2:C, 8qw2:D, 8qw2:E, 8qw2:F, 8qw3:A, 8qw3:B, 8qw3:C, 8qw3:D, 8qw3:E, 8qw3:F, 1zs6:A, 1zs6:B, 1zs6:D
14 3pt6:B 915 92 0.0327 0.0240 0.2391 5.9 4da4:A, 3pt6:A, 6w8v:A
15 7aoe:B 1174 31 0.0223 0.0128 0.4839 7.5 7aoc:B, 7aod:B, 7aod:N
16 9bht:A 220 98 0.0446 0.1364 0.3061 8.1 9bht:F
17 4ufc:B 788 29 0.0208 0.0178 0.4828 8.7 4ufc:A

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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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