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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
GDSIEDKNARVIELIAAYRNRGHLMADIDPLRLDLDVNSHGLTLWDLDREFKVDVQRKKLRDILSVLRDAYCRHVGVEYT
HILEPEQQRWIQERVETKHDKPTVAEQKYILSKLNAAEAFETFLQTKYVGQKRFSLEGAETVIPMMDAVIDQCAEHGLDE
VVIAMPHRGRLNVLANIVGKPYSQIFSEFEGNLNPSQAHGSGDVKYHLGATGTYIQMFGDNDIEVSLTANPSHLEAVDPV
LEGLVRAKQDLLDTGEEGSDNRFSVVPLMLHGDAAFAGQGVVAETLNLALLRGYRTGGTIHIVVNNQIGFTTAPTDSRSS
EYCTDVAKMIGAPIFHVNGDDPEACAWVARLAVDFRQAFKKDVVIDMLCYRRRGHNEGDDPSMTQPYMYDVIDTKRGSRK
AYTEALIGRGDISMKEAEDALRDYQGQLERVFNEVRELEKHEIEPSESVEADQQIPSKLATAVDKAMLQRIGDAHLALPE
GFTVHPRVRPVLEKRREMAYEGRIDWAFAELLALGSLIAEGKLVRLSGQDTQRGTFTQRHAVIVDRKTGEEFTPLQLLAT
NPDGTPTGGKFLVYNSALSEFAAVGFEYGYSVGNPDAMVLWEAQFGDFVNGAQSIIDEFISSGEAKWGQLSDVVLLLPHG
HEGQGPDHTSGRIERFLQLWAEGSMTIAMPSTPANYFHLLRRHGKDGIQRPLIVFTPKSMLRNKAAVSDIRDFTESKFRS
VLEEPMYTDGEGDRNKVTRLLLTSGKIYYELAARKAKENREDVAIVRIEQLAPLPRRRLAETLDRYPNVKEKFWVQEEPA
NQGAWPSFGLTLPEILPDHFTGLKRISRRAMSAPSSGSSKVHAVEQQEILDTAFG

The query sequence (length=855) 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 2y0p:C 856 856 0.9918 0.9907 0.9907 0.0 6r29:A, 6r29:B, 6r2a:A, 6r2a:B, 6r2b:B, 6r2b:C, 2y0p:A, 2y0p:B
2 8p5r:C 1109 867 0.9754 0.7520 0.9619 0.0 6i2q:A, 6i2r:A, 6i2r:C, 6i2s:A, 8p5r:A, 8p5r:B, 8p5r:D, 8p5r:E, 8p5r:F, 6r2b:A, 6r2b:D, 6r2c:A, 6r2c:B, 6r2c:C, 6r2c:D, 6r2d:A, 6r2d:B, 6r2d:C, 6r2d:D, 2xt6:A, 2xt6:B, 2xta:A, 2xta:B, 2xta:C, 2xta:D, 2y0p:D, 2yic:A, 2yic:B, 2yic:C, 2yic:D, 2yid:A, 2yid:B, 2yid:C, 2yid:D, 3zhq:A, 3zhq:B, 3zhq:C, 3zhq:D, 3zhr:A, 3zhr:B, 3zhr:C, 3zhr:D, 3zhs:A, 3zhs:B, 3zhs:C, 3zhs:D, 3zht:A, 3zht:B, 3zht:C, 3zht:D, 3zhu:A, 3zhu:B, 3zhu:C, 3zhu:D, 3zhv:A, 3zhv:B, 3zhv:C, 3zhv:D
3 8p5v:A 1121 865 0.6082 0.4639 0.6012 0.0 8p5t:A, 8p5t:B, 8p5t:C, 8p5t:D, 8p5t:E, 8p5t:F, 8p5u:A, 8p5u:B, 8p5u:C, 8p5u:D, 8p5u:E, 8p5u:F, 8p5v:B, 8p5v:E, 8p5v:D, 8p5v:C, 8p5v:F, 8p5w:A, 8p5w:B, 8p5w:C, 8p5w:D, 8p5w:E, 8p5w:F
4 8p5s:A 1087 865 0.5953 0.4683 0.5884 0.0 8p5x:A, 8p5x:B, 8p5x:C, 8p5x:D, 8p5x:E, 8p5x:F
5 6km9:B 845 865 0.4398 0.4450 0.4347 0.0 6km9:A, 6kma:A, 6kma:B, 6kma:C, 6kma:D
6 6vef:A 844 867 0.4480 0.4538 0.4418 0.0 6vef:B
7 2jgd:A 812 860 0.4327 0.4557 0.4302 0.0 2jgd:B
8 8i0k:A 875 906 0.4421 0.4320 0.4172 0.0 8i0k:B, 7wgr:A, 7wgr:B
9 6u3j:A 876 887 0.3836 0.3744 0.3698 0.0 5rvw:A, 5rvw:B, 5rvx:A, 5rvx:B, 5rvy:A, 5rvy:B, 5rvz:A, 5rvz:B, 5rw0:A, 5rw0:B, 5rw1:A, 5rw1:B, 6sy1:A, 6sy1:B, 6u3j:B
10 3duf:A 365 240 0.0655 0.1534 0.2333 0.002 3duf:C, 3duf:E, 3duf:G, 3dv0:A, 3dv0:C, 3dv0:G, 3dva:A, 3dva:C, 3dva:E, 3dva:G, 1w85:A, 1w85:C, 1w85:E, 1w85:G
11 3exe:A 363 115 0.0409 0.0964 0.3043 0.033 6cfo:A, 6cfo:C, 3exe:C, 3exe:E, 3exe:G, 3exf:A, 3exf:C, 3exf:E, 3exf:G, 3exh:A, 3exh:C, 3exh:G, 1ni4:C, 1ni4:A, 2ozl:A, 2ozl:C
12 2j9f:D 329 140 0.0468 0.1216 0.2857 0.036 1dtw:B, 2j9f:B
13 1umb:A 362 176 0.0491 0.1160 0.2386 0.059 1umb:C, 1umc:A, 1umc:C, 1umd:A, 1umd:C
14 3dv0:E 344 228 0.0596 0.1483 0.2237 0.28 1w88:A, 1w88:C, 1w88:E, 1w88:G
15 1qs0:A 407 118 0.0398 0.0835 0.2881 0.44
16 2wbt:A 125 44 0.0175 0.1200 0.3409 2.9 2wbt:B
17 7k1r:A 536 83 0.0281 0.0448 0.2892 3.1 7k1r:B, 7k1r:C, 7k1r:D, 8uws:C, 8uws:D, 8uws:A, 8uws:B
18 3jd5:m 118 37 0.0175 0.1271 0.4054 3.1 5aj3:m, 5aj4:Am, 6gaw:Am, 6gaz:Am, 6neq:m, 6nf8:m, 7nqh:Am, 7nql:Am, 7nsi:Am, 7nsj:Am, 8oin:Ac, 8oip:Ac, 6ydp:Am, 6ydw:Am
19 7tom:A 498 54 0.0175 0.0301 0.2778 3.4 7tol:A
20 6uak:A 297 60 0.0199 0.0572 0.2833 7.0
21 6pwy:B 513 248 0.0620 0.1033 0.2137 8.9 6pwy:A, 6pwy:D, 6pwy:C

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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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