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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
RNVQVLGIDAGGTMTDTFFVDQDGDFVVGKAQSTPQNEALGLIASSEDGLANWGMSLHEALAQLQTGVYSGTAMLNRVVQ
RKGLKCGLIVNRGMEDFHRMGRAVQSHLGYAYEDRIHLNTHRYDPPLVPRHLTRGVVERTDMMGTQVIPLREDTARDAAR
DLIAADAEGIVISLLHSYKNPVNERRVRDIVLEEVEKSGKKIPVFASADYYPVRKETHRTNTTILEGYAAEPSRQTLSKI
SNAFKERGTKFDFRVMATHGGTISWKAKELARTIVSGPIGGVIGAKYLGEVLGYKNIACSDIGGTSFDVALITQGEMTIK
NDPDMARLVLSLPLVAMDSVGAGAGSFIRLDPYTRAIKLGPDSAGYRVGVCWKESGIETVTISDCHMVLGYLNPDNFLGG
AVKLDRQRSVDAIKAQIADPLGLSVEDAAAGVIELLDSDLRDYLRSMISGKGYSPASFVCFSYGGAGPVHTYGYTEGLGF
EDVIVPAWAAGFSAFGCAAADFEYRYDKSLDINMPTETPDTDKEKAAATLQAAWEELTKNVLEEFKLNGYSADQVTLQPG
YRMQYRGQLNDLEIESPLAQAHTAADWDQLTDAFNATYGRVYAASARSPELGYSVTGAIMRGMVPIPKPKIPKEPEEGET
PPESAKIGTRKFYRKKRWVDAQLYHMESLRPGNRVMGPAVIESDATTFVVPDGFETWLDGHRLFHLREV

The query sequence (length=709) 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 5m45:B 709 709 1.0000 1.0000 1.0000 0.0 5m45:E, 5m45:H, 5m45:K, 5svb:B, 5svb:E
2 5l9w:b 649 698 0.2313 0.2527 0.2350 5.04e-42
3 2vz9:B 2086 133 0.0480 0.0163 0.2556 2.0 2vz9:A
4 5mdn:A 761 61 0.0282 0.0263 0.3279 2.2 5mdn:B
5 6unz:A 539 88 0.0310 0.0408 0.2500 3.6 5l2r:A, 5l2r:B, 6msn:A, 6msn:B, 6unz:B, 6unz:C, 6unz:D, 6unz:E, 6unz:F, 6unz:G, 6unz:H, 6uo0:A, 6uo0:B, 6uoi:A, 6uoi:B, 6uoj:A, 6uoj:B, 6up9:A, 6up9:B, 6upm:A, 6upm:B, 6upo:A, 6upo:B, 6uq8:A, 6uq8:B, 6uq9:A, 6uq9:B, 6uqb:A, 6uqb:B, 6uql:A, 6uql:B, 6uqm:A, 6uqm:B, 6uqn:A, 6uqn:B
6 4dq1:A 312 74 0.0296 0.0673 0.2838 3.7 4dq1:B
7 6p6j:A 571 180 0.0564 0.0701 0.2222 4.1 8vsi:A
8 2e2o:A 299 33 0.0197 0.0468 0.4242 4.1 2e2p:A, 2e2p:B, 2e2q:A, 2e2q:B
9 5zal:A 1314 88 0.0324 0.0175 0.2614 4.5 2eb1:A, 2eb1:B, 2eb1:C, 4ngd:A, 5zam:A
10 4wgk:B 672 51 0.0240 0.0253 0.3333 5.7 4wgk:A
11 6asy:A 606 40 0.0240 0.0281 0.4250 7.1 7a4v:A, 6asy:B, 6cz1:A, 6cz1:B, 6dfm:A, 6dfm:B, 6dfo:A, 6dfo:B, 6do2:A, 6do2:B, 6dws:A, 6dws:B, 5e84:A, 5e84:B, 5e84:C, 5e84:D, 5e84:E, 5e84:F, 6eoe:A, 6eof:A, 5evz:A, 5evz:B, 5ex5:A, 5ex5:B, 5exw:A, 5exw:B, 5ey4:A, 5ey4:B, 5f0x:A, 5f0x:B, 5f1x:A, 5f1x:B, 5f2r:A, 5f2r:B, 3iuc:A, 3iuc:C, 3ldl:A, 3ldl:B, 3ldo:A, 3ldo:B, 3ldp:A, 3ldp:B, 7n1r:A, 7n1r:B, 6zmd:A, 6zyh:A, 6zyh:B
12 7dut:A 220 42 0.0254 0.0818 0.4286 9.7 7dv3:A, 7dv3:B, 7dwr:A, 7dwr:D, 7dwr:B, 7dwr: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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