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BioLiP
Download all results in tab-seperated text for 11 receptor-ligand interactions, whose format is explained at readme.txt.
  • Hover over PDB to view the title of the structure. Click PDB to view the structure at the RCSB PDB database. Resolution -1.00 means the resolution is unavailable, e.g., for NMR structures.
  • Click Site # to view the binding site structure. Hover over Site # to view the binding residues.
  • Hover over Ligand to view the full ligand name. Click Ligand to view the 2D diagram and other detail information of the ligand.
  • Hover over EC number to view the full name of enzymatic activity.
  • Hover over GO terms to view all GO terms.
  • Hover over UniProt to view the protein name.

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    # PDB
    (Resolution Å)     		Site # Ligand EC number GO terms UniProt PubMed Binding
    affinity
    1 1vbm:A (2.7) BS01 YSA 6.1.1.1 GO:0000166 ... P0AGJ9 15663931 BindingDB: Ki=2.9nM
    2 1vbm:B (2.7) BS01 YSA 6.1.1.1 GO:0000166 ... P0AGJ9 15663931 BindingDB: Ki=2.9nM
    3 1vbn:A (2.7) BS01 YSA 6.1.1.1 GO:0000166 ... P0AGJ9 15671170 BindingDB: Ki=2.9nM
    4 1vbn:B (2.7) BS01 YSA 6.1.1.1 GO:0000166 ... P0AGJ9 15671170 BindingDB: Ki=2.9nM
    5 2aly:A (2.6) BS01 YSA 6.1.1.20 GO:0000049 ... P27001 16338408
    6 2pid:A (2.2) BS01 YSA 6.1.1.1 GO:0000166 ... Q9Y2Z4 17997975
    7 2pid:B (2.2) BS01 YSA 6.1.1.1 GO:0000166 ... Q9Y2Z4 17997975
    8 5usf:A (2.75) BS01 YSA 6.1.1.1 GO:0000166 ... A0A3Q8ID88 28427904 PDBbind: -logKd/Ki=9.16, IC50=0.69nM
    9 5usf:B (2.75) BS01 YSA 6.1.1.1 GO:0000166 ... A0A3Q8ID88 28427904
    10 6i5y:A (1.9) BS01 YSA 6.1.1.1 GO:0000166 ... P0AGJ9 30995568 PDBbind: -logKd/Ki=8.54, Ki=2.9nM
    BindingDB: Ki=2.9nM
    11 6i5y:B (1.9) BS01 YSA 6.1.1.1 GO:0000166 ... P0AGJ9 30995568 BindingDB: Ki=2.9nM
    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)(download the PDF file).
  • 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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