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BioLiP
Download all results in tab-seperated text for 9 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 2g97:A (2.9) BS01 DGB 2.4.2.12 GO:0000166 ... Q80Z29 16901503 PDBbind: -logKd/Ki=6.82, Kd=152nM
    2 2g97:B (2.9) BS01 DGB 2.4.2.12 GO:0000166 ... Q80Z29 16901503 PDBbind: -logKd/Ki=6.82, Kd=152nM
    3 2gvj:A (2.1) BS01 DGB 2.4.2.12 GO:0005125 ... P43490 16783377 MOAD: Ki=0.3nM
    PDBbind: -logKd/Ki=9.52, Ki=0.3nM
    BindingDB: IC50=3.0nM, Ki=0.30nM
    4 2gvj:B (2.1) BS01 DGB 2.4.2.12 GO:0005125 ... P43490 16783377 MOAD: Ki=0.3nM
    PDBbind: -logKd/Ki=9.52, Ki=0.3nM
    BindingDB: IC50=3.0nM, Ki=0.30nM
    5 4o1b:A (1.65) BS01 DGB 2.4.2.12 GO:0005125 ... P43490 25285661 MOAD: ic50=0.385uM
    PDBbind: -logKd/Ki=6.41, IC50=0.385uM
    BindingDB: IC50=3.0nM, Ki=0.30nM
    6 4o1b:A (1.65) BS04 DGB 2.4.2.12 GO:0005125 ... P43490 25285661 MOAD: ic50=0.385uM
    PDBbind: -logKd/Ki=6.41, IC50=0.385uM
    BindingDB: IC50=3.0nM, Ki=0.30nM
    7 4o1b:B (1.65) BS01 DGB 2.4.2.12 GO:0005125 ... P43490 25285661 MOAD: ic50=0.385uM
    PDBbind: -logKd/Ki=6.41, IC50=0.385uM
    BindingDB: IC50=3.0nM, Ki=0.30nM
    8 4o1d:A (1.705) BS01 DGB 2.4.2.12 GO:0005125 ... P43490 25285661 MOAD: ic50=0.024uM
    PDBbind: -logKd/Ki=7.62, IC50=24nM
    BindingDB: IC50=3.0nM, Ki=0.30nM
    9 4o1d:B (1.705) BS01 DGB 2.4.2.12 GO:0005125 ... P43490 25285661 MOAD: ic50=0.024uM
    PDBbind: -logKd/Ki=7.62, IC50=24nM
    BindingDB: IC50=3.0nM, Ki=0.30nM
    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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