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BioLiP
Download all results in tab-seperated text for 19 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 2f4j:A (1.91) BS01 VX6 2.7.10.2 GO:0004672 ... P00519 16424036 PDBbind: -logKd/Ki=5.66, IC50=2.2uM
    BindingDB: IC50=420nM, Kd=9.4nM, Ki=42nM
    2 2xyn:A (2.81) BS01 VX6 2.7.10.2 GO:0004672 ... P42684 21417343 PDBbind: -logKd/Ki=8.40, Kd=4nM
    BindingDB: Kd=4nM
    3 2xyn:B (2.81) BS01 VX6 2.7.10.2 GO:0004672 ... P42684 21417343 BindingDB: Kd=4nM
    4 2xyn:B (2.81) BS02 VX6 2.7.10.2 GO:0004672 ... P42684 21417343 BindingDB: Kd=4nM
    5 2xyn:B (2.81) BS03 VX6 2.7.10.2 GO:0004672 ... P42684 21417343 BindingDB: Kd=4nM
    6 2xyn:C (2.81) BS01 VX6 2.7.10.2 GO:0004672 ... P42684 21417343 BindingDB: Kd=4nM
    7 2xyn:C (2.81) BS02 VX6 2.7.10.2 GO:0004672 ... P42684 21417343 BindingDB: Kd=4nM
    8 2xyn:C (2.81) BS03 VX6 2.7.10.2 GO:0004672 ... P42684 21417343 BindingDB: Kd=4nM
    9 3amb:A (2.25) BS02 VX6 2.7.11.11 GO:0000287 ... P17612 21774789 MOAD: Ki=0.66uM
    PDBbind: -logKd/Ki=6.18, Ki=0.66uM
    BindingDB: Kd=>10000nM
    10 3e5a:A (2.3) BS01 VX6 2.7.11.1 GO:0000212 ... O14965 18662907 MOAD: Ki=5.9nM
    PDBbind: -logKd/Ki=8.23, Ki=5.9nM
    BindingDB: Ki=0.600000nM, IC50=20nM, Kd=4.1nM
    11 4af3:A (2.75) BS01 VX6 2.7.11.1 GO:0004672 ... Q96GD4 22920039 PDBbind: -logKd/Ki=7.51, IC50=31nM
    BindingDB: Ki=18nM, IC50=30nM, Kd=7.4nM
    12 4b8m:A (1.85) BS01 VX6 2.7.11.1 GO:0004672 ... Q6DE08 N/A BindingDB: IC50=19nM
    13 4b8m:B (1.85) BS01 VX6 2.7.11.1 GO:0004672 ... Q6DE08 N/A BindingDB: IC50=19nM
    14 4jbq:A (2.3) BS01 VX6 2.7.11.1 GO:0000212 ... O14965 23610398 BindingDB: Ki=0.600000nM, IC50=20nM, Kd=4.1nM
    15 4zog:A (2.3) BS01 VX6 2.7.10.2 GO:0004672 ... P00519 N/A BindingDB: IC50=420nM, Kd=9.4nM, Ki=42nM
    16 4zog:B (2.3) BS01 VX6 2.7.10.2 GO:0004672 ... P00519 N/A BindingDB: IC50=420nM, Kd=9.4nM, Ki=42nM
    17 5wnm:A (2.6) BS01 VX6 2.7.11.1 GO:0004672 ... Q9ERK0 29706531
    18 6brj:A (2.231) BS01 VX6 2.7.10.1 GO:0004672 ... Q08345 30612951 BindingDB: Kd=28nM
    19 6gr9:A (2.25) BS01 VX6 2.7.11.1 GO:0004672 ... Q9UQB9 N/A BindingDB: Ki=4.6nM, Kd=6.3nM, IC50=25nM
    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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