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BioLiP
Download all results in tab-seperated text for 36 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 5yi2:A (2.6) BS01 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    2 5yi2:A (2.6) BS02 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    3 5yi2:A (2.6) BS03 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    4 5yi2:A (2.6) BS04 ZN ? GO:0003677 ... Q9CDU5 29229866
    5 5yi2:A (2.6) BS05 ZN ? GO:0003677 ... Q9CDU5 29229866
    6 5yi2:B (2.6) BS01 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    7 5yi2:B (2.6) BS02 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    8 5yi2:B (2.6) BS03 ZN ? GO:0003677 ... Q9CDU5 29229866
    9 5yi2:B (2.6) BS04 ZN ? GO:0003677 ... Q9CDU5 29229866
    10 5yi2:E (2.6) BS01 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    11 5yi2:E (2.6) BS02 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    12 5yi2:E (2.6) BS03 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    13 5yi2:E (2.6) BS04 ZN ? GO:0003677 ... Q9CDU5 29229866
    14 5yi2:E (2.6) BS05 ZN ? GO:0003677 ... Q9CDU5 29229866
    15 5yi2:F (2.6) BS01 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    16 5yi2:F (2.6) BS02 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    17 5yi2:F (2.6) BS03 ZN ? GO:0003677 ... Q9CDU5 29229866
    18 5yi2:F (2.6) BS04 ZN ? GO:0003677 ... Q9CDU5 29229866
    19 5yi2:I (2.6) BS01 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    20 5yi2:I (2.6) BS02 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    21 5yi2:I (2.6) BS03 ZN ? GO:0003677 ... Q9CDU5 29229866
    22 5yi2:I (2.6) BS04 ZN ? GO:0003677 ... Q9CDU5 29229866
    23 5yi2:J (2.6) BS01 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    24 5yi2:J (2.6) BS02 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    25 5yi2:J (2.6) BS03 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    26 5yi2:J (2.6) BS04 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    27 5yi2:J (2.6) BS05 ZN ? GO:0003677 ... Q9CDU5 29229866
    28 5yi2:J (2.6) BS06 ZN ? GO:0003677 ... Q9CDU5 29229866
    29 5yi2:M (2.6) BS01 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    30 5yi2:M (2.6) BS02 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    31 5yi2:M (2.6) BS03 ZN ? GO:0003677 ... Q9CDU5 29229866
    32 5yi2:M (2.6) BS04 ZN ? GO:0003677 ... Q9CDU5 29229866
    33 5yi2:N (2.6) BS01 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    34 5yi2:N (2.6) BS02 dna ? GO:0003677 ... Q9CDU5 29229866 PDBbind: Kd=72nM
    35 5yi2:N (2.6) BS03 ZN ? GO:0003677 ... Q9CDU5 29229866
    36 5yi2:N (2.6) BS04 ZN ? GO:0003677 ... Q9CDU5 29229866
    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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