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BioLiP
Download all results in tab-seperated text for 1 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.
  • The sequence is converted from residues with experimentally determined coordinates in the structure; residues not observed in the 3D structure are excluded.
  • 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)     		Site
    #     		DNA
    sequence         		EC
    number     		GO
    terms     		UniProt PubMed Binding
    affinity
    1 5vc9:F
    (2.1)    		 BS01 >5vc9:D (identical to 6asb:A, 6asb:B, 6asb:D, 6asb:E, 6asb:G, 6asb:H, 6asb:J, 6asb:K, 6cc8:C, 6cc8:D, 6cc8:E, 6cc8:F, 6cnq:D, 6cnq:C, 6cnq:E, 6cnq:F, 6d1t:B, 6d1t:C, 7fef:E, 7fef:F, 4hp3:A, 4hp3:B, 5j3e:C, 5j3e:D, 5j3e:E, 4lg7:B, 4lg7:C, 7mwk:C, 7mwk:D, 7mwk:E, 7mwk:F, 7mwl:E, 7mwm:C, 7mwm:D, 7mwm:E, 7mwm:F, 3qmi:B, 3qmi:C, 7ray:B, 7ray:C, 5vc9:A, 5vc9:E, 5w9q:C, 5w9q:D, 5w9q:E, 5w9q:F, 5w9s:A, 5w9s:B, 4z3c:A, 4z3c:B)
    gccaacgttggc
    		 ? GO:0003677 ... Q9H2H0 29276034 PDBbind: Kd=0.16uM
    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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