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BioLiP
Download all results in tab-seperated text for 3 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 3k9f:B
    (2.9)    		 BS02 >3k9f:H (identical to 8c41:H, 4juo:H, 4koe:H, 4kpe:H, 4kpf:H, 3ksa:H, 3ltn:H, 3rad:H, 3rae:H, 3raf:H, 4z3o:H, 4z53:H)
    gactatgcacg
    		 5.6.2.2 GO:0003677 ... P72525 20596531
    2 3k9f:C
    (2.9)    		 BS03 >3k9f:H (identical to 8c41:H, 4juo:H, 4koe:H, 4kpe:H, 4kpf:H, 3ksa:H, 3ltn:H, 3rad:H, 3rae:H, 3raf:H, 4z3o:H, 4z53:H)
    gactatgcacg
    		 5.6.2.2 GO:0003677 ... Q59961 20596531
    3 3k9f:D
    (2.9)    		 BS03 >3k9f:H (identical to 8c41:H, 4juo:H, 4koe:H, 4kpe:H, 4kpf:H, 3ksa:H, 3ltn:H, 3rad:H, 3rae:H, 3raf:H, 4z3o:H, 4z53:H)
    gactatgcacg
    		 5.6.2.2 GO:0003677 ... Q59961 20596531
    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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