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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 7rfm:B
    (2.68)
    BS01 >7rfm:F (identical to 8cxs:D, 8cxs:F, 8cxs:H, 8cxt:D, 8cxt:F, 8cxt:H, 8cxu:D, 8cxu:F, 8cxu:H, 8cxv:D, 8cxv:F, 8cxv:H, 8cxw:D, 8cxw:F, 8cxw:H, 8cxx:D, 8cxx:F, 8cxx:H, 8cxy:D, 8cxy:F, 8cxy:H, 8cxz:D, 8cxz:F, 8cxz:H, 8cy0:D, 8cy0:F, 8cy0:H, 8cy1:D, 8cy1:F, 8cy1:H, 8cy2:D, 8cy2:F, 8cy2:H, 8cy3:D, 8cy3:F, 8cy3:H, 8cy4:D, 8cy4:F, 8cy4:H, 8cy5:D, 8cy5:F, 8cy5:H, 8fs1:D, 8fs1:F, 8fs1:H, 8fs2:D, 8fs2:F, 8fs2:H, 7lni:D, 7lni:F, 7lni:H, 7lnj:D, 7lnj:F, 7lnj:H, 7lt5:D, 7lt5:F, 7lt5:H, 7rfk:D, 7rfk:F, 7rfk:H, 7rfl:D, 7rfl:F, 7rfl:H, 7rfm:D, 7rfm:H, 7rfn:D, 7rfn:F, 7rfn:H, 8vpg:D, 8vpg:F, 8vpg:H, 8vph:D, 8vph:F, 8vph:H, 8vpi:D, 8vpi:F, 8vpi:H)
    ttcaaaaagtccca
    2.1.1.72 GO:0003676 ... Q183J3 34523387

    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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