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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 6e3r:A
    (2.26)
    BS02 >6e3r:P (identical to 6bel:P, 6bem:P, 6cly:P, 6cpq:P, 6crh:P, 6ctq:P, 6ctr:P, 6ctt:P, 6ctu:P, 6ctv:P, 6ctw:P, 6ctx:P, 6cu9:P, 6cua:P, 6cub:P, 5db6:P, 5db7:P, 5db8:P, 5db9:P, 5dba:P, 5dbb:P, 5dbc:P, 6e3v:P, 6e3w:P, 6e3x:P, 5eoz:P, 4f5o:P, 4gxi:P, 4gxj:P, 4gxk:P, 5j0o:P, 5j0r:P, 5j0t:P, 5j29:P, 5j2c:P, 5j2f:P, 4m2y:P, 4m47:P, 4mf2:P, 4mfc:P, 4mff:P, 1mq2:P, 7mz0:P, 7mz1:P, 7mz3:P, 7mz4:P, 4nlk:P, 4nxz:P, 4ny8:P, 4o5c:P, 4o5e:P, 4o5k:P, 4p2h:P, 4pgq:P, 4pgx:P, 4pha:P, 4phd:P, 6pkz:P, 3rje:P, 3rjf:P, 3rjg:P, 3rjh:P, 3rji:P, 7s9n:P, 7s9o:P, 7s9p:P, 7s9q:P, 8vf9:P, 8vfb:P, 8vfd:P, 4ymm:P, 4ymn:P, 4ymo:P, 4yn4:P, 4z6c:P, 4z6d:P, 4z6e:P, 4z6f:P, 1zjm:P, 1zjn:P)
    gctgatgcga
    2.7.7.7
    4.2.99.-
    4.2.99.18
    GO:0001701 ... P06746 30817143

    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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