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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 8w2r:A
    (3.23)    		 BS02 >8w2r:F (identical to 9c9m:F, 9c9m:O, 8fn7:F, 8fn7:L, 8fnd:F, 8fnd:L, 8fng:F, 8fng:L, 8fnh:F, 8fnh:L, 8fnj:F, 8fnj:L, 8fnl:F, 8fnl:L, 8fnm:F, 8fnm:L, 8fnn:F, 8fnn:L, 8fno:F, 8fno:L, 8fnp:F, 8fnp:L, 8fnq:F, 8fnq:L, 6puw:F, 6puy:F, 6puz:F, 6v3k:F, 8w2r:O)
    cgggaaaatctctagca
    		 ? GO:0003676 ... P12497 38582148
    2 8w2r:I
    (3.23)    		 BS02 >8w2r:F (identical to 9c9m:F, 9c9m:O, 8fn7:F, 8fn7:L, 8fnd:F, 8fnd:L, 8fng:F, 8fng:L, 8fnh:F, 8fnh:L, 8fnj:F, 8fnj:L, 8fnl:F, 8fnl:L, 8fnm:F, 8fnm:L, 8fnn:F, 8fnn:L, 8fno:F, 8fno:L, 8fnp:F, 8fnp:L, 8fnq:F, 8fnq:L, 6puw:F, 6puy:F, 6puz:F, 6v3k:F, 8w2r:O)
    cgggaaaatctctagca
    		 ? GO:0003676 ... P12497 38582148
    3 8w2r:M
    (3.23)    		 BS01 >8w2r:F (identical to 9c9m:F, 9c9m:O, 8fn7:F, 8fn7:L, 8fnd:F, 8fnd:L, 8fng:F, 8fng:L, 8fnh:F, 8fnh:L, 8fnj:F, 8fnj:L, 8fnl:F, 8fnl:L, 8fnm:F, 8fnm:L, 8fnn:F, 8fnn:L, 8fno:F, 8fno:L, 8fnp:F, 8fnp:L, 8fnq:F, 8fnq:L, 6puw:F, 6puy:F, 6puz:F, 6v3k:F, 8w2r:O)
    cgggaaaatctctagca
    		 ? GO:0003676 ... P12497 38582148
    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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