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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 8fn7:G
    (2.8)    		 BS02 >8fn7:K (identical to 9c9m:E, 9c9m:N, 8fn7:E, 8fnd:E, 8fnd:K, 8fng:E, 8fng:K, 8fnh:E, 8fnh:K, 8fnj:E, 8fnj:K, 8fnl:E, 8fnl:K, 8fnm:E, 8fnm:K, 8fnn:E, 8fnn:K, 8fno:E, 8fno:K, 8fnp:E, 8fnp:K, 8fnq:E, 8fnq:K, 6puw:E, 6puy:E, 6puz:E, 6v3k:E, 8w2r:E, 8w2r:N)
    actgctagagattttcccg
    		 2.7.7.-
    2.7.7.49
    2.7.7.7
    3.1.-.-
    3.1.13.2
    3.1.26.13
    3.4.23.16    		 GO:0003676 ... P12497
    P42166    		 37478179
    2 8fn7:I
    (2.8)    		 BS01 >8fn7:K (identical to 9c9m:E, 9c9m:N, 8fn7:E, 8fnd:E, 8fnd:K, 8fng:E, 8fng:K, 8fnh:E, 8fnh:K, 8fnj:E, 8fnj:K, 8fnl:E, 8fnl:K, 8fnm:E, 8fnm:K, 8fnn:E, 8fnn:K, 8fno:E, 8fno:K, 8fnp:E, 8fnp:K, 8fnq:E, 8fnq:K, 6puw:E, 6puy:E, 6puz:E, 6v3k:E, 8w2r:E, 8w2r:N)
    actgctagagattttcccg
    		 2.7.7.-
    2.7.7.49
    2.7.7.7
    3.1.-.-
    3.1.13.2
    3.1.26.13
    3.4.23.16    		 GO:0003676 ... P12497
    P42166    		 37478179
    3 8fn7:J
    (2.8)    		 BS02 >8fn7:K (identical to 9c9m:E, 9c9m:N, 8fn7:E, 8fnd:E, 8fnd:K, 8fng:E, 8fng:K, 8fnh:E, 8fnh:K, 8fnj:E, 8fnj:K, 8fnl:E, 8fnl:K, 8fnm:E, 8fnm:K, 8fnn:E, 8fnn:K, 8fno:E, 8fno:K, 8fnp:E, 8fnp:K, 8fnq:E, 8fnq:K, 6puw:E, 6puy:E, 6puz:E, 6v3k:E, 8w2r:E, 8w2r:N)
    actgctagagattttcccg
    		 2.7.7.-
    2.7.7.49
    2.7.7.7
    3.1.-.-
    3.1.13.2
    3.1.26.13
    3.4.23.16    		 GO:0003676 ... P12497
    P42166    		 37478179
    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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