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BioLiP
Download all results in tab-seperated text for 8 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 3rej:A
    (2.55)    		 BS02 >3rej:J (identical to 1kx4:I, 1kx4:J, 3rej:I, 3rek:I, 3rek:J, 3rel:I, 3rel:J, 3utb:I, 3utb:J)
    atctccaaatatcccttgcggatcgtagaaaaagtgtgtcaaactgcgct
atcaaagggaaacttcaactgaattcagttgaagtttccctttgatagcg
cagtttgacacactttttctacgatccgcaagggatatttggagat
    		 ? GO:0000786 ... P84233 21724603
    2 3rej:B
    (2.55)    		 BS02 >3rej:J (identical to 1kx4:I, 1kx4:J, 3rej:I, 3rek:I, 3rek:J, 3rel:I, 3rel:J, 3utb:I, 3utb:J)
    atctccaaatatcccttgcggatcgtagaaaaagtgtgtcaaactgcgct
atcaaagggaaacttcaactgaattcagttgaagtttccctttgatagcg
cagtttgacacactttttctacgatccgcaagggatatttggagat
    		 ? GO:0000786 ... P62799 21724603
    3 3rej:C
    (2.55)    		 BS02 >3rej:J (identical to 1kx4:I, 1kx4:J, 3rej:I, 3rek:I, 3rek:J, 3rel:I, 3rel:J, 3utb:I, 3utb:J)
    atctccaaatatcccttgcggatcgtagaaaaagtgtgtcaaactgcgct
atcaaagggaaacttcaactgaattcagttgaagtttccctttgatagcg
cagtttgacacactttttctacgatccgcaagggatatttggagat
    		 ? GO:0000786 ... P06897 21724603
    4 3rej:D
    (2.55)    		 BS02 >3rej:J (identical to 1kx4:I, 1kx4:J, 3rej:I, 3rek:I, 3rek:J, 3rel:I, 3rel:J, 3utb:I, 3utb:J)
    atctccaaatatcccttgcggatcgtagaaaaagtgtgtcaaactgcgct
atcaaagggaaacttcaactgaattcagttgaagtttccctttgatagcg
cagtttgacacactttttctacgatccgcaagggatatttggagat
    		 ? GO:0000786 ... P02281 21724603
    5 3rej:E
    (2.55)    		 BS02 >3rej:J (identical to 1kx4:I, 1kx4:J, 3rej:I, 3rek:I, 3rek:J, 3rel:I, 3rel:J, 3utb:I, 3utb:J)
    atctccaaatatcccttgcggatcgtagaaaaagtgtgtcaaactgcgct
atcaaagggaaacttcaactgaattcagttgaagtttccctttgatagcg
cagtttgacacactttttctacgatccgcaagggatatttggagat
    		 ? GO:0000786 ... P84233 21724603
    6 3rej:F
    (2.55)    		 BS02 >3rej:J (identical to 1kx4:I, 1kx4:J, 3rej:I, 3rek:I, 3rek:J, 3rel:I, 3rel:J, 3utb:I, 3utb:J)
    atctccaaatatcccttgcggatcgtagaaaaagtgtgtcaaactgcgct
atcaaagggaaacttcaactgaattcagttgaagtttccctttgatagcg
cagtttgacacactttttctacgatccgcaagggatatttggagat
    		 ? GO:0000786 ... P62799 21724603
    7 3rej:G
    (2.55)    		 BS02 >3rej:J (identical to 1kx4:I, 1kx4:J, 3rej:I, 3rek:I, 3rek:J, 3rel:I, 3rel:J, 3utb:I, 3utb:J)
    atctccaaatatcccttgcggatcgtagaaaaagtgtgtcaaactgcgct
atcaaagggaaacttcaactgaattcagttgaagtttccctttgatagcg
cagtttgacacactttttctacgatccgcaagggatatttggagat
    		 ? GO:0000786 ... P06897 21724603
    8 3rej:H
    (2.55)    		 BS02 >3rej:J (identical to 1kx4:I, 1kx4:J, 3rej:I, 3rek:I, 3rek:J, 3rel:I, 3rel:J, 3utb:I, 3utb:J)
    atctccaaatatcccttgcggatcgtagaaaaagtgtgtcaaactgcgct
atcaaagggaaacttcaactgaattcagttgaagtttccctttgatagcg
cagtttgacacactttttctacgatccgcaagggatatttggagat
    		 ? GO:0000786 ... P02281 21724603
    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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