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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 8q3m:AAA
    (2.503)    		 BS02 >8q3m:JJJ (identical to 5cp6:J, 5dnm:J, 5dnn:J, 6ipu:J, 6iq4:J, 4j8u:J, 4j8v:J, 4j8w:J, 4j8x:J, 6k1j:J, 4kgc:J, 3kuy:J, 3mnn:J, 2nzd:J, 8q36:JJJ, 8q3e:JJJ, 8q3x:JJJ, 3reh:J, 3rei:J, 4wu8:J, 4wu9:J, 5xf3:J, 5xf4:J, 5xf5:J, 5xf6:J, 4xuj:J)
    atcaatatccacctgcagatactaccaaaagtgtatttggaaactgctcc
atcaaaaggcatgttcagctgattcagctgaacatgccttttgatggagc
agtttccaaatacacttttggtagtatctgcaggtggatattgat
    		 ? GO:0000786 ... P68431 38495982
    2 8q3m:BBB
    (2.503)    		 BS02 >8q3m:JJJ (identical to 5cp6:J, 5dnm:J, 5dnn:J, 6ipu:J, 6iq4:J, 4j8u:J, 4j8v:J, 4j8w:J, 4j8x:J, 6k1j:J, 4kgc:J, 3kuy:J, 3mnn:J, 2nzd:J, 8q36:JJJ, 8q3e:JJJ, 8q3x:JJJ, 3reh:J, 3rei:J, 4wu8:J, 4wu9:J, 5xf3:J, 5xf4:J, 5xf5:J, 5xf6:J, 4xuj:J)
    atcaatatccacctgcagatactaccaaaagtgtatttggaaactgctcc
atcaaaaggcatgttcagctgattcagctgaacatgccttttgatggagc
agtttccaaatacacttttggtagtatctgcaggtggatattgat
    		 ? GO:0003677 ... P62805 38495982
    3 8q3m:CCC
    (2.503)    		 BS02 >8q3m:JJJ (identical to 5cp6:J, 5dnm:J, 5dnn:J, 6ipu:J, 6iq4:J, 4j8u:J, 4j8v:J, 4j8w:J, 4j8x:J, 6k1j:J, 4kgc:J, 3kuy:J, 3mnn:J, 2nzd:J, 8q36:JJJ, 8q3e:JJJ, 8q3x:JJJ, 3reh:J, 3rei:J, 4wu8:J, 4wu9:J, 5xf3:J, 5xf4:J, 5xf5:J, 5xf6:J, 4xuj:J)
    atcaatatccacctgcagatactaccaaaagtgtatttggaaactgctcc
atcaaaaggcatgttcagctgattcagctgaacatgccttttgatggagc
agtttccaaatacacttttggtagtatctgcaggtggatattgat
    		 ? GO:0000786 ... P04908 38495982
    4 8q3m:DDD
    (2.503)    		 BS02 >8q3m:JJJ (identical to 5cp6:J, 5dnm:J, 5dnn:J, 6ipu:J, 6iq4:J, 4j8u:J, 4j8v:J, 4j8w:J, 4j8x:J, 6k1j:J, 4kgc:J, 3kuy:J, 3mnn:J, 2nzd:J, 8q36:JJJ, 8q3e:JJJ, 8q3x:JJJ, 3reh:J, 3rei:J, 4wu8:J, 4wu9:J, 5xf3:J, 5xf4:J, 5xf5:J, 5xf6:J, 4xuj:J)
    atcaatatccacctgcagatactaccaaaagtgtatttggaaactgctcc
atcaaaaggcatgttcagctgattcagctgaacatgccttttgatggagc
agtttccaaatacacttttggtagtatctgcaggtggatattgat
    		 ? GO:0000786 ... O60814 38495982
    5 8q3m:EEE
    (2.503)    		 BS02 >8q3m:JJJ (identical to 5cp6:J, 5dnm:J, 5dnn:J, 6ipu:J, 6iq4:J, 4j8u:J, 4j8v:J, 4j8w:J, 4j8x:J, 6k1j:J, 4kgc:J, 3kuy:J, 3mnn:J, 2nzd:J, 8q36:JJJ, 8q3e:JJJ, 8q3x:JJJ, 3reh:J, 3rei:J, 4wu8:J, 4wu9:J, 5xf3:J, 5xf4:J, 5xf5:J, 5xf6:J, 4xuj:J)
    atcaatatccacctgcagatactaccaaaagtgtatttggaaactgctcc
atcaaaaggcatgttcagctgattcagctgaacatgccttttgatggagc
agtttccaaatacacttttggtagtatctgcaggtggatattgat
    		 ? GO:0000786 ... P68431 38495982
    6 8q3m:FFF
    (2.503)    		 BS02 >8q3m:JJJ (identical to 5cp6:J, 5dnm:J, 5dnn:J, 6ipu:J, 6iq4:J, 4j8u:J, 4j8v:J, 4j8w:J, 4j8x:J, 6k1j:J, 4kgc:J, 3kuy:J, 3mnn:J, 2nzd:J, 8q36:JJJ, 8q3e:JJJ, 8q3x:JJJ, 3reh:J, 3rei:J, 4wu8:J, 4wu9:J, 5xf3:J, 5xf4:J, 5xf5:J, 5xf6:J, 4xuj:J)
    atcaatatccacctgcagatactaccaaaagtgtatttggaaactgctcc
atcaaaaggcatgttcagctgattcagctgaacatgccttttgatggagc
agtttccaaatacacttttggtagtatctgcaggtggatattgat
    		 ? GO:0003677 ... P62805 38495982
    7 8q3m:GGG
    (2.503)    		 BS02 >8q3m:JJJ (identical to 5cp6:J, 5dnm:J, 5dnn:J, 6ipu:J, 6iq4:J, 4j8u:J, 4j8v:J, 4j8w:J, 4j8x:J, 6k1j:J, 4kgc:J, 3kuy:J, 3mnn:J, 2nzd:J, 8q36:JJJ, 8q3e:JJJ, 8q3x:JJJ, 3reh:J, 3rei:J, 4wu8:J, 4wu9:J, 5xf3:J, 5xf4:J, 5xf5:J, 5xf6:J, 4xuj:J)
    atcaatatccacctgcagatactaccaaaagtgtatttggaaactgctcc
atcaaaaggcatgttcagctgattcagctgaacatgccttttgatggagc
agtttccaaatacacttttggtagtatctgcaggtggatattgat
    		 ? GO:0000786 ... P04908 38495982
    8 8q3m:HHH
    (2.503)    		 BS02 >8q3m:JJJ (identical to 5cp6:J, 5dnm:J, 5dnn:J, 6ipu:J, 6iq4:J, 4j8u:J, 4j8v:J, 4j8w:J, 4j8x:J, 6k1j:J, 4kgc:J, 3kuy:J, 3mnn:J, 2nzd:J, 8q36:JJJ, 8q3e:JJJ, 8q3x:JJJ, 3reh:J, 3rei:J, 4wu8:J, 4wu9:J, 5xf3:J, 5xf4:J, 5xf5:J, 5xf6:J, 4xuj:J)
    atcaatatccacctgcagatactaccaaaagtgtatttggaaactgctcc
atcaaaaggcatgttcagctgattcagctgaacatgccttttgatggagc
agtttccaaatacacttttggtagtatctgcaggtggatattgat
    		 ? GO:0000786 ... O60814 38495982
    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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