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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 3wkj:A
    (2.8)    		 BS02 >3wkj:J (identical to 3a6n:J, 5ay8:J, 3azf:J, 3azg:J, 3azh:J, 3azi:J, 3azj:J, 3azk:J, 3azl:J, 3azm:J, 3azn:J, 5b1l:I, 6v2k:I, 3w96:J, 3w99:J, 5x7x:J, 5y0c:I)
    tcaatatccacctgcagattctaccaaaagtgtatttggaaactgctcca
tcaaaaggcatgttcagctgaattcagctgaacatgccttttgatggagc
agtttccaaatacacttttggtagaatctgcaggtggatattgat
    		 ? GO:0000786 ... P68431 24699735
    2 3wkj:B
    (2.8)    		 BS02 >3wkj:J (identical to 3a6n:J, 5ay8:J, 3azf:J, 3azg:J, 3azh:J, 3azi:J, 3azj:J, 3azk:J, 3azl:J, 3azm:J, 3azn:J, 5b1l:I, 6v2k:I, 3w96:J, 3w99:J, 5x7x:J, 5y0c:I)
    tcaatatccacctgcagattctaccaaaagtgtatttggaaactgctcca
tcaaaaggcatgttcagctgaattcagctgaacatgccttttgatggagc
agtttccaaatacacttttggtagaatctgcaggtggatattgat
    		 ? GO:0000781 ... P62805 24699735
    3 3wkj:C
    (2.8)    		 BS02 >3wkj:J (identical to 3a6n:J, 5ay8:J, 3azf:J, 3azg:J, 3azh:J, 3azi:J, 3azj:J, 3azk:J, 3azl:J, 3azm:J, 3azn:J, 5b1l:I, 6v2k:I, 3w96:J, 3w99:J, 5x7x:J, 5y0c:I)
    tcaatatccacctgcagattctaccaaaagtgtatttggaaactgctcca
tcaaaaggcatgttcagctgaattcagctgaacatgccttttgatggagc
agtttccaaatacacttttggtagaatctgcaggtggatattgat
    		 ? GO:0000786 ... P04908 24699735
    4 3wkj:D
    (2.8)    		 BS02 >3wkj:J (identical to 3a6n:J, 5ay8:J, 3azf:J, 3azg:J, 3azh:J, 3azi:J, 3azj:J, 3azk:J, 3azl:J, 3azm:J, 3azn:J, 5b1l:I, 6v2k:I, 3w96:J, 3w99:J, 5x7x:J, 5y0c:I)
    tcaatatccacctgcagattctaccaaaagtgtatttggaaactgctcca
tcaaaaggcatgttcagctgaattcagctgaacatgccttttgatggagc
agtttccaaatacacttttggtagaatctgcaggtggatattgat
    		 ? GO:0000781 ... Q96A08 24699735
    5 3wkj:E
    (2.8)    		 BS02 >3wkj:J (identical to 3a6n:J, 5ay8:J, 3azf:J, 3azg:J, 3azh:J, 3azi:J, 3azj:J, 3azk:J, 3azl:J, 3azm:J, 3azn:J, 5b1l:I, 6v2k:I, 3w96:J, 3w99:J, 5x7x:J, 5y0c:I)
    tcaatatccacctgcagattctaccaaaagtgtatttggaaactgctcca
tcaaaaggcatgttcagctgaattcagctgaacatgccttttgatggagc
agtttccaaatacacttttggtagaatctgcaggtggatattgat
    		 ? GO:0000786 ... P68431 24699735
    6 3wkj:F
    (2.8)    		 BS02 >3wkj:J (identical to 3a6n:J, 5ay8:J, 3azf:J, 3azg:J, 3azh:J, 3azi:J, 3azj:J, 3azk:J, 3azl:J, 3azm:J, 3azn:J, 5b1l:I, 6v2k:I, 3w96:J, 3w99:J, 5x7x:J, 5y0c:I)
    tcaatatccacctgcagattctaccaaaagtgtatttggaaactgctcca
tcaaaaggcatgttcagctgaattcagctgaacatgccttttgatggagc
agtttccaaatacacttttggtagaatctgcaggtggatattgat
    		 ? GO:0000781 ... P62805 24699735
    7 3wkj:G
    (2.8)    		 BS02 >3wkj:J (identical to 3a6n:J, 5ay8:J, 3azf:J, 3azg:J, 3azh:J, 3azi:J, 3azj:J, 3azk:J, 3azl:J, 3azm:J, 3azn:J, 5b1l:I, 6v2k:I, 3w96:J, 3w99:J, 5x7x:J, 5y0c:I)
    tcaatatccacctgcagattctaccaaaagtgtatttggaaactgctcca
tcaaaaggcatgttcagctgaattcagctgaacatgccttttgatggagc
agtttccaaatacacttttggtagaatctgcaggtggatattgat
    		 ? GO:0000786 ... P04908 24699735
    8 3wkj:H
    (2.8)    		 BS02 >3wkj:J (identical to 3a6n:J, 5ay8:J, 3azf:J, 3azg:J, 3azh:J, 3azi:J, 3azj:J, 3azk:J, 3azl:J, 3azm:J, 3azn:J, 5b1l:I, 6v2k:I, 3w96:J, 3w99:J, 5x7x:J, 5y0c:I)
    tcaatatccacctgcagattctaccaaaagtgtatttggaaactgctcca
tcaaaaggcatgttcagctgaattcagctgaacatgccttttgatggagc
agtttccaaatacacttttggtagaatctgcaggtggatattgat
    		 ? GO:0000781 ... Q96A08 24699735
    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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