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BioLiP
Download all results in tab-seperated text for 5 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 8dvi:B
    (3.2)    		 BS01 >8dvi:M (identical to 8amd:D, 9cf2:Y, 3cmw:B, 3cmw:D, 8dtp:M, 8dvf:M, 8dw6:M, 8e2l:M, 8g0z:M, 8gao:M, 6irq:F, 5zg9:C)
    tttttttttttt
    		 3.6.4.- GO:0003677 ... P04530 37474605
    2 8dvi:C
    (3.2)    		 BS01 >8dvi:M (identical to 8amd:D, 9cf2:Y, 3cmw:B, 3cmw:D, 8dtp:M, 8dvf:M, 8dw6:M, 8e2l:M, 8g0z:M, 8gao:M, 6irq:F, 5zg9:C)
    tttttttttttt
    		 3.6.4.- GO:0003677 ... P04530 37474605
    3 8dvi:D
    (3.2)    		 BS01 >8dvi:M (identical to 8amd:D, 9cf2:Y, 3cmw:B, 3cmw:D, 8dtp:M, 8dvf:M, 8dw6:M, 8e2l:M, 8g0z:M, 8gao:M, 6irq:F, 5zg9:C)
    tttttttttttt
    		 3.6.4.- GO:0003677 ... P04530 37474605
    4 8dvi:E
    (3.2)    		 BS01 >8dvi:M (identical to 8amd:D, 9cf2:Y, 3cmw:B, 3cmw:D, 8dtp:M, 8dvf:M, 8dw6:M, 8e2l:M, 8g0z:M, 8gao:M, 6irq:F, 5zg9:C)
    tttttttttttt
    		 3.6.4.- GO:0003677 ... P04530 37474605
    5 8dvi:F
    (3.2)    		 BS01 >8dvi:M (identical to 8amd:D, 9cf2:Y, 3cmw:B, 3cmw:D, 8dtp:M, 8dvf:M, 8dw6:M, 8e2l:M, 8g0z:M, 8gao:M, 6irq:F, 5zg9:C)
    tttttttttttt
    		 3.6.4.- GO:0003677 ... P04530 37474605
    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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