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BioLiP
Download all results in tab-seperated text for 2 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 5gkr:A
    (2.1)    		 BS01 >5gkr:T (identical to 4a76:F, 5chi:D, 5chi:E, 5chi:F, 1d8y:B, 4hqb:M, 6jiq:B, 1keg:A, 5odn:I, 5odn:M, 5odn:J, 5odn:K, 5odn:N, 5odn:Q, 5odp:O, 4pog:V, 4pso:X, 4pso:Z, 1rta:C, 4s0n:F, 4s0n:G, 4s0n:H, 3sz5:B, 3udg:F, 3vdy:C, 3vdy:E, 2vtb:K, 2vtb:L, 2y35:B, 4yox:B, 4yox:D, 4yox:F, 4yoy:B, 4yoy:D, 4yoy:F, 4z8f:E)
    tttt
    		 N/A N/A N/A 29180749 PDBbind: Kd=4.61nM
    2 5gkr:B
    (2.1)    		 BS01 >5gkr:T (identical to 4a76:F, 5chi:D, 5chi:E, 5chi:F, 1d8y:B, 4hqb:M, 6jiq:B, 1keg:A, 5odn:I, 5odn:M, 5odn:J, 5odn:K, 5odn:N, 5odn:Q, 5odp:O, 4pog:V, 4pso:X, 4pso:Z, 1rta:C, 4s0n:F, 4s0n:G, 4s0n:H, 3sz5:B, 3udg:F, 3vdy:C, 3vdy:E, 2vtb:K, 2vtb:L, 2y35:B, 4yox:B, 4yox:D, 4yox:F, 4yoy:B, 4yoy:D, 4yoy:F, 4z8f:E)
    tttt
    		 N/A N/A N/A 29180749 PDBbind: Kd=4.61nM
    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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