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BioLiP
Download all results in tab-seperated text for 1 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 6dod:A
    (1.535)    		 BS03 >6dod:C (identical to 6dmn:C, 6dmv:C, 6do8:C, 6do9:C, 6doa:C, 6dob:C, 6doc:C, 6doe:C, 6dof:C, 6dog:C, 6doh:C, 6doi:C, 6doj:C, 6dok:C, 6dol:C, 6dom:C, 6don:C, 6doo:C, 6dop:C, 6doq:C, 6dor:C, 6dos:C, 6dot:C, 6dou:C, 6dov:C, 6dow:C, 6dox:C, 6doy:C, 6doz:C, 6dp0:C, 6dp1:C, 6dp2:C, 6dp3:C, 6dp4:C, 6dp5:C, 6dp6:C, 6dp7:C, 6dp8:C, 6dp9:C, 6dpa:C, 6dpb:C, 6dpc:C, 6dpd:C, 6dpe:C, 6dpf:C, 6dpg:C, 6dph:C, 6dpi:C, 6dpj:C, 6dpk:C, 6dpl:C, 6dpm:C, 6dpn:C, 6dpo:C, 6dpp:C)
    cgatgt
    		 3.1.26.4 GO:0003676 ... Q9KEI9 30076410
    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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