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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
    #     		RNA
    sequence         		EC
    number     		GO
    terms     		UniProt PubMed Binding
    affinity
    1 3iem:A
    (2.5)    		 BS03 >3iem:L (identical to 5bud:D, 5gmf:E, 5gmf:F, 5gmf:G, 5gmf:H, 5gmg:C, 5gmg:D, 4hos:X, 6i0u:B, 3ie1:E, 3ie1:F, 3ie1:H, 3iem:H, 7m3t:n, 7m3t:qq, 1nb7:E, 1nb7:F, 8q9t:B, 8qca:X, 2qqp:R, 3s4g:C, 7sow:B, 5w0m:H, 5w0m:I, 5w0m:J, 5z4j:B, 5zsa:C, 5zsa:D)
    uuuu
....
    		 3.1.-.- GO:0003723 ... Q5SLP1 N/A
    2 3iem:B
    (2.5)    		 BS03 >3iem:L (identical to 5bud:D, 5gmf:E, 5gmf:F, 5gmf:G, 5gmf:H, 5gmg:C, 5gmg:D, 4hos:X, 6i0u:B, 3ie1:E, 3ie1:F, 3ie1:H, 3iem:H, 7m3t:n, 7m3t:qq, 1nb7:E, 1nb7:F, 8q9t:B, 8qca:X, 2qqp:R, 3s4g:C, 7sow:B, 5w0m:H, 5w0m:I, 5w0m:J, 5z4j:B, 5zsa:C, 5zsa:D)
    uuuu
....
    		 3.1.-.- GO:0003723 ... Q5SLP1 N/A
    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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