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BioLiP
Download all results in tab-seperated text for 3 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 5bkl:E
    (2.94)    		 BS03 >5bkl:n (identical to 5bkl:h, 5bkn:n, 2db3:E, 2db3:F, 2db3:G, 1ddl:D, 3g0h:E, 2g4b:B, 5jji:G, 6l5n:C, 6l5n:D, 7m50:m, 7m50:n, 4tu7:P, 4tu7:E, 6uv1:C, 6uv1:D, 3vak:P, 3vak:E, 2xb2:R, 4xww:D, 4xww:E, 2xzo:D)
    uuuuuuu
.......
    		 ? GO:0005198 ... P17574 34866603
    2 5bkl:J
    (2.94)    		 BS03 >5bkl:n (identical to 5bkl:h, 5bkn:n, 2db3:E, 2db3:F, 2db3:G, 1ddl:D, 3g0h:E, 2g4b:B, 5jji:G, 6l5n:C, 6l5n:D, 7m50:m, 7m50:n, 4tu7:P, 4tu7:E, 6uv1:C, 6uv1:D, 3vak:P, 3vak:E, 2xb2:R, 4xww:D, 4xww:E, 2xzo:D)
    uuuuuuu
.......
    		 ? GO:0005198 ... P17574 34866603
    3 5bkl:K
    (2.94)    		 BS03 >5bkl:n (identical to 5bkl:h, 5bkn:n, 2db3:E, 2db3:F, 2db3:G, 1ddl:D, 3g0h:E, 2g4b:B, 5jji:G, 6l5n:C, 6l5n:D, 7m50:m, 7m50:n, 4tu7:P, 4tu7:E, 6uv1:C, 6uv1:D, 3vak:P, 3vak:E, 2xb2:R, 4xww:D, 4xww:E, 2xzo:D)
    uuuuuuu
.......
    		 ? GO:0005198 ... P17574 34866603
    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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