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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 1i5l:J
    (2.75)    		 BS01 >1i5l:Y (identical to 7dkg:C, 6e4p:J, 6e4p:K, 1eqq:M, 2f55:E, 6gc5:F, 6gc5:H, 6i2n:U, 1i5l:U, 3iem:J, 3iem:K, 5ip2:F, 5ip2:D, 5mq0:3, 5sze:C, 2voo:C, 2voo:D, 6vyz:Y, 8wx0:F, 8wx0:G, 8wx0:D, 7znk:2, 7znk:4)
    uuu
...
    		 ? GO:0003723 ... O29386 11331594
    2 1i5l:K
    (2.75)    		 BS01 >1i5l:Y (identical to 7dkg:C, 6e4p:J, 6e4p:K, 1eqq:M, 2f55:E, 6gc5:F, 6gc5:H, 6i2n:U, 1i5l:U, 3iem:J, 3iem:K, 5ip2:F, 5ip2:D, 5mq0:3, 5sze:C, 2voo:C, 2voo:D, 6vyz:Y, 8wx0:F, 8wx0:G, 8wx0:D, 7znk:2, 7znk:4)
    uuu
...
    		 ? GO:0003723 ... O29386 11331594
    3 1i5l:L
    (2.75)    		 BS01 >1i5l:Y (identical to 7dkg:C, 6e4p:J, 6e4p:K, 1eqq:M, 2f55:E, 6gc5:F, 6gc5:H, 6i2n:U, 1i5l:U, 3iem:J, 3iem:K, 5ip2:F, 5ip2:D, 5mq0:3, 5sze:C, 2voo:C, 2voo:D, 6vyz:Y, 8wx0:F, 8wx0:G, 8wx0:D, 7znk:2, 7znk:4)
    uuu
...
    		 ? GO:0003723 ... O29386 11331594
    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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