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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 6ppf:O
    (3.4)    		 BS02 >6ppf:B (identical to 7aqc:B, 7aqd:B, 7as8:B, 7as9:B, 8buu:B, 6ha1:B, 6ha8:B, 6htq:B, 3j9w:BB, 5njt:V, 7o5b:Y, 7ope:B, 6ppk:B, 8qcq:B, 7qgu:B, 7qh4:B, 8qpp:Y, 7qv1:B, 7qv2:B, 7qv3:B, 8r55:Y, 8s1p:B, 8s1u:B)
    ugguggcgauagcgaagaggucacacccguucccauaccgaacacggaag
uuaagcucuucagcgccgaugguagucggggguuucccccugugagagua
ggacgccgccaa
<<<<<<<....<<<<<<<<.....<<<<<...............>>>..>
>....>>>>>>.>>.<<..........<<<<<...>>>>>..........
>>..>>>>>>>.
    		 ? GO:0003735 ... P46899 31665744
    2 6ppf:V
    (3.4)    		 BS02 >6ppf:B (identical to 7aqc:B, 7aqd:B, 7as8:B, 7as9:B, 8buu:B, 6ha1:B, 6ha8:B, 6htq:B, 3j9w:BB, 5njt:V, 7o5b:Y, 7ope:B, 6ppk:B, 8qcq:B, 7qgu:B, 7qh4:B, 8qpp:Y, 7qv1:B, 7qv2:B, 7qv3:B, 8r55:Y, 8s1p:B, 8s1u:B)
    ugguggcgauagcgaagaggucacacccguucccauaccgaacacggaag
uuaagcucuucagcgccgaugguagucggggguuucccccugugagagua
ggacgccgccaa
<<<<<<<....<<<<<<<<.....<<<<<...............>>>..>
>....>>>>>>.>>.<<..........<<<<<...>>>>>..........
>>..>>>>>>>.
    		 ? GO:0003735 ... P05657 31665744
    3 6ppf:Z
    (3.4)    		 BS02 >6ppf:B (identical to 7aqc:B, 7aqd:B, 7as8:B, 7as9:B, 8buu:B, 6ha1:B, 6ha8:B, 6htq:B, 3j9w:BB, 5njt:V, 7o5b:Y, 7ope:B, 6ppk:B, 8qcq:B, 7qgu:B, 7qh4:B, 8qpp:Y, 7qv1:B, 7qv2:B, 7qv3:B, 8r55:Y, 8s1p:B, 8s1u:B)
    ugguggcgauagcgaagaggucacacccguucccauaccgaacacggaag
uuaagcucuucagcgccgaugguagucggggguuucccccugugagagua
ggacgccgccaa
<<<<<<<....<<<<<<<<.....<<<<<...............>>>..>
>....>>>>>>.>>.<<..........<<<<<...>>>>>..........
>>..>>>>>>>.
    		 ? GO:0003735 ... P19947 31665744
    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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