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BioLiP
Download all results in tab-seperated text for 5 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 5nd8:3
    (3.7)    		 BS01 >5nd8:B (identical to 7aso:C, 7asp:3, 5hkv:Y, 5hl7:Y, 5li0:B, 5nd9:B, 5nrg:Y, 5tcu:C, 4wce:Y, 4wf9:Y, 4wfa:Y, 4wfb:Y)
    ucuggugacuauagcaaggaggucacaccuguucccaugccgaacacaga
aguuaaggucuuuagcgacgaugguagccaacuuacguuccgcuagagua
gaacguugccaggc
.<<.<..<.....<<<<<<<......<<<<<...............>>>.
.>>.....>>>>>.>><.....<.<.<.<............>.>...>>.
...>..>..>.>>.
    		 ? GO:0003735 ... Q2FWD8 28645916
    2 5nd8:G
    (3.7)    		 BS02 >5nd8:B (identical to 7aso:C, 7asp:3, 5hkv:Y, 5hl7:Y, 5li0:B, 5nd9:B, 5nrg:Y, 5tcu:C, 4wce:Y, 4wf9:Y, 4wfa:Y, 4wfb:Y)
    ucuggugacuauagcaaggaggucacaccuguucccaugccgaacacaga
aguuaaggucuuuagcgacgaugguagccaacuuacguuccgcuagagua
gaacguugccaggc
.<<.<..<.....<<<<<<<......<<<<<...............>>>.
.>>.....>>>>>.>><.....<.<.<.<............>.>...>>.
...>..>..>.>>.
    		 ? GO:0000049 ... Q2FW18 28645916
    3 5nd8:R
    (3.7)    		 BS02 >5nd8:B (identical to 7aso:C, 7asp:3, 5hkv:Y, 5hl7:Y, 5li0:B, 5nd9:B, 5nrg:Y, 5tcu:C, 4wce:Y, 4wf9:Y, 4wfa:Y, 4wfb:Y)
    ucuggugacuauagcaaggaggucacaccuguucccaugccgaacacaga
aguuaaggucuuuagcgacgaugguagccaacuuacguuccgcuagagua
gaacguugccaggc
.<<.<..<.....<<<<<<<......<<<<<...............>>>.
.>>.....>>>>>.>><.....<.<.<.<............>.>...>>.
...>..>..>.>>.
    		 ? GO:0003735 ... Q2FW22 28645916
    4 5nd8:Y
    (3.7)    		 BS01 >5nd8:B (identical to 7aso:C, 7asp:3, 5hkv:Y, 5hl7:Y, 5li0:B, 5nd9:B, 5nrg:Y, 5tcu:C, 4wce:Y, 4wf9:Y, 4wfa:Y, 4wfb:Y)
    ucuggugacuauagcaaggaggucacaccuguucccaugccgaacacaga
aguuaaggucuuuagcgacgaugguagccaacuuacguuccgcuagagua
gaacguugccaggc
.<<.<..<.....<<<<<<<......<<<<<...............>>>.
.>>.....>>>>>.>><.....<.<.<.<............>.>...>>.
...>..>..>.>>.
    		 ? GO:0003723 ... Q2G0S0 28645916
    5 5nd8:Z
    (3.7)    		 BS02 >5nd8:B (identical to 7aso:C, 7asp:3, 5hkv:Y, 5hl7:Y, 5li0:B, 5nd9:B, 5nrg:Y, 5tcu:C, 4wce:Y, 4wf9:Y, 4wfa:Y, 4wfb:Y)
    ucuggugacuauagcaaggaggucacaccuguucccaugccgaacacaga
aguuaaggucuuuagcgacgaugguagccaacuuacguuccgcuagagua
gaacguugccaggc
.<<.<..<.....<<<<<<<......<<<<<...............>>>.
.>>.....>>>>>.>><.....<.<.<.<............>.>...>>.
...>..>..>.>>.
    		 ? GO:0003735 ... Q2FXT0 28645916
    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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