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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 4v4b:BE
    (11.7)    		 BS02 >4v4b:B4 (identical to 3cpw:9, 3cxc:9, 1ffk:9, 1jj2:9, 1k73:B, 1k8a:B, 1k9m:B, 1kc8:B, 1kd1:B, 1kqs:9, 1m1k:B, 1m90:B, 1n8r:B, 1nji:B, 2otj:9, 2otl:9, 3ow2:9, 1q7y:B, 1q81:B, 1q82:B, 1q86:B, 2qa4:9, 2qex:9, 1qvf:9, 1qvg:9, 1s72:9, 1vq4:9, 1vq5:9, 1vq6:9, 1vq7:9, 1vq8:9, 1vq9:9, 1vqk:9, 1vql:9, 1vqm:9, 1vqn:9, 1vqo:9, 1vqp:9, 1w2b:9)
    uuaggcggccacagcggugggguugccucccguacccaucccgaacacgg
aagauaagcccaccagcguuccggggaguacuggagugcgcgagccucug
ggaaacccgguucgccgccacc
...<<<<<<....<<<<<<<<......<<<<<<.............>>>>
..>>....>>>>>>.>><..<<<<<.....<<<<<<.<<....>>>>>>>
>....>>>>>.>.>>>>>>...
    		 ? GO:0003735 ... P26321 14976550
    2 4v4b:BF
    (11.7)    		 BS02 >4v4b:B4 (identical to 3cpw:9, 3cxc:9, 1ffk:9, 1jj2:9, 1k73:B, 1k8a:B, 1k9m:B, 1kc8:B, 1kd1:B, 1kqs:9, 1m1k:B, 1m90:B, 1n8r:B, 1nji:B, 2otj:9, 2otl:9, 3ow2:9, 1q7y:B, 1q81:B, 1q82:B, 1q86:B, 2qa4:9, 2qex:9, 1qvf:9, 1qvg:9, 1s72:9, 1vq4:9, 1vq5:9, 1vq6:9, 1vq7:9, 1vq8:9, 1vq9:9, 1vqk:9, 1vql:9, 1vqm:9, 1vqn:9, 1vqo:9, 1vqp:9, 1w2b:9)
    uuaggcggccacagcggugggguugccucccguacccaucccgaacacgg
aagauaagcccaccagcguuccggggaguacuggagugcgcgagccucug
ggaaacccgguucgccgccacc
...<<<<<<....<<<<<<<<......<<<<<<.............>>>>
..>>....>>>>>>.>><..<<<<<.....<<<<<<.<<....>>>>>>>
>....>>>>>.>.>>>>>>...
    		 ? GO:0000463 ... P05737 14976550
    3 4v4b:BJ
    (11.7)    		 BS02 >4v4b:B4 (identical to 3cpw:9, 3cxc:9, 1ffk:9, 1jj2:9, 1k73:B, 1k8a:B, 1k9m:B, 1kc8:B, 1kd1:B, 1kqs:9, 1m1k:B, 1m90:B, 1n8r:B, 1nji:B, 2otj:9, 2otl:9, 3ow2:9, 1q7y:B, 1q81:B, 1q82:B, 1q86:B, 2qa4:9, 2qex:9, 1qvf:9, 1qvg:9, 1s72:9, 1vq4:9, 1vq5:9, 1vq6:9, 1vq7:9, 1vq8:9, 1vq9:9, 1vqk:9, 1vql:9, 1vqm:9, 1vqn:9, 1vqo:9, 1vqp:9, 1w2b:9)
    uuaggcggccacagcggugggguugccucccguacccaucccgaacacgg
aagauaagcccaccagcguuccggggaguacuggagugcgcgagccucug
ggaaacccgguucgccgccacc
...<<<<<<....<<<<<<<<......<<<<<<.............>>>>
..>>....>>>>>>.>><..<<<<<.....<<<<<<.<<....>>>>>>>
>....>>>>>.>.>>>>>>...
    		 N/A GO:0003735 ... N/A 14976550
    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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