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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 8fks:SH
    (2.88)    		 BS01 >8fks:L2 (identical to 8fkp:L2, 8fkq:L2, 8fkr:L2, 8fkt:L2, 8fku:L2, 8fkv:L2, 8fkw:L2, 8fkx:L2, 8fky:L2)
    gccgaucaaucgcccccggggugcgcggcugggggcucgcagggccccuc
cgucccccuaagcgcagac
..........<<<<<<..>>>.>>>.....<<<<<..<<.<<<<.>>>>.
>>.>>>>>...........
    		 ? GO:0000463 ... Q9BYG3 37410842
    2 8fks:SI
    (2.88)    		 BS01 >8fks:L2 (identical to 8fkp:L2, 8fkq:L2, 8fkr:L2, 8fkt:L2, 8fku:L2, 8fkv:L2, 8fkw:L2, 8fkx:L2, 8fky:L2)
    gccgaucaaucgcccccggggugcgcggcugggggcucgcagggccccuc
cgucccccuaagcgcagac
..........<<<<<<..>>>.>>>.....<<<<<..<<.<<<<.>>>>.
>>.>>>>>...........
    		 ? GO:0000463 ... Q6DKI1 37410842
    3 8fks:SL
    (2.88)    		 BS01 >8fks:L2 (identical to 8fkp:L2, 8fkq:L2, 8fkr:L2, 8fkt:L2, 8fku:L2, 8fkv:L2, 8fkw:L2, 8fkx:L2, 8fky:L2)
    gccgaucaaucgcccccggggugcgcggcugggggcucgcagggccccuc
cgucccccuaagcgcagac
..........<<<<<<..>>>.>>>.....<<<<<..<<.<<<<.>>>>.
>>.>>>>>...........
    		 ? GO:0000462 ... O76021 37410842
    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)(download the PDF file).
  • 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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