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BioLiP
Download all results in tab-seperated text for 12 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 7d4i:3D
    (4.0)    		 BS02 >7d4i:5A
    ugcgaaagcaguugaagacaaguggcuugucguucguuaaaauggccucg
ucgcgaaggggaaacucaaagagugcuaucggagugcgcgagagcauuuc
cggcagcagaucagcugu
<<<....>>>...<<<<<<<<<<.>>>>>>>.>>>...............
.............................<<<<<<<<......>>>>.>>
>>.<<<<......>>>>.
    		 ? GO:0000154 ... Q12460 N/A
    2 7d4i:5C
    (4.0)    		 BS02 >7d4i:5A
    ugcgaaagcaguugaagacaaguggcuugucguucguuaaaauggccucg
ucgcgaaggggaaacucaaagagugcuaucggagugcgcgagagcauuuc
cggcagcagaucagcugu
<<<....>>>...<<<<<<<<<<.>>>>>>>.>>>...............
.............................<<<<<<<<......>>>>.>>
>>.<<<<......>>>>.
    		 ? GO:0000447 ... P40055 N/A
    3 7d4i:5F
    (4.0)    		 BS02 >7d4i:5A
    ugcgaaagcaguugaagacaaguggcuugucguucguuaaaauggccucg
ucgcgaaggggaaacucaaagagugcuaucggagugcgcgagagcauuuc
cggcagcagaucagcugu
<<<....>>>...<<<<<<<<<<.>>>>>>>.>>>...............
.............................<<<<<<<<......>>>>.>>
>>.<<<<......>>>>.
    		 ? GO:0003723 ... P32899 N/A
    4 7d4i:5I
    (4.0)    		 BS02 >7d4i:5A
    ugcgaaagcaguugaagacaaguggcuugucguucguuaaaauggccucg
ucgcgaaggggaaacucaaagagugcuaucggagugcgcgagagcauuuc
cggcagcagaucagcugu
<<<....>>>...<<<<<<<<<<.>>>>>>>.>>>...............
.............................<<<<<<<<......>>>>.>>
>>.<<<<......>>>>.
    		 ? GO:0000462 ... P33750 N/A
    5 7d4i:A4
    (4.0)    		 BS01 >7d4i:5A
    ugcgaaagcaguugaagacaaguggcuugucguucguuaaaauggccucg
ucgcgaaggggaaacucaaagagugcuaucggagugcgcgagagcauuuc
cggcagcagaucagcugu
<<<....>>>...<<<<<<<<<<.>>>>>>>.>>>...............
.............................<<<<<<<<......>>>>.>>
>>.<<<<......>>>>.
    		 ? GO:0000462 ... Q06679 N/A
    6 7d4i:A9
    (4.0)    		 BS01 >7d4i:5A
    ugcgaaagcaguugaagacaaguggcuugucguucguuaaaauggccucg
ucgcgaaggggaaacucaaagagugcuaucggagugcgcgagagcauuuc
cggcagcagaucagcugu
<<<....>>>...<<<<<<<<<<.>>>>>>>.>>>...............
.............................<<<<<<<<......>>>>.>>
>>.<<<<......>>>>.
    		 ? GO:0000049 ... P38882 N/A
    7 7d4i:AF
    (4.0)    		 BS01 >7d4i:5A
    ugcgaaagcaguugaagacaaguggcuugucguucguuaaaauggccucg
ucgcgaaggggaaacucaaagagugcuaucggagugcgcgagagcauuuc
cggcagcagaucagcugu
<<<....>>>...<<<<<<<<<<.>>>>>>>.>>>...............
.............................<<<<<<<<......>>>>.>>
>>.<<<<......>>>>.
    		 ? GO:0000462 ... Q04305 N/A
    8 7d4i:AG
    (4.0)    		 BS02 >7d4i:5A
    ugcgaaagcaguugaagacaaguggcuugucguucguuaaaauggccucg
ucgcgaaggggaaacucaaagagugcuaucggagugcgcgagagcauuuc
cggcagcagaucagcugu
<<<....>>>...<<<<<<<<<<.>>>>>>>.>>>...............
.............................<<<<<<<<......>>>>.>>
>>.<<<<......>>>>.
    		 ? GO:0000462 ... Q02931 N/A
    9 7d4i:B6
    (4.0)    		 BS01 >7d4i:5A
    ugcgaaagcaguugaagacaaguggcuugucguucguuaaaauggccucg
ucgcgaaggggaaacucaaagagugcuaucggagugcgcgagagcauuuc
cggcagcagaucagcugu
<<<....>>>...<<<<<<<<<<.>>>>>>>.>>>...............
.............................<<<<<<<<......>>>>.>>
>>.<<<<......>>>>.
    		 ? GO:0000447 ... Q02354 N/A
    10 7d4i:B8
    (4.0)    		 BS02 >7d4i:5A
    ugcgaaagcaguugaagacaaguggcuugucguucguuaaaauggccucg
ucgcgaaggggaaacucaaagagugcuaucggagugcgcgagagcauuuc
cggcagcagaucagcugu
<<<....>>>...<<<<<<<<<<.>>>>>>>.>>>...............
.............................<<<<<<<<......>>>>.>>
>>.<<<<......>>>>.
    		 ? GO:0000292 ... P40362 N/A
    11 7d4i:BE
    (4.0)    		 BS01 >7d4i:5A
    ugcgaaagcaguugaagacaaguggcuugucguucguuaaaauggccucg
ucgcgaaggggaaacucaaagagugcuaucggagugcgcgagagcauuuc
cggcagcagaucagcugu
<<<....>>>...<<<<<<<<<<.>>>>>>>.>>>...............
.............................<<<<<<<<......>>>>.>>
>>.<<<<......>>>>.
    		 ? GO:0003674 ... Q06078 N/A
    12 7d4i:RQ
    (4.0)    		 BS01 >7d4i:5A
    ugcgaaagcaguugaagacaaguggcuugucguucguuaaaauggccucg
ucgcgaaggggaaacucaaagagugcuaucggagugcgcgagagcauuuc
cggcagcagaucagcugu
<<<....>>>...<<<<<<<<<<.>>>>>>>.>>>...............
.............................<<<<<<<<......>>>>.>>
>>.<<<<......>>>>.
    		 ? GO:0000447 ... Q04500 N/A
    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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