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BioLiP
Download all results in tab-seperated text for 7 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 4v87:D3
    (3.1)    		 BS02 >4v87:DB (identical to 7azo:5SA, 7azs:5SA, 5e7k:16, 5e7k:1J, 5e81:16, 5e81:1J, 5el4:16, 5el4:1J, 5el5:16, 5el5:1J, 5el6:16, 5el6:1J, 5el7:16, 5el7:1J, 6gsj:16, 6gsj:1J, 6gsk:16, 6gsk:1J, 6gsl:16, 6gsl:1J, 6gzq:B1, 6gzx:B1, 6gzx:B2, 6gzz:B1, 6gzz:B2, 5ib7:16, 5ib7:1J, 5ib8:16, 5ib8:1J, 5ibb:16, 5ibb:1J, 5ndj:16, 5ndj:1J, 5ndk:16, 5ndk:1J, 6otr:RB, 6otr:YB, 6qnq:1J, 6qnr:16, 4v6f:AB, 4v6f:DB, 4v87:AB, 4v8b:BB, 4v8b:DB, 4v8c:AB, 4v8c:BB, 4v8d:BB, 4v8d:DB, 4v8e:AB, 4v8e:CB, 4v8f:AB, 4v8f:DB, 4v9a:BB, 4v9a:DB, 4v9b:BB, 4v9b:DB, 4w4g:RB, 4w4g:YB, 4wq1:16, 4wq1:1J, 4wqr:16, 4wqr:1J, 4wr6:16, 4wr6:1J, 4wra:16, 4wra:1J, 4wro:16, 4wsd:16, 4wsd:1J, 4wsm:16, 4wsm:1J, 4wt1:16, 4wt1:1J, 4wu1:16, 4wu1:1J, 4wzd:16, 4wzd:1J, 4wzo:16, 4wzo:1J, 4ypb:RB, 4ypb:YB, 4yzv:RB, 4yzv:YB, 4zsn:RB, 4zsn:YB)
    aaucccccgugcccauagcggcguggaaccacccguucccauuccgaaca
cggaagugaaacgcgccagcgccgaugguacugggcgggcgaccgccugg
gagaguaggucggugcggggga
..<<<<<<<<<<<....<<<<<<<<....<<<<<<...............
>>>..>>>...>>>>>>.>><<<.....<.<<<<<<<<....>>>>>>>>
...>...>>>.>>>>>>>>>>>
    		 ? GO:0003735 ... P60493 22437501
    2 4v87:D4
    (3.1)    		 BS01 >4v87:DB (identical to 7azo:5SA, 7azs:5SA, 5e7k:16, 5e7k:1J, 5e81:16, 5e81:1J, 5el4:16, 5el4:1J, 5el5:16, 5el5:1J, 5el6:16, 5el6:1J, 5el7:16, 5el7:1J, 6gsj:16, 6gsj:1J, 6gsk:16, 6gsk:1J, 6gsl:16, 6gsl:1J, 6gzq:B1, 6gzx:B1, 6gzx:B2, 6gzz:B1, 6gzz:B2, 5ib7:16, 5ib7:1J, 5ib8:16, 5ib8:1J, 5ibb:16, 5ibb:1J, 5ndj:16, 5ndj:1J, 5ndk:16, 5ndk:1J, 6otr:RB, 6otr:YB, 6qnq:1J, 6qnr:16, 4v6f:AB, 4v6f:DB, 4v87:AB, 4v8b:BB, 4v8b:DB, 4v8c:AB, 4v8c:BB, 4v8d:BB, 4v8d:DB, 4v8e:AB, 4v8e:CB, 4v8f:AB, 4v8f:DB, 4v9a:BB, 4v9a:DB, 4v9b:BB, 4v9b:DB, 4w4g:RB, 4w4g:YB, 4wq1:16, 4wq1:1J, 4wqr:16, 4wqr:1J, 4wr6:16, 4wr6:1J, 4wra:16, 4wra:1J, 4wro:16, 4wsd:16, 4wsd:1J, 4wsm:16, 4wsm:1J, 4wt1:16, 4wt1:1J, 4wu1:16, 4wu1:1J, 4wzd:16, 4wzd:1J, 4wzo:16, 4wzo:1J, 4ypb:RB, 4ypb:YB, 4yzv:RB, 4yzv:YB, 4zsn:RB, 4zsn:YB)
    aaucccccgugcccauagcggcguggaaccacccguucccauuccgaaca
cggaagugaaacgcgccagcgccgaugguacugggcgggcgaccgccugg
gagaguaggucggugcggggga
..<<<<<<<<<<<....<<<<<<<<....<<<<<<...............
>>>..>>>...>>>>>>.>><<<.....<.<<<<<<<<....>>>>>>>>
...>...>>>.>>>>>>>>>>>
    		 ? GO:0003735 ... Q5SJE1 22437501
    3 4v87:DG
    (3.1)    		 BS02 >4v87:DB (identical to 7azo:5SA, 7azs:5SA, 5e7k:16, 5e7k:1J, 5e81:16, 5e81:1J, 5el4:16, 5el4:1J, 5el5:16, 5el5:1J, 5el6:16, 5el6:1J, 5el7:16, 5el7:1J, 6gsj:16, 6gsj:1J, 6gsk:16, 6gsk:1J, 6gsl:16, 6gsl:1J, 6gzq:B1, 6gzx:B1, 6gzx:B2, 6gzz:B1, 6gzz:B2, 5ib7:16, 5ib7:1J, 5ib8:16, 5ib8:1J, 5ibb:16, 5ibb:1J, 5ndj:16, 5ndj:1J, 5ndk:16, 5ndk:1J, 6otr:RB, 6otr:YB, 6qnq:1J, 6qnr:16, 4v6f:AB, 4v6f:DB, 4v87:AB, 4v8b:BB, 4v8b:DB, 4v8c:AB, 4v8c:BB, 4v8d:BB, 4v8d:DB, 4v8e:AB, 4v8e:CB, 4v8f:AB, 4v8f:DB, 4v9a:BB, 4v9a:DB, 4v9b:BB, 4v9b:DB, 4w4g:RB, 4w4g:YB, 4wq1:16, 4wq1:1J, 4wqr:16, 4wqr:1J, 4wr6:16, 4wr6:1J, 4wra:16, 4wra:1J, 4wro:16, 4wsd:16, 4wsd:1J, 4wsm:16, 4wsm:1J, 4wt1:16, 4wt1:1J, 4wu1:16, 4wu1:1J, 4wzd:16, 4wzd:1J, 4wzo:16, 4wzo:1J, 4ypb:RB, 4ypb:YB, 4yzv:RB, 4yzv:YB, 4zsn:RB, 4zsn:YB)
    aaucccccgugcccauagcggcguggaaccacccguucccauuccgaaca
cggaagugaaacgcgccagcgccgaugguacugggcgggcgaccgccugg
gagaguaggucggugcggggga
..<<<<<<<<<<<....<<<<<<<<....<<<<<<...............
>>>..>>>...>>>>>>.>><<<.....<.<<<<<<<<....>>>>>>>>
...>...>>>.>>>>>>>>>>>
    		 ? GO:0000049 ... Q5SHQ0 22437501
    4 4v87:DP
    (3.1)    		 BS04 >4v87:DB (identical to 7azo:5SA, 7azs:5SA, 5e7k:16, 5e7k:1J, 5e81:16, 5e81:1J, 5el4:16, 5el4:1J, 5el5:16, 5el5:1J, 5el6:16, 5el6:1J, 5el7:16, 5el7:1J, 6gsj:16, 6gsj:1J, 6gsk:16, 6gsk:1J, 6gsl:16, 6gsl:1J, 6gzq:B1, 6gzx:B1, 6gzx:B2, 6gzz:B1, 6gzz:B2, 5ib7:16, 5ib7:1J, 5ib8:16, 5ib8:1J, 5ibb:16, 5ibb:1J, 5ndj:16, 5ndj:1J, 5ndk:16, 5ndk:1J, 6otr:RB, 6otr:YB, 6qnq:1J, 6qnr:16, 4v6f:AB, 4v6f:DB, 4v87:AB, 4v8b:BB, 4v8b:DB, 4v8c:AB, 4v8c:BB, 4v8d:BB, 4v8d:DB, 4v8e:AB, 4v8e:CB, 4v8f:AB, 4v8f:DB, 4v9a:BB, 4v9a:DB, 4v9b:BB, 4v9b:DB, 4w4g:RB, 4w4g:YB, 4wq1:16, 4wq1:1J, 4wqr:16, 4wqr:1J, 4wr6:16, 4wr6:1J, 4wra:16, 4wra:1J, 4wro:16, 4wsd:16, 4wsd:1J, 4wsm:16, 4wsm:1J, 4wt1:16, 4wt1:1J, 4wu1:16, 4wu1:1J, 4wzd:16, 4wzd:1J, 4wzo:16, 4wzo:1J, 4ypb:RB, 4ypb:YB, 4yzv:RB, 4yzv:YB, 4zsn:RB, 4zsn:YB)
    aaucccccgugcccauagcggcguggaaccacccguucccauuccgaaca
cggaagugaaacgcgccagcgccgaugguacugggcgggcgaccgccugg
gagaguaggucggugcggggga
..<<<<<<<<<<<....<<<<<<<<....<<<<<<...............
>>>..>>>...>>>>>>.>><<<.....<.<<<<<<<<....>>>>>>>>
...>...>>>.>>>>>>>>>>>
    		 ? GO:0000049 ... P60489 22437501
    5 4v87:DQ
    (3.1)    		 BS02 >4v87:DB (identical to 7azo:5SA, 7azs:5SA, 5e7k:16, 5e7k:1J, 5e81:16, 5e81:1J, 5el4:16, 5el4:1J, 5el5:16, 5el5:1J, 5el6:16, 5el6:1J, 5el7:16, 5el7:1J, 6gsj:16, 6gsj:1J, 6gsk:16, 6gsk:1J, 6gsl:16, 6gsl:1J, 6gzq:B1, 6gzx:B1, 6gzx:B2, 6gzz:B1, 6gzz:B2, 5ib7:16, 5ib7:1J, 5ib8:16, 5ib8:1J, 5ibb:16, 5ibb:1J, 5ndj:16, 5ndj:1J, 5ndk:16, 5ndk:1J, 6otr:RB, 6otr:YB, 6qnq:1J, 6qnr:16, 4v6f:AB, 4v6f:DB, 4v87:AB, 4v8b:BB, 4v8b:DB, 4v8c:AB, 4v8c:BB, 4v8d:BB, 4v8d:DB, 4v8e:AB, 4v8e:CB, 4v8f:AB, 4v8f:DB, 4v9a:BB, 4v9a:DB, 4v9b:BB, 4v9b:DB, 4w4g:RB, 4w4g:YB, 4wq1:16, 4wq1:1J, 4wqr:16, 4wqr:1J, 4wr6:16, 4wr6:1J, 4wra:16, 4wra:1J, 4wro:16, 4wsd:16, 4wsd:1J, 4wsm:16, 4wsm:1J, 4wt1:16, 4wt1:1J, 4wu1:16, 4wu1:1J, 4wzd:16, 4wzd:1J, 4wzo:16, 4wzo:1J, 4ypb:RB, 4ypb:YB, 4yzv:RB, 4yzv:YB, 4zsn:RB, 4zsn:YB)
    aaucccccgugcccauagcggcguggaaccacccguucccauuccgaaca
cggaagugaaacgcgccagcgccgaugguacugggcgggcgaccgccugg
gagaguaggucggugcggggga
..<<<<<<<<<<<....<<<<<<<<....<<<<<<...............
>>>..>>>...>>>>>>.>><<<.....<.<<<<<<<<....>>>>>>>>
...>...>>>.>>>>>>>>>>>
    		 ? GO:0003735 ... Q5SHQ4 22437501
    6 4v87:DV
    (3.1)    		 BS02 >4v87:DB (identical to 7azo:5SA, 7azs:5SA, 5e7k:16, 5e7k:1J, 5e81:16, 5e81:1J, 5el4:16, 5el4:1J, 5el5:16, 5el5:1J, 5el6:16, 5el6:1J, 5el7:16, 5el7:1J, 6gsj:16, 6gsj:1J, 6gsk:16, 6gsk:1J, 6gsl:16, 6gsl:1J, 6gzq:B1, 6gzx:B1, 6gzx:B2, 6gzz:B1, 6gzz:B2, 5ib7:16, 5ib7:1J, 5ib8:16, 5ib8:1J, 5ibb:16, 5ibb:1J, 5ndj:16, 5ndj:1J, 5ndk:16, 5ndk:1J, 6otr:RB, 6otr:YB, 6qnq:1J, 6qnr:16, 4v6f:AB, 4v6f:DB, 4v87:AB, 4v8b:BB, 4v8b:DB, 4v8c:AB, 4v8c:BB, 4v8d:BB, 4v8d:DB, 4v8e:AB, 4v8e:CB, 4v8f:AB, 4v8f:DB, 4v9a:BB, 4v9a:DB, 4v9b:BB, 4v9b:DB, 4w4g:RB, 4w4g:YB, 4wq1:16, 4wq1:1J, 4wqr:16, 4wqr:1J, 4wr6:16, 4wr6:1J, 4wra:16, 4wra:1J, 4wro:16, 4wsd:16, 4wsd:1J, 4wsm:16, 4wsm:1J, 4wt1:16, 4wt1:1J, 4wu1:16, 4wu1:1J, 4wzd:16, 4wzd:1J, 4wzo:16, 4wzo:1J, 4ypb:RB, 4ypb:YB, 4yzv:RB, 4yzv:YB, 4zsn:RB, 4zsn:YB)
    aaucccccgugcccauagcggcguggaaccacccguucccauuccgaaca
cggaagugaaacgcgccagcgccgaugguacugggcgggcgaccgccugg
gagaguaggucggugcggggga
..<<<<<<<<<<<....<<<<<<<<....<<<<<<...............
>>>..>>>...>>>>>>.>><<<.....<.<<<<<<<<....>>>>>>>>
...>...>>>.>>>>>>>>>>>
    		 ? GO:0003735 ... Q5SHZ1 22437501
    7 4v87:DX
    (3.1)    		 BS02 >4v87:DB (identical to 7azo:5SA, 7azs:5SA, 5e7k:16, 5e7k:1J, 5e81:16, 5e81:1J, 5el4:16, 5el4:1J, 5el5:16, 5el5:1J, 5el6:16, 5el6:1J, 5el7:16, 5el7:1J, 6gsj:16, 6gsj:1J, 6gsk:16, 6gsk:1J, 6gsl:16, 6gsl:1J, 6gzq:B1, 6gzx:B1, 6gzx:B2, 6gzz:B1, 6gzz:B2, 5ib7:16, 5ib7:1J, 5ib8:16, 5ib8:1J, 5ibb:16, 5ibb:1J, 5ndj:16, 5ndj:1J, 5ndk:16, 5ndk:1J, 6otr:RB, 6otr:YB, 6qnq:1J, 6qnr:16, 4v6f:AB, 4v6f:DB, 4v87:AB, 4v8b:BB, 4v8b:DB, 4v8c:AB, 4v8c:BB, 4v8d:BB, 4v8d:DB, 4v8e:AB, 4v8e:CB, 4v8f:AB, 4v8f:DB, 4v9a:BB, 4v9a:DB, 4v9b:BB, 4v9b:DB, 4w4g:RB, 4w4g:YB, 4wq1:16, 4wq1:1J, 4wqr:16, 4wqr:1J, 4wr6:16, 4wr6:1J, 4wra:16, 4wra:1J, 4wro:16, 4wsd:16, 4wsd:1J, 4wsm:16, 4wsm:1J, 4wt1:16, 4wt1:1J, 4wu1:16, 4wu1:1J, 4wzd:16, 4wzd:1J, 4wzo:16, 4wzo:1J, 4ypb:RB, 4ypb:YB, 4yzv:RB, 4yzv:YB, 4zsn:RB, 4zsn:YB)
    aaucccccgugcccauagcggcguggaaccacccguucccauuccgaaca
cggaagugaaacgcgccagcgccgaugguacugggcgggcgaccgccugg
gagaguaggucggugcggggga
..<<<<<<<<<<<....<<<<<<<<....<<<<<<...............
>>>..>>>...>>>>>>.>><<<.....<.<<<<<<<<....>>>>>>>>
...>...>>>.>>>>>>>>>>>
    		 ? GO:0003735 ... Q5SHQ6 22437501
    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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