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BioLiP
Download all results in tab-seperated text for 13 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 8pv3:CH
    (2.8)    		 BS02 >8pv3:C2 (identical to 7olc:4, 7old:4, 8oo0:4, 8pv1:C2, 8pv4:C2, 8pv6:C2, 8pv7:C2, 8pvk:C2, 8pvl:C2, 7z3n:4, 7z3o:4)
    aaacuuucaacaacggaucucuugguucuggcaucgaugaagaacgcagc
gaaaugcgauaaguaaugugaauugcagaauuccgugaaucaucgaaucu
uugaacgcacauugcgcccgccgguauuccggcgggcaugccuguucgag
cgucau
.........................................<<<<<<<<<
....>>>>.....<.<<<......>>..............>>>..>...>
>>....<<.....>><<<<<<<<<....>>>>>>>>>.............
......
    		 ? GO:0003723 ... G0S8F1 37921038
    2 8pv3:CJ
    (2.8)    		 BS02 >8pv3:C2 (identical to 7olc:4, 7old:4, 8oo0:4, 8pv1:C2, 8pv4:C2, 8pv6:C2, 8pv7:C2, 8pvk:C2, 8pvl:C2, 7z3n:4, 7z3o:4)
    aaacuuucaacaacggaucucuugguucuggcaucgaugaagaacgcagc
gaaaugcgauaaguaaugugaauugcagaauuccgugaaucaucgaaucu
uugaacgcacauugcgcccgccgguauuccggcgggcaugccuguucgag
cgucau
.........................................<<<<<<<<<
....>>>>.....<.<<<......>>..............>>>..>...>
>>....<<.....>><<<<<<<<<....>>>>>>>>>.............
......
    		 ? GO:0000463 ... G0SHX6 37921038
    3 8pv3:Ce
    (2.8)    		 BS02 >8pv3:C2 (identical to 7olc:4, 7old:4, 8oo0:4, 8pv1:C2, 8pv4:C2, 8pv6:C2, 8pv7:C2, 8pvk:C2, 8pvl:C2, 7z3n:4, 7z3o:4)
    aaacuuucaacaacggaucucuugguucuggcaucgaugaagaacgcagc
gaaaugcgauaaguaaugugaauugcagaauuccgugaaucaucgaaucu
uugaacgcacauugcgcccgccgguauuccggcgggcaugccuguucgag
cgucau
.........................................<<<<<<<<<
....>>>>.....<.<<<......>>..............>>>..>...>
>>....<<.....>><<<<<<<<<....>>>>>>>>>.............
......
    		 ? GO:0000027 ... G0S495 37921038
    4 8pv3:LC
    (2.8)    		 BS02 >8pv3:C2 (identical to 7olc:4, 7old:4, 8oo0:4, 8pv1:C2, 8pv4:C2, 8pv6:C2, 8pv7:C2, 8pvk:C2, 8pvl:C2, 7z3n:4, 7z3o:4)
    aaacuuucaacaacggaucucuugguucuggcaucgaugaagaacgcagc
gaaaugcgauaaguaaugugaauugcagaauuccgugaaucaucgaaucu
uugaacgcacauugcgcccgccgguauuccggcgggcaugccuguucgag
cgucau
.........................................<<<<<<<<<
....>>>>.....<.<<<......>>..............>>>..>...>
>>....<<.....>><<<<<<<<<....>>>>>>>>>.............
......
    		 ? GO:0003723 ... G0SFC3 37921038
    5 8pv3:LG
    (2.8)    		 BS02 >8pv3:C2 (identical to 7olc:4, 7old:4, 8oo0:4, 8pv1:C2, 8pv4:C2, 8pv6:C2, 8pv7:C2, 8pvk:C2, 8pvl:C2, 7z3n:4, 7z3o:4)
    aaacuuucaacaacggaucucuugguucuggcaucgaugaagaacgcagc
gaaaugcgauaaguaaugugaauugcagaauuccgugaaucaucgaaucu
uugaacgcacauugcgcccgccgguauuccggcgggcaugccuguucgag
cgucau
.........................................<<<<<<<<<
....>>>>.....<.<<<......>>..............>>>..>...>
>>....<<.....>><<<<<<<<<....>>>>>>>>>.............
......
    		 ? GO:0000470 ... G0SAJ9 37921038
    6 8pv3:LL
    (2.8)    		 BS02 >8pv3:C2 (identical to 7olc:4, 7old:4, 8oo0:4, 8pv1:C2, 8pv4:C2, 8pv6:C2, 8pv7:C2, 8pvk:C2, 8pvl:C2, 7z3n:4, 7z3o:4)
    aaacuuucaacaacggaucucuugguucuggcaucgaugaagaacgcagc
gaaaugcgauaaguaaugugaauugcagaauuccgugaaucaucgaaucu
uugaacgcacauugcgcccgccgguauuccggcgggcaugccuguucgag
cgucau
.........................................<<<<<<<<<
....>>>>.....<.<<<......>>..............>>>..>...>
>>....<<.....>><<<<<<<<<....>>>>>>>>>.............
......
    		 ? GO:0003723 ... G0S992 37921038
    7 8pv3:LN
    (2.8)    		 BS02 >8pv3:C2 (identical to 7olc:4, 7old:4, 8oo0:4, 8pv1:C2, 8pv4:C2, 8pv6:C2, 8pv7:C2, 8pvk:C2, 8pvl:C2, 7z3n:4, 7z3o:4)
    aaacuuucaacaacggaucucuugguucuggcaucgaugaagaacgcagc
gaaaugcgauaaguaaugugaauugcagaauuccgugaaucaucgaaucu
uugaacgcacauugcgcccgccgguauuccggcgggcaugccuguucgag
cgucau
.........................................<<<<<<<<<
....>>>>.....<.<<<......>>..............>>>..>...>
>>....<<.....>><<<<<<<<<....>>>>>>>>>.............
......
    		 ? GO:0002181 ... G0RZ88 37921038
    8 8pv3:LP
    (2.8)    		 BS02 >8pv3:C2 (identical to 7olc:4, 7old:4, 8oo0:4, 8pv1:C2, 8pv4:C2, 8pv6:C2, 8pv7:C2, 8pvk:C2, 8pvl:C2, 7z3n:4, 7z3o:4)
    aaacuuucaacaacggaucucuugguucuggcaucgaugaagaacgcagc
gaaaugcgauaaguaaugugaauugcagaauuccgugaaucaucgaaucu
uugaacgcacauugcgcccgccgguauuccggcgggcaugccuguucgag
cgucau
.........................................<<<<<<<<<
....>>>>.....<.<<<......>>..............>>>..>...>
>>....<<.....>><<<<<<<<<....>>>>>>>>>.............
......
    		 ? GO:0002181 ... G0SGY1 37921038
    9 8pv3:LX
    (2.8)    		 BS02 >8pv3:C2 (identical to 7olc:4, 7old:4, 8oo0:4, 8pv1:C2, 8pv4:C2, 8pv6:C2, 8pv7:C2, 8pvk:C2, 8pvl:C2, 7z3n:4, 7z3o:4)
    aaacuuucaacaacggaucucuugguucuggcaucgaugaagaacgcagc
gaaaugcgauaaguaaugugaauugcagaauuccgugaaucaucgaaucu
uugaacgcacauugcgcccgccgguauuccggcgggcaugccuguucgag
cgucau
.........................................<<<<<<<<<
....>>>>.....<.<<<......>>..............>>>..>...>
>>....<<.....>><<<<<<<<<....>>>>>>>>>.............
......
    		 ? GO:0000027 ... G0S507 37921038
    10 8pv3:LY
    (2.8)    		 BS02 >8pv3:C2 (identical to 7olc:4, 7old:4, 8oo0:4, 8pv1:C2, 8pv4:C2, 8pv6:C2, 8pv7:C2, 8pvk:C2, 8pvl:C2, 7z3n:4, 7z3o:4)
    aaacuuucaacaacggaucucuugguucuggcaucgaugaagaacgcagc
gaaaugcgauaaguaaugugaauugcagaauuccgugaaucaucgaaucu
uugaacgcacauugcgcccgccgguauuccggcgggcaugccuguucgag
cgucau
.........................................<<<<<<<<<
....>>>>.....<.<<<......>>..............>>>..>...>
>>....<<.....>><<<<<<<<<....>>>>>>>>>.............
......
    		 ? GO:0002181 ... G0RYN9 37921038
    11 8pv3:Lh
    (2.8)    		 BS02 >8pv3:C2 (identical to 7olc:4, 7old:4, 8oo0:4, 8pv1:C2, 8pv4:C2, 8pv6:C2, 8pv7:C2, 8pvk:C2, 8pvl:C2, 7z3n:4, 7z3o:4)
    aaacuuucaacaacggaucucuugguucuggcaucgaugaagaacgcagc
gaaaugcgauaaguaaugugaauugcagaauuccgugaaucaucgaaucu
uugaacgcacauugcgcccgccgguauuccggcgggcaugccuguucgag
cgucau
.........................................<<<<<<<<<
....>>>>.....<.<<<......>>..............>>>..>...>
>>....<<.....>><<<<<<<<<....>>>>>>>>>.............
......
    		 2.4.99.18 GO:0003735 ... G0S0D7 37921038
    12 8pv3:Lj
    (2.8)    		 BS02 >8pv3:C2 (identical to 7olc:4, 7old:4, 8oo0:4, 8pv1:C2, 8pv4:C2, 8pv6:C2, 8pv7:C2, 8pvk:C2, 8pvl:C2, 7z3n:4, 7z3o:4)
    aaacuuucaacaacggaucucuugguucuggcaucgaugaagaacgcagc
gaaaugcgauaaguaaugugaauugcagaauuccgugaaucaucgaaucu
uugaacgcacauugcgcccgccgguauuccggcgggcaugccuguucgag
cgucau
.........................................<<<<<<<<<
....>>>>.....<.<<<......>>..............>>>..>...>
>>....<<.....>><<<<<<<<<....>>>>>>>>>.............
......
    		 ? GO:0003723 ... G0S101 37921038
    13 8pv3:Ll
    (2.8)    		 BS02 >8pv3:C2 (identical to 7olc:4, 7old:4, 8oo0:4, 8pv1:C2, 8pv4:C2, 8pv6:C2, 8pv7:C2, 8pvk:C2, 8pvl:C2, 7z3n:4, 7z3o:4)
    aaacuuucaacaacggaucucuugguucuggcaucgaugaagaacgcagc
gaaaugcgauaaguaaugugaauugcagaauuccgugaaucaucgaaucu
uugaacgcacauugcgcccgccgguauuccggcgggcaugccuguucgag
cgucau
.........................................<<<<<<<<<
....>>>>.....<.<<<......>>..............>>>..>...>
>>....<<.....>><<<<<<<<<....>>>>>>>>>.............
......
    		 ? GO:0003735 ... Q2H9R2 37921038
    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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