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BioLiP
Download all results in tab-seperated text for 6 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 4v9d:DF
    (3.0)    		 BS03 >4v9d:DB (identical to 7abz:3, 9ax8:X, 8b7y:J, 6by1:CB, 6by1:DB, 7d6z:B, 7d80:a, 6i0y:B, 6i7v:CB, 5iqr:3, 5it8:CB, 5j5b:CB, 3j7z:B, 5j7l:CB, 5j88:CB, 5j8a:CB, 5j91:CB, 3jbu:a, 3jcd:B, 3jce:B, 3jcj:0, 5jc9:CB, 5jte:BB, 5ju8:BB, 6lkq:u, 7lvk:J, 5nwy:O, 6o9k:X, 6pj6:J, 8qbt:B, 6qdw:a, 7qg8:O, 7qgh:O, 7qgn:O, 7qgr:O, 7s1g:J, 7s1h:J, 7s1i:J, 7s1j:J, 7s1k:J, 4u1u:DB, 4u1v:DB, 4u20:DB, 4u24:DB, 4u25:DB, 4u26:DB, 4u27:DB, 5u4i:B, 6u48:CB, 7uph:J, 4uy8:B, 4v6c:BB, 4v6d:BB, 4v6e:BB, 4v7b:BB, 4v7s:BB, 4v7t:BB, 4v7u:BB, 4v7v:BB, 4v85:BB, 4v89:BB, 4v9c:BB, 4v9o:AB, 4v9o:CB, 4v9o:EB, 4v9o:GB, 4v9p:AB, 4v9p:CB, 4v9p:EB, 4v9p:GB, 8w51:B, 4wf1:DB, 4woi:CB, 4www:RB, 4ybb:CB, 7yla:J, 6ys3:a, 7z20:a, 7zod:a, 7zp8:a, 7zq5:a, 7zq6:a)
    gccuggcggccguagcgcgguggucccaccugaccccaugccgaacucag
aagugaaacgccguagcgccgaugguaguguggggucuccccaugcgaga
guagggaacugccaggca
<<<<<<<<<.....<<<<<<<<....<<<<<<<.............>>>>
..>>>...>>>>>>.>>.<<.......<<<<<<<<...>>>>>>>>....
...>>...>>>>>>>>>.
    		 ? GO:0000027 ... P62399 21596992
    2 4v9d:DM
    (3.0)    		 BS02 >4v9d:DB (identical to 7abz:3, 9ax8:X, 8b7y:J, 6by1:CB, 6by1:DB, 7d6z:B, 7d80:a, 6i0y:B, 6i7v:CB, 5iqr:3, 5it8:CB, 5j5b:CB, 3j7z:B, 5j7l:CB, 5j88:CB, 5j8a:CB, 5j91:CB, 3jbu:a, 3jcd:B, 3jce:B, 3jcj:0, 5jc9:CB, 5jte:BB, 5ju8:BB, 6lkq:u, 7lvk:J, 5nwy:O, 6o9k:X, 6pj6:J, 8qbt:B, 6qdw:a, 7qg8:O, 7qgh:O, 7qgn:O, 7qgr:O, 7s1g:J, 7s1h:J, 7s1i:J, 7s1j:J, 7s1k:J, 4u1u:DB, 4u1v:DB, 4u20:DB, 4u24:DB, 4u25:DB, 4u26:DB, 4u27:DB, 5u4i:B, 6u48:CB, 7uph:J, 4uy8:B, 4v6c:BB, 4v6d:BB, 4v6e:BB, 4v7b:BB, 4v7s:BB, 4v7t:BB, 4v7u:BB, 4v7v:BB, 4v85:BB, 4v89:BB, 4v9c:BB, 4v9o:AB, 4v9o:CB, 4v9o:EB, 4v9o:GB, 4v9p:AB, 4v9p:CB, 4v9p:EB, 4v9p:GB, 8w51:B, 4wf1:DB, 4woi:CB, 4www:RB, 4ybb:CB, 7yla:J, 6ys3:a, 7z20:a, 7zod:a, 7zp8:a, 7zq5:a, 7zq6:a)
    gccuggcggccguagcgcgguggucccaccugaccccaugccgaacucag
aagugaaacgccguagcgccgaugguaguguggggucuccccaugcgaga
guagggaacugccaggca
<<<<<<<<<.....<<<<<<<<....<<<<<<<.............>>>>
..>>>...>>>>>>.>>.<<.......<<<<<<<<...>>>>>>>>....
...>>...>>>>>>>>>.
    		 ? GO:0000027 ... P0ADY7 21596992
    3 4v9d:DO
    (3.0)    		 BS02 >4v9d:DB (identical to 7abz:3, 9ax8:X, 8b7y:J, 6by1:CB, 6by1:DB, 7d6z:B, 7d80:a, 6i0y:B, 6i7v:CB, 5iqr:3, 5it8:CB, 5j5b:CB, 3j7z:B, 5j7l:CB, 5j88:CB, 5j8a:CB, 5j91:CB, 3jbu:a, 3jcd:B, 3jce:B, 3jcj:0, 5jc9:CB, 5jte:BB, 5ju8:BB, 6lkq:u, 7lvk:J, 5nwy:O, 6o9k:X, 6pj6:J, 8qbt:B, 6qdw:a, 7qg8:O, 7qgh:O, 7qgn:O, 7qgr:O, 7s1g:J, 7s1h:J, 7s1i:J, 7s1j:J, 7s1k:J, 4u1u:DB, 4u1v:DB, 4u20:DB, 4u24:DB, 4u25:DB, 4u26:DB, 4u27:DB, 5u4i:B, 6u48:CB, 7uph:J, 4uy8:B, 4v6c:BB, 4v6d:BB, 4v6e:BB, 4v7b:BB, 4v7s:BB, 4v7t:BB, 4v7u:BB, 4v7v:BB, 4v85:BB, 4v89:BB, 4v9c:BB, 4v9o:AB, 4v9o:CB, 4v9o:EB, 4v9o:GB, 4v9p:AB, 4v9p:CB, 4v9p:EB, 4v9p:GB, 8w51:B, 4wf1:DB, 4woi:CB, 4www:RB, 4ybb:CB, 7yla:J, 6ys3:a, 7z20:a, 7zod:a, 7zp8:a, 7zq5:a, 7zq6:a)
    gccuggcggccguagcgcgguggucccaccugaccccaugccgaacucag
aagugaaacgccguagcgccgaugguaguguggggucuccccaugcgaga
guagggaacugccaggca
<<<<<<<<<.....<<<<<<<<....<<<<<<<.............>>>>
..>>>...>>>>>>.>>.<<.......<<<<<<<<...>>>>>>>>....
...>>...>>>>>>>>>.
    		 ? GO:0002181 ... P0C018 21596992
    4 4v9d:DV
    (3.0)    		 BS02 >4v9d:DB (identical to 7abz:3, 9ax8:X, 8b7y:J, 6by1:CB, 6by1:DB, 7d6z:B, 7d80:a, 6i0y:B, 6i7v:CB, 5iqr:3, 5it8:CB, 5j5b:CB, 3j7z:B, 5j7l:CB, 5j88:CB, 5j8a:CB, 5j91:CB, 3jbu:a, 3jcd:B, 3jce:B, 3jcj:0, 5jc9:CB, 5jte:BB, 5ju8:BB, 6lkq:u, 7lvk:J, 5nwy:O, 6o9k:X, 6pj6:J, 8qbt:B, 6qdw:a, 7qg8:O, 7qgh:O, 7qgn:O, 7qgr:O, 7s1g:J, 7s1h:J, 7s1i:J, 7s1j:J, 7s1k:J, 4u1u:DB, 4u1v:DB, 4u20:DB, 4u24:DB, 4u25:DB, 4u26:DB, 4u27:DB, 5u4i:B, 6u48:CB, 7uph:J, 4uy8:B, 4v6c:BB, 4v6d:BB, 4v6e:BB, 4v7b:BB, 4v7s:BB, 4v7t:BB, 4v7u:BB, 4v7v:BB, 4v85:BB, 4v89:BB, 4v9c:BB, 4v9o:AB, 4v9o:CB, 4v9o:EB, 4v9o:GB, 4v9p:AB, 4v9p:CB, 4v9p:EB, 4v9p:GB, 8w51:B, 4wf1:DB, 4woi:CB, 4www:RB, 4ybb:CB, 7yla:J, 6ys3:a, 7z20:a, 7zod:a, 7zp8:a, 7zq5:a, 7zq6:a)
    gccuggcggccguagcgcgguggucccaccugaccccaugccgaacucag
aagugaaacgccguagcgccgaugguaguguggggucuccccaugcgaga
guagggaacugccaggca
<<<<<<<<<.....<<<<<<<<....<<<<<<<.............>>>>
..>>>...>>>>>>.>>.<<.......<<<<<<<<...>>>>>>>>....
...>>...>>>>>>>>>.
    		 ? GO:0000027 ... P68919 21596992
    5 4v9d:DW
    (3.0)    		 BS02 >4v9d:DB (identical to 7abz:3, 9ax8:X, 8b7y:J, 6by1:CB, 6by1:DB, 7d6z:B, 7d80:a, 6i0y:B, 6i7v:CB, 5iqr:3, 5it8:CB, 5j5b:CB, 3j7z:B, 5j7l:CB, 5j88:CB, 5j8a:CB, 5j91:CB, 3jbu:a, 3jcd:B, 3jce:B, 3jcj:0, 5jc9:CB, 5jte:BB, 5ju8:BB, 6lkq:u, 7lvk:J, 5nwy:O, 6o9k:X, 6pj6:J, 8qbt:B, 6qdw:a, 7qg8:O, 7qgh:O, 7qgn:O, 7qgr:O, 7s1g:J, 7s1h:J, 7s1i:J, 7s1j:J, 7s1k:J, 4u1u:DB, 4u1v:DB, 4u20:DB, 4u24:DB, 4u25:DB, 4u26:DB, 4u27:DB, 5u4i:B, 6u48:CB, 7uph:J, 4uy8:B, 4v6c:BB, 4v6d:BB, 4v6e:BB, 4v7b:BB, 4v7s:BB, 4v7t:BB, 4v7u:BB, 4v7v:BB, 4v85:BB, 4v89:BB, 4v9c:BB, 4v9o:AB, 4v9o:CB, 4v9o:EB, 4v9o:GB, 4v9p:AB, 4v9p:CB, 4v9p:EB, 4v9p:GB, 8w51:B, 4wf1:DB, 4woi:CB, 4www:RB, 4ybb:CB, 7yla:J, 6ys3:a, 7z20:a, 7zod:a, 7zp8:a, 7zq5:a, 7zq6:a)
    gccuggcggccguagcgcgguggucccaccugaccccaugccgaacucag
aagugaaacgccguagcgccgaugguaguguggggucuccccaugcgaga
guagggaacugccaggca
<<<<<<<<<.....<<<<<<<<....<<<<<<<.............>>>>
..>>>...>>>>>>.>>.<<.......<<<<<<<<...>>>>>>>>....
...>>...>>>>>>>>>.
    		 ? GO:0003735 ... P0A7L8 21596992
    6 4v9d:DZ
    (3.0)    		 BS02 >4v9d:DB (identical to 7abz:3, 9ax8:X, 8b7y:J, 6by1:CB, 6by1:DB, 7d6z:B, 7d80:a, 6i0y:B, 6i7v:CB, 5iqr:3, 5it8:CB, 5j5b:CB, 3j7z:B, 5j7l:CB, 5j88:CB, 5j8a:CB, 5j91:CB, 3jbu:a, 3jcd:B, 3jce:B, 3jcj:0, 5jc9:CB, 5jte:BB, 5ju8:BB, 6lkq:u, 7lvk:J, 5nwy:O, 6o9k:X, 6pj6:J, 8qbt:B, 6qdw:a, 7qg8:O, 7qgh:O, 7qgn:O, 7qgr:O, 7s1g:J, 7s1h:J, 7s1i:J, 7s1j:J, 7s1k:J, 4u1u:DB, 4u1v:DB, 4u20:DB, 4u24:DB, 4u25:DB, 4u26:DB, 4u27:DB, 5u4i:B, 6u48:CB, 7uph:J, 4uy8:B, 4v6c:BB, 4v6d:BB, 4v6e:BB, 4v7b:BB, 4v7s:BB, 4v7t:BB, 4v7u:BB, 4v7v:BB, 4v85:BB, 4v89:BB, 4v9c:BB, 4v9o:AB, 4v9o:CB, 4v9o:EB, 4v9o:GB, 4v9p:AB, 4v9p:CB, 4v9p:EB, 4v9p:GB, 8w51:B, 4wf1:DB, 4woi:CB, 4www:RB, 4ybb:CB, 7yla:J, 6ys3:a, 7z20:a, 7zod:a, 7zp8:a, 7zq5:a, 7zq6:a)
    gccuggcggccguagcgcgguggucccaccugaccccaugccgaacucag
aagugaaacgccguagcgccgaugguaguguggggucuccccaugcgaga
guagggaacugccaggca
<<<<<<<<<.....<<<<<<<<....<<<<<<<.............>>>>
..>>>...>>>>>>.>>.<<.......<<<<<<<<...>>>>>>>>....
...>>...>>>>>>>>>.
    		 ? GO:0000027 ... P0AG51 21596992
    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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