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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 4v8y:A7
    (4.3)    		 BS03 >4v8y:CW (identical to 9b00:1w, 9b00:1y, 6cfj:1w, 6cfj:1y, 8cvj:1w, 8cvj:1y, 8cvk:1w, 8cvk:1y, 8cvl:1w, 8cvl:1y, 5doy:1y, 8ekc:w, 8ev6:1w, 8ev6:1y, 8ev7:1w, 8ev7:1y, 8fzd:y, 8fze:y, 8fzf:x, 8fzg:y, 8fzh:y, 8g29:1w, 8g29:1y, 8g2a:1w, 8g2a:1y, 8g2b:1y, 8g2c:1w, 8g2c:1y, 8g2d:1w, 8g2d:1y, 6hcj:q3, 6hcq:q3, 5j4b:1w, 5j4b:1y, 5j4c:1w, 5j4c:1y, 3j7r:S5, 5j8b:w, 5j8b:y, 6nd5:1w, 6nd5:1y, 7rq8:1y, 7rq9:1y, 8syl:w, 6ucq:1x, 6ucq:1y, 6ucq:2x, 8ud6:1y, 8ud7:1y, 8ud8:1w, 8ud8:1y, 6uo1:1y, 8uu5:x, 8uu7:y, 8uvr:1w, 8uvr:1y, 8uvs:1w, 8uvs:1y, 4v9h:AV, 5vp2:1y, 8vtu:1w, 8vtu:1y, 8vtv:1w, 8vtv:1y, 8vtx:1w, 8vtx:1y, 1vy4:AW, 1vy4:AY, 1vy5:AW, 1vy5:AY, 4w2e:x, 4w2f:AW, 4w2f:AY, 4w2g:AW, 4w2g:AY, 4w2i:AW, 4w2i:AY, 5w4k:1w, 5w4k:1y, 5wis:1w, 5wis:1y, 5wit:1w, 5wit:1y, 4wpo:BW, 4wpo:BY, 6xhv:1w, 6xhv:1y, 6xhw:1w, 6xhw:1y, 6xhy:1w, 6xhy:1y, 4y4p:1w, 4y4p:1y, 4z3s:1w, 4z3s:1y)
    gcccggauagcucaggguagagcaggggauugaaaauccccguguccuug
guucgauuccgaguccgggcacca
<<<<<<<..<<<<......>>>><<<<<<<.....>>>>>>.>...<<<<
<.......>>>>>>>>>>>>....
    		 ? GO:0000723 ... P39015 24200810
    2 4v8y:Bo
    (4.3)    		 BS02 >4v8y:CW (identical to 9b00:1w, 9b00:1y, 6cfj:1w, 6cfj:1y, 8cvj:1w, 8cvj:1y, 8cvk:1w, 8cvk:1y, 8cvl:1w, 8cvl:1y, 5doy:1y, 8ekc:w, 8ev6:1w, 8ev6:1y, 8ev7:1w, 8ev7:1y, 8fzd:y, 8fze:y, 8fzf:x, 8fzg:y, 8fzh:y, 8g29:1w, 8g29:1y, 8g2a:1w, 8g2a:1y, 8g2b:1y, 8g2c:1w, 8g2c:1y, 8g2d:1w, 8g2d:1y, 6hcj:q3, 6hcq:q3, 5j4b:1w, 5j4b:1y, 5j4c:1w, 5j4c:1y, 3j7r:S5, 5j8b:w, 5j8b:y, 6nd5:1w, 6nd5:1y, 7rq8:1y, 7rq9:1y, 8syl:w, 6ucq:1x, 6ucq:1y, 6ucq:2x, 8ud6:1y, 8ud7:1y, 8ud8:1w, 8ud8:1y, 6uo1:1y, 8uu5:x, 8uu7:y, 8uvr:1w, 8uvr:1y, 8uvs:1w, 8uvs:1y, 4v9h:AV, 5vp2:1y, 8vtu:1w, 8vtu:1y, 8vtv:1w, 8vtv:1y, 8vtx:1w, 8vtx:1y, 1vy4:AW, 1vy4:AY, 1vy5:AW, 1vy5:AY, 4w2e:x, 4w2f:AW, 4w2f:AY, 4w2g:AW, 4w2g:AY, 4w2i:AW, 4w2i:AY, 5w4k:1w, 5w4k:1y, 5wis:1w, 5wis:1y, 5wit:1w, 5wit:1y, 4wpo:BW, 4wpo:BY, 6xhv:1w, 6xhv:1y, 6xhw:1w, 6xhw:1y, 6xhy:1w, 6xhy:1y, 4y4p:1w, 4y4p:1y, 4z3s:1w, 4z3s:1y)
    gcccggauagcucaggguagagcaggggauugaaaauccccguguccuug
guucgauuccgaguccgggcacca
<<<<<<<..<<<<......>>>><<<<<<<.....>>>>>>.>...<<<<
<.......>>>>>>>>>>>>....
    		 ? GO:0002181 ... P0CX27 24200810
    3 4v8y:By
    (4.3)    		 BS02 >4v8y:CW (identical to 9b00:1w, 9b00:1y, 6cfj:1w, 6cfj:1y, 8cvj:1w, 8cvj:1y, 8cvk:1w, 8cvk:1y, 8cvl:1w, 8cvl:1y, 5doy:1y, 8ekc:w, 8ev6:1w, 8ev6:1y, 8ev7:1w, 8ev7:1y, 8fzd:y, 8fze:y, 8fzf:x, 8fzg:y, 8fzh:y, 8g29:1w, 8g29:1y, 8g2a:1w, 8g2a:1y, 8g2b:1y, 8g2c:1w, 8g2c:1y, 8g2d:1w, 8g2d:1y, 6hcj:q3, 6hcq:q3, 5j4b:1w, 5j4b:1y, 5j4c:1w, 5j4c:1y, 3j7r:S5, 5j8b:w, 5j8b:y, 6nd5:1w, 6nd5:1y, 7rq8:1y, 7rq9:1y, 8syl:w, 6ucq:1x, 6ucq:1y, 6ucq:2x, 8ud6:1y, 8ud7:1y, 8ud8:1w, 8ud8:1y, 6uo1:1y, 8uu5:x, 8uu7:y, 8uvr:1w, 8uvr:1y, 8uvs:1w, 8uvs:1y, 4v9h:AV, 5vp2:1y, 8vtu:1w, 8vtu:1y, 8vtv:1w, 8vtv:1y, 8vtx:1w, 8vtx:1y, 1vy4:AW, 1vy4:AY, 1vy5:AW, 1vy5:AY, 4w2e:x, 4w2f:AW, 4w2f:AY, 4w2g:AW, 4w2g:AY, 4w2i:AW, 4w2i:AY, 5w4k:1w, 5w4k:1y, 5wis:1w, 5wis:1y, 5wit:1w, 5wit:1y, 4wpo:BW, 4wpo:BY, 6xhv:1w, 6xhv:1y, 6xhw:1w, 6xhw:1y, 6xhy:1w, 6xhy:1y, 4y4p:1w, 4y4p:1y, 4z3s:1w, 4z3s:1y)
    gcccggauagcucaggguagagcaggggauugaaaauccccguguccuug
guucgauuccgaguccgggcacca
<<<<<<<..<<<<......>>>><<<<<<<.....>>>>>>.>...<<<<
<.......>>>>>>>>>>>>....
    		 N/A GO:0003723 ... N/A 24200810
    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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