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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 6gxo:F
    (3.9)    		 BS02 >6gxo:B (identical to 5afi:B, 6bu8:02, 7cpj:B, 6dnc:C, 6enf:B, 6enj:B, 6enu:B, 6gwt:B, 6gxm:B, 6gxn:B, 6gxp:B, 6h4n:B, 6h58:B, 6h58:BB, 3j9y:B, 7jss:2, 7jsw:2, 7jsz:2, 7jt1:2, 7jt2:2, 7jt3:2, 7k50:2, 7k51:2, 7k52:2, 7k53:2, 7k54:2, 7k55:2, 5kps:29, 5kpv:28, 5kpw:28, 5kpx:28, 5l3p:B, 7lv0:2, 5mgp:B, 5np6:Z, 5o2r:B, 6ofx:2, 6og7:2, 6ogf:2, 6ogg:2, 6ogi:2, 8pkl:8, 8rpy:B, 8rpz:B, 8rq0:B, 8rq2:B, 7ss9:2, 7ssd:2, 7ssl:2, 7ssn:2, 7sso:2, 7ssw:2, 7st2:2, 7st6:2, 7st7:2, 7tos:5S, 5uyk:02, 5uyl:02, 5uym:02, 5uyn:02, 5uyp:02, 5uyq:02, 8vs9:5S, 8vsa:5S, 6vwl:3, 6vwm:3, 6vwn:3, 5wdt:B, 6wd0:2, 6wd1:2, 6wd2:2, 6wd3:2, 6wd4:2, 6wd5:2, 6wd6:2, 6wd7:2, 6wd8:2, 6wd9:2, 6wda:2, 6wdb:2, 6wdc:2, 6wdd:2, 6wde:2, 6wdf:2, 6wdg:2, 6wdh:2, 6wdi:2, 6wdj:2, 6wdk:2, 6wdl:2, 6wdm:2, 5we4:B, 5we6:B, 5wf0:B, 5wfk:B, 5wfs:B, 6y69:B)
    ugccuggcggccguagcgcgguggucccaccugaccccaugccgaacuca
gaagugaaacgccguagcgccgaugguaguguggggucuccccaugcgag
aguagggaacugccaggcaa
<<<<<<<<<<.....<<<<<<<<....<<<<<<<.............>>>
>..>>>...>>>>>>.>>.<<.......<<<<<<<<...>>>>>>>>...
....>>...>>>>>>>>>>.
    		 ? GO:0000027 ... P62399 30076302
    2 6gxo:M
    (3.9)    		 BS02 >6gxo:B (identical to 5afi:B, 6bu8:02, 7cpj:B, 6dnc:C, 6enf:B, 6enj:B, 6enu:B, 6gwt:B, 6gxm:B, 6gxn:B, 6gxp:B, 6h4n:B, 6h58:B, 6h58:BB, 3j9y:B, 7jss:2, 7jsw:2, 7jsz:2, 7jt1:2, 7jt2:2, 7jt3:2, 7k50:2, 7k51:2, 7k52:2, 7k53:2, 7k54:2, 7k55:2, 5kps:29, 5kpv:28, 5kpw:28, 5kpx:28, 5l3p:B, 7lv0:2, 5mgp:B, 5np6:Z, 5o2r:B, 6ofx:2, 6og7:2, 6ogf:2, 6ogg:2, 6ogi:2, 8pkl:8, 8rpy:B, 8rpz:B, 8rq0:B, 8rq2:B, 7ss9:2, 7ssd:2, 7ssl:2, 7ssn:2, 7sso:2, 7ssw:2, 7st2:2, 7st6:2, 7st7:2, 7tos:5S, 5uyk:02, 5uyl:02, 5uym:02, 5uyn:02, 5uyp:02, 5uyq:02, 8vs9:5S, 8vsa:5S, 6vwl:3, 6vwm:3, 6vwn:3, 5wdt:B, 6wd0:2, 6wd1:2, 6wd2:2, 6wd3:2, 6wd4:2, 6wd5:2, 6wd6:2, 6wd7:2, 6wd8:2, 6wd9:2, 6wda:2, 6wdb:2, 6wdc:2, 6wdd:2, 6wde:2, 6wdf:2, 6wdg:2, 6wdh:2, 6wdi:2, 6wdj:2, 6wdk:2, 6wdl:2, 6wdm:2, 5we4:B, 5we6:B, 5wf0:B, 5wfk:B, 5wfs:B, 6y69:B)
    ugccuggcggccguagcgcgguggucccaccugaccccaugccgaacuca
gaagugaaacgccguagcgccgaugguaguguggggucuccccaugcgag
aguagggaacugccaggcaa
<<<<<<<<<<.....<<<<<<<<....<<<<<<<.............>>>
>..>>>...>>>>>>.>>.<<.......<<<<<<<<...>>>>>>>>...
....>>...>>>>>>>>>>.
    		 ? GO:0000027 ... P0ADY7 30076302
    3 6gxo:O
    (3.9)    		 BS02 >6gxo:B (identical to 5afi:B, 6bu8:02, 7cpj:B, 6dnc:C, 6enf:B, 6enj:B, 6enu:B, 6gwt:B, 6gxm:B, 6gxn:B, 6gxp:B, 6h4n:B, 6h58:B, 6h58:BB, 3j9y:B, 7jss:2, 7jsw:2, 7jsz:2, 7jt1:2, 7jt2:2, 7jt3:2, 7k50:2, 7k51:2, 7k52:2, 7k53:2, 7k54:2, 7k55:2, 5kps:29, 5kpv:28, 5kpw:28, 5kpx:28, 5l3p:B, 7lv0:2, 5mgp:B, 5np6:Z, 5o2r:B, 6ofx:2, 6og7:2, 6ogf:2, 6ogg:2, 6ogi:2, 8pkl:8, 8rpy:B, 8rpz:B, 8rq0:B, 8rq2:B, 7ss9:2, 7ssd:2, 7ssl:2, 7ssn:2, 7sso:2, 7ssw:2, 7st2:2, 7st6:2, 7st7:2, 7tos:5S, 5uyk:02, 5uyl:02, 5uym:02, 5uyn:02, 5uyp:02, 5uyq:02, 8vs9:5S, 8vsa:5S, 6vwl:3, 6vwm:3, 6vwn:3, 5wdt:B, 6wd0:2, 6wd1:2, 6wd2:2, 6wd3:2, 6wd4:2, 6wd5:2, 6wd6:2, 6wd7:2, 6wd8:2, 6wd9:2, 6wda:2, 6wdb:2, 6wdc:2, 6wdd:2, 6wde:2, 6wdf:2, 6wdg:2, 6wdh:2, 6wdi:2, 6wdj:2, 6wdk:2, 6wdl:2, 6wdm:2, 5we4:B, 5we6:B, 5wf0:B, 5wfk:B, 5wfs:B, 6y69:B)
    ugccuggcggccguagcgcgguggucccaccugaccccaugccgaacuca
gaagugaaacgccguagcgccgaugguaguguggggucuccccaugcgag
aguagggaacugccaggcaa
<<<<<<<<<<.....<<<<<<<<....<<<<<<<.............>>>
>..>>>...>>>>>>.>>.<<.......<<<<<<<<...>>>>>>>>...
....>>...>>>>>>>>>>.
    		 ? GO:0002181 ... P0C018 30076302
    4 6gxo:V
    (3.9)    		 BS01 >6gxo:B (identical to 5afi:B, 6bu8:02, 7cpj:B, 6dnc:C, 6enf:B, 6enj:B, 6enu:B, 6gwt:B, 6gxm:B, 6gxn:B, 6gxp:B, 6h4n:B, 6h58:B, 6h58:BB, 3j9y:B, 7jss:2, 7jsw:2, 7jsz:2, 7jt1:2, 7jt2:2, 7jt3:2, 7k50:2, 7k51:2, 7k52:2, 7k53:2, 7k54:2, 7k55:2, 5kps:29, 5kpv:28, 5kpw:28, 5kpx:28, 5l3p:B, 7lv0:2, 5mgp:B, 5np6:Z, 5o2r:B, 6ofx:2, 6og7:2, 6ogf:2, 6ogg:2, 6ogi:2, 8pkl:8, 8rpy:B, 8rpz:B, 8rq0:B, 8rq2:B, 7ss9:2, 7ssd:2, 7ssl:2, 7ssn:2, 7sso:2, 7ssw:2, 7st2:2, 7st6:2, 7st7:2, 7tos:5S, 5uyk:02, 5uyl:02, 5uym:02, 5uyn:02, 5uyp:02, 5uyq:02, 8vs9:5S, 8vsa:5S, 6vwl:3, 6vwm:3, 6vwn:3, 5wdt:B, 6wd0:2, 6wd1:2, 6wd2:2, 6wd3:2, 6wd4:2, 6wd5:2, 6wd6:2, 6wd7:2, 6wd8:2, 6wd9:2, 6wda:2, 6wdb:2, 6wdc:2, 6wdd:2, 6wde:2, 6wdf:2, 6wdg:2, 6wdh:2, 6wdi:2, 6wdj:2, 6wdk:2, 6wdl:2, 6wdm:2, 5we4:B, 5we6:B, 5wf0:B, 5wfk:B, 5wfs:B, 6y69:B)
    ugccuggcggccguagcgcgguggucccaccugaccccaugccgaacuca
gaagugaaacgccguagcgccgaugguaguguggggucuccccaugcgag
aguagggaacugccaggcaa
<<<<<<<<<<.....<<<<<<<<....<<<<<<<.............>>>
>..>>>...>>>>>>.>>.<<.......<<<<<<<<...>>>>>>>>...
....>>...>>>>>>>>>>.
    		 ? GO:0000027 ... P68919 30076302
    5 6gxo:W
    (3.9)    		 BS02 >6gxo:B (identical to 5afi:B, 6bu8:02, 7cpj:B, 6dnc:C, 6enf:B, 6enj:B, 6enu:B, 6gwt:B, 6gxm:B, 6gxn:B, 6gxp:B, 6h4n:B, 6h58:B, 6h58:BB, 3j9y:B, 7jss:2, 7jsw:2, 7jsz:2, 7jt1:2, 7jt2:2, 7jt3:2, 7k50:2, 7k51:2, 7k52:2, 7k53:2, 7k54:2, 7k55:2, 5kps:29, 5kpv:28, 5kpw:28, 5kpx:28, 5l3p:B, 7lv0:2, 5mgp:B, 5np6:Z, 5o2r:B, 6ofx:2, 6og7:2, 6ogf:2, 6ogg:2, 6ogi:2, 8pkl:8, 8rpy:B, 8rpz:B, 8rq0:B, 8rq2:B, 7ss9:2, 7ssd:2, 7ssl:2, 7ssn:2, 7sso:2, 7ssw:2, 7st2:2, 7st6:2, 7st7:2, 7tos:5S, 5uyk:02, 5uyl:02, 5uym:02, 5uyn:02, 5uyp:02, 5uyq:02, 8vs9:5S, 8vsa:5S, 6vwl:3, 6vwm:3, 6vwn:3, 5wdt:B, 6wd0:2, 6wd1:2, 6wd2:2, 6wd3:2, 6wd4:2, 6wd5:2, 6wd6:2, 6wd7:2, 6wd8:2, 6wd9:2, 6wda:2, 6wdb:2, 6wdc:2, 6wdd:2, 6wde:2, 6wdf:2, 6wdg:2, 6wdh:2, 6wdi:2, 6wdj:2, 6wdk:2, 6wdl:2, 6wdm:2, 5we4:B, 5we6:B, 5wf0:B, 5wfk:B, 5wfs:B, 6y69:B)
    ugccuggcggccguagcgcgguggucccaccugaccccaugccgaacuca
gaagugaaacgccguagcgccgaugguaguguggggucuccccaugcgag
aguagggaacugccaggcaa
<<<<<<<<<<.....<<<<<<<<....<<<<<<<.............>>>
>..>>>...>>>>>>.>>.<<.......<<<<<<<<...>>>>>>>>...
....>>...>>>>>>>>>>.
    		 ? GO:0003735 ... P0A7L8 30076302
    6 6gxo:Z
    (3.9)    		 BS02 >6gxo:B (identical to 5afi:B, 6bu8:02, 7cpj:B, 6dnc:C, 6enf:B, 6enj:B, 6enu:B, 6gwt:B, 6gxm:B, 6gxn:B, 6gxp:B, 6h4n:B, 6h58:B, 6h58:BB, 3j9y:B, 7jss:2, 7jsw:2, 7jsz:2, 7jt1:2, 7jt2:2, 7jt3:2, 7k50:2, 7k51:2, 7k52:2, 7k53:2, 7k54:2, 7k55:2, 5kps:29, 5kpv:28, 5kpw:28, 5kpx:28, 5l3p:B, 7lv0:2, 5mgp:B, 5np6:Z, 5o2r:B, 6ofx:2, 6og7:2, 6ogf:2, 6ogg:2, 6ogi:2, 8pkl:8, 8rpy:B, 8rpz:B, 8rq0:B, 8rq2:B, 7ss9:2, 7ssd:2, 7ssl:2, 7ssn:2, 7sso:2, 7ssw:2, 7st2:2, 7st6:2, 7st7:2, 7tos:5S, 5uyk:02, 5uyl:02, 5uym:02, 5uyn:02, 5uyp:02, 5uyq:02, 8vs9:5S, 8vsa:5S, 6vwl:3, 6vwm:3, 6vwn:3, 5wdt:B, 6wd0:2, 6wd1:2, 6wd2:2, 6wd3:2, 6wd4:2, 6wd5:2, 6wd6:2, 6wd7:2, 6wd8:2, 6wd9:2, 6wda:2, 6wdb:2, 6wdc:2, 6wdd:2, 6wde:2, 6wdf:2, 6wdg:2, 6wdh:2, 6wdi:2, 6wdj:2, 6wdk:2, 6wdl:2, 6wdm:2, 5we4:B, 5we6:B, 5wf0:B, 5wfk:B, 5wfs:B, 6y69:B)
    ugccuggcggccguagcgcgguggucccaccugaccccaugccgaacuca
gaagugaaacgccguagcgccgaugguaguguggggucuccccaugcgag
aguagggaacugccaggcaa
<<<<<<<<<<.....<<<<<<<<....<<<<<<<.............>>>
>..>>>...>>>>>>.>>.<<.......<<<<<<<<...>>>>>>>>...
....>>...>>>>>>>>>>.
    		 ? GO:0000027 ... P0AG51 30076302
    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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