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BioLiP
Download all results in tab-seperated text for 74 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.
  • Hover over Ligand to view the full ligand name. Click Ligand to view the 2D diagram and other detail information of the ligand.
  • 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 Å)     		Site # Ligand EC number GO terms UniProt PubMed Binding
    affinity
    1 7d4i:3B (4.0) BS01 rna 2.1.1.- GO:0000451 ... P15646 N/A
    2 7d4i:3C (4.0) BS01 rna 2.1.1.- GO:0000451 ... P15646 N/A
    3 7d4i:3D (4.0) BS01 rna ? GO:0000154 ... Q12460 N/A
    4 7d4i:3D (4.0) BS02 rna ? GO:0000154 ... Q12460 N/A
    5 7d4i:3E (4.0) BS01 rna ? GO:0000447 ... Q12499 N/A
    6 7d4i:3F (4.0) BS01 rna ? GO:0000447 ... Q06506 N/A
    7 7d4i:3G (4.0) BS01 rna ? GO:0000245 ... P39990 N/A
    8 7d4i:3H (4.0) BS01 rna ? GO:0000245 ... P39990 N/A
    9 7d4i:5C (4.0) BS01 rna ? GO:0000447 ... P40055 N/A
    10 7d4i:5C (4.0) BS02 rna ? GO:0000447 ... P40055 N/A
    11 7d4i:5C (4.0) BS03 rna ? GO:0000447 ... P40055 N/A
    12 7d4i:5D (4.0) BS01 rna ? GO:0000447 ... P34247 N/A
    13 7d4i:5D (4.0) BS02 rna ? GO:0000447 ... P34247 N/A
    14 7d4i:5E (4.0) BS01 rna ? GO:0000447 ... P47083 N/A
    15 7d4i:5F (4.0) BS01 rna ? GO:0003723 ... P32899 N/A
    16 7d4i:5F (4.0) BS02 rna ? GO:0003723 ... P32899 N/A
    17 7d4i:5G (4.0) BS01 rna ? GO:0005515 ... P53941 N/A
    18 7d4i:5H (4.0) BS01 rna ? GO:0000447 ... Q12136 N/A
    19 7d4i:5H (4.0) BS02 rna ? GO:0000447 ... Q12136 N/A
    20 7d4i:5I (4.0) BS01 rna ? GO:0000462 ... P33750 N/A
    21 7d4i:5I (4.0) BS02 rna ? GO:0000462 ... P33750 N/A
    22 7d4i:5I (4.0) BS03 rna ? GO:0000462 ... P33750 N/A
    23 7d4i:5J (4.0) BS01 rna ? GO:0000447 ... Q12035 N/A
    24 7d4i:5J (4.0) BS02 rna ? GO:0000447 ... Q12035 N/A
    25 7d4i:5K (4.0) BS01 rna ? GO:0000447 ... Q05498 N/A
    26 7d4i:5K (4.0) BS02 ZN ? GO:0000447 ... Q05498 N/A
    27 7d4i:A4 (4.0) BS01 rna ? GO:0000462 ... Q06679 N/A
    28 7d4i:A9 (4.0) BS01 rna ? GO:0000049 ... P38882 N/A
    29 7d4i:AF (4.0) BS01 rna ? GO:0000462 ... Q04305 N/A
    30 7d4i:AF (4.0) BS02 rna ? GO:0000462 ... Q04305 N/A
    31 7d4i:AG (4.0) BS01 rna ? GO:0000462 ... Q02931 N/A
    32 7d4i:AG (4.0) BS02 rna ? GO:0000462 ... Q02931 N/A
    33 7d4i:B1 (4.0) BS01 rna ? GO:0000028 ... P25635 N/A
    34 7d4i:B2 (4.0) BS01 rna ? GO:0000447 ... Q12220 N/A
    35 7d4i:B3 (4.0) BS01 rna ? GO:0000447 ... Q05946 N/A
    36 7d4i:B6 (4.0) BS01 rna ? GO:0000447 ... Q02354 N/A
    37 7d4i:B8 (4.0) BS01 rna ? GO:0000292 ... P40362 N/A
    38 7d4i:B8 (4.0) BS02 rna ? GO:0000292 ... P40362 N/A
    39 7d4i:BE (4.0) BS01 rna ? GO:0003674 ... Q06078 N/A
    40 7d4i:RE (4.0) BS01 rna ? GO:0000028 ... P53254 N/A
    41 7d4i:RF (4.0) BS01 rna ? GO:0000028 ... P25368 N/A
    42 7d4i:RG (4.0) BS01 rna 2.1.1.260 GO:0000447 ... Q06287 N/A
    43 7d4i:RH (4.0) BS01 rna 2.1.1.260 GO:0000447 ... Q06287 N/A
    44 7d4i:RJ (4.0) BS01 rna ? GO:0000462 ... Q08965 N/A
    45 7d4i:RJ (4.0) BS02 rna ? GO:0000462 ... Q08965 N/A
    46 7d4i:RJ (4.0) BS03 GTP ? GO:0000462 ... Q08965 N/A
    47 7d4i:RK (4.0) BS01 rna ? GO:0000447 ... Q08096 N/A
    48 7d4i:RN (4.0) BS01 rna ? GO:0000028 ... Q99207 N/A
    49 7d4i:RN (4.0) BS02 rna ? GO:0000028 ... Q99207 N/A
    50 7d4i:RP (4.0) BS01 rna ? GO:0000447 ... P35194 N/A
    51 7d4i:RQ (4.0) BS01 rna ? GO:0000447 ... Q04500 N/A
    52 7d4i:RQ (4.0) BS02 rna ? GO:0000447 ... Q04500 N/A
    53 7d4i:RS (4.0) BS01 rna ? GO:0000447 ... P38333 N/A
    54 7d4i:RT (4.0) BS01 rna N/A GO:0003723 ... N/A N/A
    55 7d4i:RZ (4.0) BS01 ADP 3.6.4.13 GO:0000462 ... Q04217 N/A
    56 7d4i:SC (4.0) BS01 rna ? GO:0000462 ... P33442 N/A
    57 7d4i:SF (4.0) BS01 rna ? GO:0002181 ... P0CX35 N/A
    58 7d4i:SG (4.0) BS01 rna ? GO:0000028 ... P26783 N/A
    59 7d4i:SH (4.0) BS01 rna ? GO:0000462 ... P0CX37 N/A
    60 7d4i:SI (4.0) BS01 rna ? GO:0002181 ... P26786 N/A
    61 7d4i:SJ (4.0) BS01 rna ? GO:0000462 ... P0CX39 N/A
    62 7d4i:SK (4.0) BS01 rna ? GO:0000462 ... O13516 N/A
    63 7d4i:SM (4.0) BS01 rna ? GO:0000028 ... P0CX47 N/A
    64 7d4i:SO (4.0) BS01 rna ? GO:0000462 ... P05756 N/A
    65 7d4i:SP (4.0) BS01 rna ? GO:0000028 ... P06367 N/A
    66 7d4i:SR (4.0) BS01 rna ? GO:0000462 ... P0CX51 N/A
    67 7d4i:ST (4.0) BS01 rna ? GO:0000054 ... P0CX55 N/A
    68 7d4i:SU (4.0) BS01 rna ? GO:0000028 ... P07280 N/A
    69 7d4i:SX (4.0) BS01 rna ? GO:0002181 ... Q3E7Y3 N/A
    70 7d4i:SY (4.0) BS01 rna ? GO:0000462 ... P0CX29 N/A
    71 7d4i:SZ (4.0) BS01 rna ? GO:0000462 ... P0CX31 N/A
    72 7d4i:Sc (4.0) BS01 rna ? GO:0000028 ... P35997 N/A
    73 7d4i:Sc (4.0) BS02 ZN ? GO:0000028 ... P35997 N/A
    74 7d4i:Sd (4.0) BS01 rna ? GO:0000028 ... Q3E7X9 N/A
    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)(download the PDF file).
  • 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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