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BioLiP
Download all results in tab-seperated text for 122 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 4ybb:AB (2.1) BS01 rna ? GO:0000028 ... P0A7V0 25775265
    2 4ybb:AB (2.1) BS02 ZN ? GO:0000028 ... P0A7V0 25775265
    3 4ybb:AC (2.1) BS01 rna ? GO:0003676 ... P0A7V3 25775265
    4 4ybb:AD (2.1) BS01 rna ? GO:0000028 ... P0A7V8 25775265
    5 4ybb:AE (2.1) BS01 rna ? GO:0000028 ... P0A7W1 25775265
    6 4ybb:AF (2.1) BS01 rna ? GO:0003735 ... P02358 25775265
    7 4ybb:AG (2.1) BS01 rna ? GO:0003723 ... P02359 25775265
    8 4ybb:AH (2.1) BS01 rna ? GO:0000028 ... P0A7W7 25775265
    9 4ybb:AI (2.1) BS01 rna ? GO:0000049 ... P0A7X3 25775265
    10 4ybb:AJ (2.1) BS01 rna ? GO:0000049 ... P0A7R5 25775265
    11 4ybb:AK (2.1) BS01 rna ? GO:0002181 ... P0A7R9 25775265
    12 4ybb:AL (2.1) BS01 rna ? GO:0000049 ... P0A7S3 25775265
    13 4ybb:AM (2.1) BS01 rna ? GO:0000049 ... P0A7S9 25775265
    14 4ybb:AM (2.1) BS02 MG ? GO:0000049 ... P0A7S9 25775265
    15 4ybb:AN (2.1) BS01 rna ? GO:0000028 ... P0AG59 25775265
    16 4ybb:AO (2.1) BS01 rna ? GO:0000028 ... P0ADZ4 25775265
    17 4ybb:AO (2.1) BS02 rna ? GO:0000028 ... P0ADZ4 25775265
    18 4ybb:AP (2.1) BS01 rna ? GO:0000028 ... P0A7T3 25775265
    19 4ybb:AQ (2.1) BS01 rna ? GO:0000028 ... P0AG63 25775265
    20 4ybb:AR (2.1) BS01 rna ? GO:0003735 ... P0A7T7 25775265
    21 4ybb:AS (2.1) BS01 rna ? GO:0003723 ... P0A7U3 25775265
    22 4ybb:AT (2.1) BS01 rna ? GO:0000028 ... P0A7U7 25775265
    23 4ybb:AU (2.1) BS01 rna ? GO:0003735 ... P68679 25775265
    24 4ybb:BB (2.1) BS01 rna ? GO:0000028 ... P0A7V0 25775265
    25 4ybb:BB (2.1) BS02 rna ? GO:0000028 ... P0A7V0 25775265
    26 4ybb:BC (2.1) BS01 rna ? GO:0003676 ... P0A7V3 25775265
    27 4ybb:BD (2.1) BS01 rna ? GO:0000028 ... P0A7V8 25775265
    28 4ybb:BD (2.1) BS02 rna ? GO:0000028 ... P0A7V8 25775265
    29 4ybb:BE (2.1) BS01 rna ? GO:0000028 ... P0A7W1 25775265
    30 4ybb:BF (2.1) BS01 rna ? GO:0003735 ... P02358 25775265
    31 4ybb:BG (2.1) BS01 rna ? GO:0003723 ... P02359 25775265
    32 4ybb:BH (2.1) BS01 rna ? GO:0000028 ... P0A7W7 25775265
    33 4ybb:BI (2.1) BS01 rna ? GO:0000049 ... P0A7X3 25775265
    34 4ybb:BJ (2.1) BS01 rna ? GO:0000049 ... P0A7R5 25775265
    35 4ybb:BK (2.1) BS01 rna ? GO:0002181 ... P0A7R9 25775265
    36 4ybb:BL (2.1) BS01 rna ? GO:0000049 ... P0A7S3 25775265
    37 4ybb:BM (2.1) BS01 rna ? GO:0000049 ... P0A7S9 25775265
    38 4ybb:BN (2.1) BS01 rna ? GO:0000028 ... P0AG59 25775265
    39 4ybb:BO (2.1) BS01 rna ? GO:0000028 ... P0ADZ4 25775265
    40 4ybb:BO (2.1) BS02 rna ? GO:0000028 ... P0ADZ4 25775265
    41 4ybb:BP (2.1) BS01 rna ? GO:0000028 ... P0A7T3 25775265
    42 4ybb:BQ (2.1) BS01 rna ? GO:0000028 ... P0AG63 25775265
    43 4ybb:BR (2.1) BS01 rna ? GO:0003735 ... P0A7T7 25775265
    44 4ybb:BS (2.1) BS01 rna ? GO:0003723 ... P0A7U3 25775265
    45 4ybb:BT (2.1) BS01 rna ? GO:0000028 ... P0A7U7 25775265
    46 4ybb:BU (2.1) BS01 rna ? GO:0003735 ... P68679 25775265
    47 4ybb:C0 (2.1) BS01 rna ? GO:0000027 ... P0AG51 25775265
    48 4ybb:C0 (2.1) BS02 rna ? GO:0000027 ... P0AG51 25775265
    49 4ybb:C1 (2.1) BS01 rna ? GO:0000027 ... P0A7N4 25775265
    50 4ybb:C2 (2.1) BS01 rna ? GO:0000027 ... P0A7N9 25775265
    51 4ybb:C3 (2.1) BS01 rna ? GO:0002181 ... P0A7P5 25775265
    52 4ybb:C4 (2.1) BS01 rna ? GO:0002181 ... P0A7Q1 25775265
    53 4ybb:C5 (2.1) BS01 rna ? GO:0002181 ... P0A7Q6 25775265
    54 4ybb:CC (2.1) BS01 rna ? GO:0000027 ... P60422 25775265
    55 4ybb:CD (2.1) BS01 rna ? GO:0000027 ... P60438 25775265
    56 4ybb:CE (2.1) BS01 rna ? GO:0001070 ... P60723 25775265
    57 4ybb:CF (2.1) BS01 rna ? GO:0000027 ... P62399 25775265
    58 4ybb:CF (2.1) BS02 rna ? GO:0000027 ... P62399 25775265
    59 4ybb:CG (2.1) BS01 rna ? GO:0000027 ... P0AG55 25775265
    60 4ybb:CH (2.1) BS01 rna ? GO:0002181 ... P0A7R1 25775265
    61 4ybb:CJ (2.1) BS01 rna ? GO:0000027 ... P0A7J7 25775265
    62 4ybb:CK (2.1) BS01 rna ? GO:0002181 ... P0AA10 25775265
    63 4ybb:CL (2.1) BS01 rna ? GO:0002181 ... P0ADY3 25775265
    64 4ybb:CL (2.1) BS02 rna ? GO:0002181 ... P0ADY3 25775265
    65 4ybb:CM (2.1) BS01 rna ? GO:0002181 ... P02413 25775265
    66 4ybb:CN (2.1) BS01 rna ? GO:0000027 ... P0ADY7 25775265
    67 4ybb:CN (2.1) BS02 rna ? GO:0000027 ... P0ADY7 25775265
    68 4ybb:CO (2.1) BS01 rna ? GO:0000027 ... P0AG44 25775265
    69 4ybb:CP (2.1) BS01 rna ? GO:0002181 ... P0C018 25775265
    70 4ybb:CP (2.1) BS02 rna ? GO:0002181 ... P0C018 25775265
    71 4ybb:CQ (2.1) BS01 rna ? GO:0000027 ... P0A7K6 25775265
    72 4ybb:CQ (2.1) BS02 rna ? GO:0000027 ... P0A7K6 25775265
    73 4ybb:CR (2.1) BS01 rna ? GO:0000027 ... P0A7L3 25775265
    74 4ybb:CS (2.1) BS01 rna ? GO:0002181 ... P0AG48 25775265
    75 4ybb:CT (2.1) BS01 rna ? GO:0002181 ... P61175 25775265
    76 4ybb:CU (2.1) BS01 rna ? GO:0000027 ... P0ADZ0 25775265
    77 4ybb:CV (2.1) BS01 rna ? GO:0000027 ... P60624 25775265
    78 4ybb:CW (2.1) BS01 rna ? GO:0000027 ... P68919 25775265
    79 4ybb:CW (2.1) BS02 rna ? GO:0000027 ... P68919 25775265
    80 4ybb:CX (2.1) BS01 rna ? GO:0003735 ... P0A7L8 25775265
    81 4ybb:CX (2.1) BS02 rna ? GO:0003735 ... P0A7L8 25775265
    82 4ybb:CY (2.1) BS01 rna ? GO:0000027 ... P0A7M2 25775265
    83 4ybb:CZ (2.1) BS01 rna ? GO:0000027 ... P0A7M6 25775265
    84 4ybb:D0 (2.1) BS01 rna ? GO:0000027 ... P0AG51 25775265
    85 4ybb:D1 (2.1) BS01 rna ? GO:0000027 ... P0A7N4 25775265
    86 4ybb:D2 (2.1) BS01 rna ? GO:0000027 ... P0A7N9 25775265
    87 4ybb:D3 (2.1) BS01 rna ? GO:0002181 ... P0A7P5 25775265
    88 4ybb:D4 (2.1) BS01 rna ? GO:0002181 ... P0A7Q1 25775265
    89 4ybb:D5 (2.1) BS01 rna ? GO:0002181 ... P0A7Q6 25775265
    90 4ybb:D5 (2.1) BS02 ZN ? GO:0002181 ... P0A7Q6 25775265
    91 4ybb:DC (2.1) BS01 rna ? GO:0000027 ... P60422 25775265
    92 4ybb:DD (2.1) BS01 rna ? GO:0000027 ... P60438 25775265
    93 4ybb:DE (2.1) BS01 rna ? GO:0001070 ... P60723 25775265
    94 4ybb:DF (2.1) BS01 rna ? GO:0000027 ... P62399 25775265
    95 4ybb:DF (2.1) BS02 rna ? GO:0000027 ... P62399 25775265
    96 4ybb:DG (2.1) BS01 rna ? GO:0000027 ... P0AG55 25775265
    97 4ybb:DH (2.1) BS01 rna ? GO:0002181 ... P0A7R1 25775265
    98 4ybb:DH (2.1) BS02 rna ? GO:0002181 ... P0A7R1 25775265
    99 4ybb:DI (2.1) BS01 rna ? GO:0003735 ... P0A7J3 25775265
    100 4ybb:DJ (2.1) BS01 rna ? GO:0000027 ... P0A7J7 25775265
    101 4ybb:DK (2.1) BS01 rna ? GO:0002181 ... P0AA10 25775265
    102 4ybb:DL (2.1) BS01 rna ? GO:0002181 ... P0ADY3 25775265
    103 4ybb:DL (2.1) BS02 rna ? GO:0002181 ... P0ADY3 25775265
    104 4ybb:DM (2.1) BS01 rna ? GO:0002181 ... P02413 25775265
    105 4ybb:DN (2.1) BS01 rna ? GO:0000027 ... P0ADY7 25775265
    106 4ybb:DN (2.1) BS02 rna ? GO:0000027 ... P0ADY7 25775265
    107 4ybb:DO (2.1) BS01 rna ? GO:0000027 ... P0AG44 25775265
    108 4ybb:DP (2.1) BS01 rna ? GO:0002181 ... P0C018 25775265
    109 4ybb:DP (2.1) BS02 rna ? GO:0002181 ... P0C018 25775265
    110 4ybb:DQ (2.1) BS01 rna ? GO:0000027 ... P0A7K6 25775265
    111 4ybb:DQ (2.1) BS02 rna ? GO:0000027 ... P0A7K6 25775265
    112 4ybb:DR (2.1) BS01 rna ? GO:0000027 ... P0A7L3 25775265
    113 4ybb:DS (2.1) BS01 rna ? GO:0002181 ... P0AG48 25775265
    114 4ybb:DT (2.1) BS01 rna ? GO:0002181 ... P61175 25775265
    115 4ybb:DU (2.1) BS01 rna ? GO:0000027 ... P0ADZ0 25775265
    116 4ybb:DV (2.1) BS01 rna ? GO:0000027 ... P60624 25775265
    117 4ybb:DW (2.1) BS01 rna ? GO:0000027 ... P68919 25775265
    118 4ybb:DW (2.1) BS02 rna ? GO:0000027 ... P68919 25775265
    119 4ybb:DX (2.1) BS01 rna ? GO:0003735 ... P0A7L8 25775265
    120 4ybb:DX (2.1) BS02 rna ? GO:0003735 ... P0A7L8 25775265
    121 4ybb:DY (2.1) BS01 rna ? GO:0000027 ... P0A7M2 25775265
    122 4ybb:DZ (2.1) BS01 rna ? GO:0000027 ... P0A7M6 25775265
    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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