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BioLiP Library
Download all results in tab-seperated text for 151 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 6ndk:QB (3.64) BS01 rna ? GO:0003735 ... P80371 30782843
    2 6ndk:QC (3.64) BS01 rna ? GO:0003676 ... P80372 30782843
    3 6ndk:QC (3.64) BS02 MG ? GO:0003676 ... P80372 30782843
    4 6ndk:QD (3.64) BS01 rna ? GO:0003723 ... P80373 30782843
    5 6ndk:QD (3.64) BS02 SF4 ? GO:0003723 ... P80373 30782843
    6 6ndk:QE (3.64) BS01 rna ? GO:0003723 ... Q5SHQ5 30782843
    7 6ndk:QE (3.64) BS02 MG ? GO:0003723 ... Q5SHQ5 30782843
    8 6ndk:QF (3.64) BS01 rna ? GO:0003735 ... Q5SLP8 30782843
    9 6ndk:QG (3.64) BS01 rna ? GO:0000028 ... P17291 30782843
    10 6ndk:QH (3.64) BS01 rna ? GO:0003735 ... P0DOY9 30782843
    11 6ndk:QI (3.64) BS01 rna ? GO:0000049 ... P80374 30782843
    12 6ndk:QJ (3.64) BS01 rna ? GO:0000049 ... Q5SHN7 30782843
    13 6ndk:QJ (3.64) BS02 rna ? GO:0000049 ... Q5SHN7 30782843
    14 6ndk:QJ (3.64) BS03 MG ? GO:0000049 ... Q5SHN7 30782843
    15 6ndk:QK (3.64) BS01 rna ? GO:0003735 ... P80376 30782843
    16 6ndk:QL (3.64) BS01 rna ? GO:0000049 ... Q5SHN3 30782843
    17 6ndk:QM (3.64) BS01 rna ? GO:0000049 ... P80377 30782843
    18 6ndk:QM (3.64) BS02 MG ? GO:0000049 ... P80377 30782843
    19 6ndk:QN (3.64) BS01 rna ? GO:0003735 ... P0DOY6 30782843
    20 6ndk:QN (3.64) BS02 ZN ? GO:0003735 ... P0DOY6 30782843
    21 6ndk:QN (3.64) BS03 MG ? GO:0003735 ... P0DOY6 30782843
    22 6ndk:QO (3.64) BS01 rna ? GO:0003735 ... Q5SJ76 30782843
    23 6ndk:QO (3.64) BS02 rna ? GO:0003735 ... Q5SJ76 30782843
    24 6ndk:QP (3.64) BS01 rna ? GO:0003735 ... Q5SJH3 30782843
    25 6ndk:QQ (3.64) BS01 rna ? GO:0003735 ... P0DOY7 30782843
    26 6ndk:QR (3.64) BS01 rna ? GO:0003735 ... Q5SLQ0 30782843
    27 6ndk:QS (3.64) BS01 rna ? GO:0000028 ... Q5SHP2 30782843
    28 6ndk:QT (3.64) BS01 rna ? GO:0003723 ... P80380 30782843
    29 6ndk:R0 (3.64) BS01 rna ? GO:0003735 ... P60493 30782843
    30 6ndk:R0 (3.64) BS02 rna ? GO:0003735 ... P60493 30782843
    31 6ndk:R0 (3.64) BS03 rna ? GO:0003735 ... P60493 30782843
    32 6ndk:R1 (3.64) BS01 rna ? GO:0003735 ... P60494 30782843
    33 6ndk:R2 (3.64) BS01 rna ? GO:0003735 ... Q5SHP6 30782843
    34 6ndk:R3 (3.64) BS01 rna ? GO:0003735 ... Q5SHQ6 30782843
    35 6ndk:R3 (3.64) BS02 rna ? GO:0003735 ... Q5SHQ6 30782843
    36 6ndk:R4 (3.64) BS01 rna ? GO:0003735 ... Q5SJE1 30782843
    37 6ndk:R4 (3.64) BS02 rna ? GO:0003735 ... Q5SJE1 30782843
    38 6ndk:R4 (3.64) BS03 ZN ? GO:0003735 ... Q5SJE1 30782843
    39 6ndk:R5 (3.64) BS01 rna ? GO:0003735 ... P80339 30782843
    40 6ndk:R6 (3.64) BS01 rna ? GO:0000049 ... P35871 30782843
    41 6ndk:R7 (3.64) BS01 rna ? GO:0003735 ... P80340 30782843
    42 6ndk:R8 (3.64) BS01 rna ? GO:0003735 ... Q5SKU1 30782843
    43 6ndk:R9 (3.64) BS01 rna ? GO:0003735 ... Q5SHR2 30782843
    44 6ndk:R9 (3.64) BS02 ZN ? GO:0003735 ... Q5SHR2 30782843
    45 6ndk:RD (3.64) BS01 rna ? GO:0002181 ... P60405 30782843
    46 6ndk:RD (3.64) BS02 rna ? GO:0002181 ... P60405 30782843
    47 6ndk:RD (3.64) BS03 MG ? GO:0002181 ... P60405 30782843
    48 6ndk:RD (3.64) BS04 MG ? GO:0002181 ... P60405 30782843
    49 6ndk:RD (3.64) BS05 MG ? GO:0002181 ... P60405 30782843
    50 6ndk:RE (3.64) BS01 rna ? GO:0003735 ... Q5SHN8 30782843
    51 6ndk:RE (3.64) BS02 MG ? GO:0003735 ... Q5SHN8 30782843
    52 6ndk:RF (3.64) BS01 rna ? GO:0003735 ... Q5SHN9 30782843
    53 6ndk:RF (3.64) BS02 MG ? GO:0003735 ... Q5SHN9 30782843
    54 6ndk:RF (3.64) BS03 MG ? GO:0003735 ... Q5SHN9 30782843
    55 6ndk:RG (3.64) BS01 rna ? GO:0000049 ... Q5SHQ0 30782843
    56 6ndk:RG (3.64) BS02 rna ? GO:0000049 ... Q5SHQ0 30782843
    57 6ndk:RG (3.64) BS03 rna ? GO:0000049 ... Q5SHQ0 30782843
    58 6ndk:RH (3.64) BS01 rna ? GO:0002181 ... P0DOY8 30782843
    59 6ndk:RI (3.64) BS01 rna ? GO:0003735 ... Q5SLQ1 30782843
    60 6ndk:RN (3.64) BS01 rna ? GO:0003729 ... P60488 30782843
    61 6ndk:RN (3.64) BS02 MG ? GO:0003729 ... P60488 30782843
    62 6ndk:RO (3.64) BS01 rna ? GO:0003735 ... Q5SHP8 30782843
    63 6ndk:RO (3.64) BS02 rna ? GO:0003735 ... Q5SHP8 30782843
    64 6ndk:RP (3.64) BS01 rna ? GO:0003735 ... Q5SHQ7 30782843
    65 6ndk:RP (3.64) BS02 MG ? GO:0003735 ... Q5SHQ7 30782843
    66 6ndk:RQ (3.64) BS01 rna ? GO:0000049 ... P60489 30782843
    67 6ndk:RQ (3.64) BS02 rna ? GO:0000049 ... P60489 30782843
    68 6ndk:RQ (3.64) BS03 MG ? GO:0000049 ... P60489 30782843
    69 6ndk:RR (3.64) BS01 rna ? GO:0003735 ... Q9Z9H5 30782843
    70 6ndk:RS (3.64) BS01 rna ? GO:0003735 ... Q5SHQ4 30782843
    71 6ndk:RS (3.64) BS02 rna ? GO:0003735 ... Q5SHQ4 30782843
    72 6ndk:RT (3.64) BS01 rna ? GO:0003735 ... P60490 30782843
    73 6ndk:RT (3.64) BS02 rna ? GO:0003735 ... P60490 30782843
    74 6ndk:RU (3.64) BS01 rna ? GO:0000027 ... P60491 30782843
    75 6ndk:RV (3.64) BS01 rna ? GO:0003723 ... P60492 30782843
    76 6ndk:RW (3.64) BS01 rna ? GO:0003735 ... Q5SHP3 30782843
    77 6ndk:RX (3.64) BS01 rna ? GO:0000027 ... Q5SHP0 30782843
    78 6ndk:RY (3.64) BS01 rna ? GO:0003723 ... Q5SHP9 30782843
    79 6ndk:RZ (3.64) BS01 rna ? GO:0003723 ... Q5SHZ1 30782843
    80 6ndk:RZ (3.64) BS02 rna ? GO:0003723 ... Q5SHZ1 30782843
    81 6ndk:XB (3.64) BS01 rna ? GO:0003735 ... P80371 30782843
    82 6ndk:XC (3.64) BS01 rna ? GO:0003676 ... P80372 30782843
    83 6ndk:XD (3.64) BS01 rna ? GO:0003723 ... P80373 30782843
    84 6ndk:XD (3.64) BS02 SF4 ? GO:0003723 ... P80373 30782843
    85 6ndk:XE (3.64) BS01 rna ? GO:0003723 ... Q5SHQ5 30782843
    86 6ndk:XF (3.64) BS01 rna ? GO:0003735 ... Q5SLP8 30782843
    87 6ndk:XG (3.64) BS01 rna ? GO:0000028 ... P17291 30782843
    88 6ndk:XG (3.64) BS02 rna ? GO:0000028 ... P17291 30782843
    89 6ndk:XH (3.64) BS01 rna ? GO:0003735 ... P0DOY9 30782843
    90 6ndk:XI (3.64) BS01 rna ? GO:0000049 ... P80374 30782843
    91 6ndk:XJ (3.64) BS01 rna ? GO:0000049 ... Q5SHN7 30782843
    92 6ndk:XK (3.64) BS01 rna ? GO:0003735 ... P80376 30782843
    93 6ndk:XL (3.64) BS01 rna ? GO:0000049 ... Q5SHN3 30782843
    94 6ndk:XM (3.64) BS01 rna ? GO:0000049 ... P80377 30782843
    95 6ndk:XM (3.64) BS02 rna ? GO:0000049 ... P80377 30782843
    96 6ndk:XN (3.64) BS01 rna ? GO:0003735 ... P0DOY6 30782843
    97 6ndk:XN (3.64) BS02 ZN ? GO:0003735 ... P0DOY6 30782843
    98 6ndk:XO (3.64) BS01 rna ? GO:0003735 ... Q5SJ76 30782843
    99 6ndk:XO (3.64) BS02 rna ? GO:0003735 ... Q5SJ76 30782843
    100 6ndk:XP (3.64) BS01 rna ? GO:0003735 ... Q5SJH3 30782843
    101 6ndk:XQ (3.64) BS01 rna ? GO:0003735 ... P0DOY7 30782843
    102 6ndk:XR (3.64) BS01 rna ? GO:0003735 ... Q5SLQ0 30782843
    103 6ndk:XS (3.64) BS01 rna ? GO:0000028 ... Q5SHP2 30782843
    104 6ndk:XT (3.64) BS01 rna ? GO:0003723 ... P80380 30782843
    105 6ndk:Y0 (3.64) BS01 rna ? GO:0003735 ... P60493 30782843
    106 6ndk:Y0 (3.64) BS02 rna ? GO:0003735 ... P60493 30782843
    107 6ndk:Y1 (3.64) BS01 rna ? GO:0003735 ... P60494 30782843
    108 6ndk:Y1 (3.64) BS02 MG ? GO:0003735 ... P60494 30782843
    109 6ndk:Y2 (3.64) BS01 rna ? GO:0003735 ... Q5SHP6 30782843
    110 6ndk:Y3 (3.64) BS01 rna ? GO:0003735 ... Q5SHQ6 30782843
    111 6ndk:Y3 (3.64) BS02 rna ? GO:0003735 ... Q5SHQ6 30782843
    112 6ndk:Y4 (3.64) BS01 rna ? GO:0003735 ... Q5SJE1 30782843
    113 6ndk:Y4 (3.64) BS02 ZN ? GO:0003735 ... Q5SJE1 30782843
    114 6ndk:Y5 (3.64) BS01 rna ? GO:0003735 ... P80339 30782843
    115 6ndk:Y6 (3.64) BS01 rna ? GO:0000049 ... P35871 30782843
    116 6ndk:Y7 (3.64) BS01 rna ? GO:0003735 ... P80340 30782843
    117 6ndk:Y8 (3.64) BS01 rna ? GO:0003735 ... Q5SKU1 30782843
    118 6ndk:Y9 (3.64) BS01 rna ? GO:0003735 ... Q5SHR2 30782843
    119 6ndk:YD (3.64) BS01 rna ? GO:0002181 ... P60405 30782843
    120 6ndk:YD (3.64) BS02 MG ? GO:0002181 ... P60405 30782843
    121 6ndk:YD (3.64) BS03 MG ? GO:0002181 ... P60405 30782843
    122 6ndk:YD (3.64) BS04 MG ? GO:0002181 ... P60405 30782843
    123 6ndk:YE (3.64) BS01 rna ? GO:0003735 ... Q5SHN8 30782843
    124 6ndk:YF (3.64) BS01 rna ? GO:0003735 ... Q5SHN9 30782843
    125 6ndk:YF (3.64) BS02 MG ? GO:0003735 ... Q5SHN9 30782843
    126 6ndk:YG (3.64) BS01 rna ? GO:0000049 ... Q5SHQ0 30782843
    127 6ndk:YG (3.64) BS02 rna ? GO:0000049 ... Q5SHQ0 30782843
    128 6ndk:YG (3.64) BS03 rna ? GO:0000049 ... Q5SHQ0 30782843
    129 6ndk:YG (3.64) BS04 MG ? GO:0000049 ... Q5SHQ0 30782843
    130 6ndk:YH (3.64) BS01 rna ? GO:0002181 ... P0DOY8 30782843
    131 6ndk:YI (3.64) BS01 rna ? GO:0003735 ... Q5SLQ1 30782843
    132 6ndk:YI (3.64) BS02 rna ? GO:0003735 ... Q5SLQ1 30782843
    133 6ndk:YN (3.64) BS01 rna ? GO:0003729 ... P60488 30782843
    134 6ndk:YO (3.64) BS01 rna ? GO:0003735 ... Q5SHP8 30782843
    135 6ndk:YO (3.64) BS02 rna ? GO:0003735 ... Q5SHP8 30782843
    136 6ndk:YP (3.64) BS01 rna ? GO:0003735 ... Q5SHQ7 30782843
    137 6ndk:YQ (3.64) BS01 rna ? GO:0000049 ... P60489 30782843
    138 6ndk:YQ (3.64) BS02 rna ? GO:0000049 ... P60489 30782843
    139 6ndk:YQ (3.64) BS03 MG ? GO:0000049 ... P60489 30782843
    140 6ndk:YR (3.64) BS01 rna ? GO:0003735 ... Q9Z9H5 30782843
    141 6ndk:YS (3.64) BS01 rna ? GO:0003735 ... Q5SHQ4 30782843
    142 6ndk:YS (3.64) BS02 rna ? GO:0003735 ... Q5SHQ4 30782843
    143 6ndk:YT (3.64) BS01 rna ? GO:0003735 ... P60490 30782843
    144 6ndk:YT (3.64) BS02 rna ? GO:0003735 ... P60490 30782843
    145 6ndk:YU (3.64) BS01 rna ? GO:0000027 ... P60491 30782843
    146 6ndk:YV (3.64) BS01 rna ? GO:0003723 ... P60492 30782843
    147 6ndk:YW (3.64) BS01 rna ? GO:0003735 ... Q5SHP3 30782843
    148 6ndk:YX (3.64) BS01 rna ? GO:0000027 ... Q5SHP0 30782843
    149 6ndk:YY (3.64) BS01 rna ? GO:0003723 ... Q5SHP9 30782843
    150 6ndk:YZ (3.64) BS01 rna ? GO:0003723 ... Q5SHZ1 30782843
    151 6ndk:YZ (3.64) BS02 rna ? GO:0003723 ... Q5SHZ1 30782843

    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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