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●TM-score ●TM-align ●US-align ●MM-align ●RNA-align ●NW-align ●LS-align ●EDTSurf ●MVP ●MVP-Fit ●SPICKER ●HAAD ●PSSpred ●3DRobot ●MR-REX ●I-TASSER-MR ●SVMSEQ ●NeBcon ●ResPRE ●TripletRes ●DeepPotential ●WDL-RF ●ATPbind ●DockRMSD ●DeepMSA ●FASPR ●EM-Refiner ●GPU-I-TASSER

●BioLiP ●E. coli ●GLASS ●GPCR-HGmod ●GPCR-RD ●GPCR-EXP ●Tara-3D ●TM-fold ●DECOYS ●POTENTIAL ●RW/RWplus ●EvoEF ●HPSF ●THE-DB ●ADDRESS ●Alpaca-Antibody ●CASP7 ●CASP8 ●CASP9 ●CASP10 ●CASP11 ●CASP12 ●CASP13 ●CASP14

BioLiP
Download all results in tab-seperated text for 211 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 5dgv:C0 (3.1) BS01 rna ? GO:0000054 ... Q08745 N/A
    2 5dgv:C1 (3.1) BS01 rna ? GO:0000028 ... P0CX47 N/A
    3 5dgv:C2 (3.1) BS01 rna ? GO:0000028 ... P48589 N/A
    4 5dgv:C3 (3.1) BS01 rna ? GO:0000462 ... P05756 N/A
    5 5dgv:C3 (3.1) BS02 rna ? GO:0000462 ... P05756 N/A
    6 5dgv:C4 (3.1) BS01 rna ? GO:0000028 ... P06367 N/A
    7 5dgv:C5 (3.1) BS01 rna ? GO:0000028 ... Q01855 N/A
    8 5dgv:C5 (3.1) BS02 rna ? GO:0000028 ... Q01855 N/A
    9 5dgv:C6 (3.1) BS01 rna ? GO:0000462 ... P0CX51 N/A
    10 5dgv:C7 (3.1) BS01 rna ? GO:0000028 ... P02407 N/A
    11 5dgv:C8 (3.1) BS01 rna ? GO:0000054 ... P0CX55 N/A
    12 5dgv:C9 (3.1) BS01 rna ? GO:0000028 ... P07280 N/A
    13 5dgv:D0 (3.1) BS01 rna ? GO:0000462 ... P38701 N/A
    14 5dgv:D2 (3.1) BS01 rna ? GO:0002181 ... P0C0W1 N/A
    15 5dgv:D3 (3.1) BS01 rna ? GO:0000462 ... P0CX29 N/A
    16 5dgv:D4 (3.1) BS01 rna ? GO:0000462 ... P0CX31 N/A
    17 5dgv:D5 (3.1) BS01 rna ? GO:0002181 ... Q3E792 N/A
    18 5dgv:D6 (3.1) BS01 rna ? GO:0003735 ... P39939 N/A
    19 5dgv:D6 (3.1) BS02 ZN ? GO:0003735 ... P39939 N/A
    20 5dgv:D7 (3.1) BS01 rna ? GO:0000028 ... P35997 N/A
    21 5dgv:D8 (3.1) BS01 rna ? GO:0000028 ... Q3E7X9 N/A
    22 5dgv:D9 (3.1) BS01 rna ? GO:0002181 ... P41057 N/A
    23 5dgv:D9 (3.1) BS02 ZN ? GO:0002181 ... P41057 N/A
    24 5dgv:E0 (3.1) BS01 rna ? GO:0002181 ... P0CX33 N/A
    25 5dgv:E1 (3.1) BS01 rna ? GO:0003735 ... P05759 N/A
    26 5dgv:E1 (3.1) BS02 ZN ? GO:0003735 ... P05759 N/A
    27 5dgv:L2 (3.1) BS01 rna ? GO:0002181 ... P0CX45 N/A
    28 5dgv:L2 (3.1) BS02 rna ? GO:0002181 ... P0CX45 N/A
    29 5dgv:L3 (3.1) BS01 rna ? GO:0000027 ... P14126 N/A
    30 5dgv:L4 (3.1) BS01 rna ? GO:0002181 ... P10664 N/A
    31 5dgv:L4 (3.1) BS02 rna ? GO:0002181 ... P10664 N/A
    32 5dgv:L5 (3.1) BS01 rna ? GO:0000027 ... P26321 N/A
    33 5dgv:L5 (3.1) BS02 rna ? GO:0000027 ... P26321 N/A
    34 5dgv:L6 (3.1) BS01 rna ? GO:0000027 ... Q02326 N/A
    35 5dgv:L7 (3.1) BS01 rna ? GO:0000463 ... P05737 N/A
    36 5dgv:L7 (3.1) BS02 rna ? GO:0000463 ... P05737 N/A
    37 5dgv:L8 (3.1) BS01 rna N/A GO:0042254 ... N/A N/A
    38 5dgv:L8 (3.1) BS02 rna N/A GO:0042254 ... N/A N/A
    39 5dgv:L9 (3.1) BS01 rna ? GO:0002181 ... P05738 N/A
    40 5dgv:M0 (3.1) BS01 rna ? GO:0000027 ... P41805 N/A
    41 5dgv:M0 (3.1) BS02 rna ? GO:0000027 ... P41805 N/A
    42 5dgv:M1 (3.1) BS01 rna ? GO:0000027 ... Q3E757 N/A
    43 5dgv:M1 (3.1) BS02 rna ? GO:0000027 ... Q3E757 N/A
    44 5dgv:M3 (3.1) BS01 rna ? GO:0002181 ... Q12690 N/A
    45 5dgv:M3 (3.1) BS02 rna ? GO:0002181 ... Q12690 N/A
    46 5dgv:M4 (3.1) BS01 rna ? GO:0000027 ... P36105 N/A
    47 5dgv:M5 (3.1) BS01 rna ? GO:0002181 ... P05748 N/A
    48 5dgv:M5 (3.1) BS02 rna ? GO:0002181 ... P05748 N/A
    49 5dgv:M6 (3.1) BS01 rna ? GO:0000470 ... P26784 N/A
    50 5dgv:M7 (3.1) BS01 rna ? GO:0000448 ... P05740 N/A
    51 5dgv:M7 (3.1) BS02 rna ? GO:0000448 ... P05740 N/A
    52 5dgv:M8 (3.1) BS01 rna ? GO:0002181 ... P0CX49 N/A
    53 5dgv:M9 (3.1) BS01 rna ? GO:0002181 ... P0CX82 N/A
    54 5dgv:M9 (3.1) BS02 rna ? GO:0002181 ... P0CX82 N/A
    55 5dgv:N0 (3.1) BS01 rna ? GO:0002181 ... P0CX23 N/A
    56 5dgv:N0 (3.1) BS02 rna ? GO:0002181 ... P0CX23 N/A
    57 5dgv:N1 (3.1) BS01 rna ? GO:0002181 ... Q02753 N/A
    58 5dgv:N1 (3.1) BS02 rna ? GO:0002181 ... Q02753 N/A
    59 5dgv:N2 (3.1) BS01 rna ? GO:0002181 ... P05749 N/A
    60 5dgv:N3 (3.1) BS01 rna ? GO:0002181 ... P0CX41 N/A
    61 5dgv:N3 (3.1) BS02 rna ? GO:0002181 ... P0CX41 N/A
    62 5dgv:N4 (3.1) BS01 rna ? GO:0002181 ... P04449 N/A
    63 5dgv:N4 (3.1) BS02 rna ? GO:0002181 ... P04449 N/A
    64 5dgv:N5 (3.1) BS01 rna ? GO:0000027 ... P04456 N/A
    65 5dgv:N5 (3.1) BS02 rna ? GO:0000027 ... P04456 N/A
    66 5dgv:N6 (3.1) BS01 rna ? GO:0002181 ... P05743 N/A
    67 5dgv:N6 (3.1) BS02 rna ? GO:0002181 ... P05743 N/A
    68 5dgv:N7 (3.1) BS01 rna ? GO:0002181 ... P0C2H6 N/A
    69 5dgv:N8 (3.1) BS01 rna ? GO:0002181 ... P02406 N/A
    70 5dgv:N9 (3.1) BS01 rna ? GO:0002181 ... P05747 N/A
    71 5dgv:O0 (3.1) BS01 rna ? GO:0002181 ... P14120 N/A
    72 5dgv:O1 (3.1) BS01 rna ? GO:0002181 ... P0C2H8 N/A
    73 5dgv:O2 (3.1) BS01 rna ? GO:0002181 ... P38061 N/A
    74 5dgv:O3 (3.1) BS01 rna ? GO:0000027 ... P05744 N/A
    75 5dgv:O4 (3.1) BS01 rna ? GO:0002181 ... P87262 N/A
    76 5dgv:O5 (3.1) BS01 rna ? GO:0000463 ... P0CX84 N/A
    77 5dgv:O5 (3.1) BS02 rna ? GO:0000463 ... P0CX84 N/A
    78 5dgv:O6 (3.1) BS01 rna ? GO:0002181 ... P05745 N/A
    79 5dgv:O7 (3.1) BS01 rna ? GO:0000448 ... P49166 N/A
    80 5dgv:O7 (3.1) BS02 rna ? GO:0000448 ... P49166 N/A
    81 5dgv:O7 (3.1) BS03 ZN ? GO:0000448 ... P49166 N/A
    82 5dgv:O8 (3.1) BS01 rna ? GO:0002181 ... P49167 N/A
    83 5dgv:O9 (3.1) BS01 rna ? GO:0002181 ... P04650 N/A
    84 5dgv:O9 (3.1) BS02 rna ? GO:0002181 ... P04650 N/A
    85 5dgv:Q0 (3.1) BS01 rna ? GO:0003735 ... P0CH08 N/A
    86 5dgv:Q0 (3.1) BS02 ZN ? GO:0003735 ... P0CH08 N/A
    87 5dgv:Q2 (3.1) BS01 rna ? GO:0002181 ... P0CX27 N/A
    88 5dgv:Q2 (3.1) BS02 ZN ? GO:0002181 ... P0CX27 N/A
    89 5dgv:Q3 (3.1) BS01 rna ? GO:0002181 ... P0CX25 N/A
    90 5dgv:Q3 (3.1) BS02 ZN ? GO:0002181 ... P0CX25 N/A
    91 5dgv:S0 (3.1) BS01 rna ? GO:0000028 ... P32905 N/A
    92 5dgv:S1 (3.1) BS01 rna ? GO:0000462 ... P33442 N/A
    93 5dgv:S2 (3.1) BS01 rna ? GO:0000054 ... P25443 N/A
    94 5dgv:S3 (3.1) BS01 rna ? GO:0000054 ... P05750 N/A
    95 5dgv:S4 (3.1) BS01 rna ? GO:0002181 ... P0CX35 N/A
    96 5dgv:S5 (3.1) BS01 rna ? GO:0000028 ... P26783 N/A
    97 5dgv:S6 (3.1) BS01 rna ? GO:0000462 ... P0CX37 N/A
    98 5dgv:S7 (3.1) BS01 rna ? GO:0002181 ... P26786 N/A
    99 5dgv:S8 (3.1) BS01 rna ? GO:0000462 ... P0CX39 N/A
    100 5dgv:S8 (3.1) BS02 rna ? GO:0000462 ... P0CX39 N/A
    101 5dgv:S9 (3.1) BS01 rna ? GO:0000462 ... O13516 N/A
    102 5dgv:SM (3.1) BS01 rna N/A N/A N/A N/A
    103 5dgv:SM (3.1) BS02 rna N/A N/A N/A N/A
    104 5dgv:SR (3.1) BS01 rna ? GO:0001965 ... P38011 N/A
    105 5dgv:c0 (3.1) BS01 rna ? GO:0000054 ... Q08745 N/A
    106 5dgv:c1 (3.1) BS01 rna ? GO:0000028 ... P0CX47 N/A
    107 5dgv:c2 (3.1) BS01 rna ? GO:0000028 ... P48589 N/A
    108 5dgv:c3 (3.1) BS01 rna ? GO:0000462 ... P05756 N/A
    109 5dgv:c3 (3.1) BS02 rna ? GO:0000462 ... P05756 N/A
    110 5dgv:c4 (3.1) BS01 rna ? GO:0000028 ... P06367 N/A
    111 5dgv:c5 (3.1) BS01 rna ? GO:0000028 ... Q01855 N/A
    112 5dgv:c6 (3.1) BS01 rna ? GO:0000462 ... P0CX51 N/A
    113 5dgv:c7 (3.1) BS01 rna ? GO:0000028 ... P02407 N/A
    114 5dgv:c8 (3.1) BS01 rna ? GO:0000054 ... P0CX55 N/A
    115 5dgv:c9 (3.1) BS01 rna ? GO:0000028 ... P07280 N/A
    116 5dgv:d0 (3.1) BS01 rna ? GO:0000462 ... P38701 N/A
    117 5dgv:d1 (3.1) BS01 rna ? GO:0000447 ... P0C0V8 N/A
    118 5dgv:d2 (3.1) BS01 rna ? GO:0002181 ... P0C0W1 N/A
    119 5dgv:d3 (3.1) BS01 rna ? GO:0000462 ... P0CX29 N/A
    120 5dgv:d4 (3.1) BS01 rna ? GO:0000462 ... P0CX31 N/A
    121 5dgv:d5 (3.1) BS01 rna ? GO:0002181 ... Q3E792 N/A
    122 5dgv:d6 (3.1) BS01 rna ? GO:0003735 ... P39939 N/A
    123 5dgv:d6 (3.1) BS02 ZN ? GO:0003735 ... P39939 N/A
    124 5dgv:d7 (3.1) BS01 rna ? GO:0000028 ... P35997 N/A
    125 5dgv:d8 (3.1) BS01 rna ? GO:0000028 ... Q3E7X9 N/A
    126 5dgv:d9 (3.1) BS01 rna ? GO:0002181 ... P41057 N/A
    127 5dgv:d9 (3.1) BS02 ZN ? GO:0002181 ... P41057 N/A
    128 5dgv:e0 (3.1) BS01 rna ? GO:0002181 ... P0CX33 N/A
    129 5dgv:e1 (3.1) BS01 rna ? GO:0003735 ... P05759 N/A
    130 5dgv:l2 (3.1) BS01 rna ? GO:0002181 ... P0CX45 N/A
    131 5dgv:l2 (3.1) BS02 rna ? GO:0002181 ... P0CX45 N/A
    132 5dgv:l3 (3.1) BS01 rna ? GO:0000027 ... P14126 N/A
    133 5dgv:l4 (3.1) BS01 rna ? GO:0002181 ... P10664 N/A
    134 5dgv:l4 (3.1) BS02 rna ? GO:0002181 ... P10664 N/A
    135 5dgv:l5 (3.1) BS01 rna ? GO:0000027 ... P26321 N/A
    136 5dgv:l5 (3.1) BS02 rna ? GO:0000027 ... P26321 N/A
    137 5dgv:l6 (3.1) BS01 rna ? GO:0000027 ... Q02326 N/A
    138 5dgv:l7 (3.1) BS01 rna ? GO:0000463 ... P05737 N/A
    139 5dgv:l7 (3.1) BS02 rna ? GO:0000463 ... P05737 N/A
    140 5dgv:l8 (3.1) BS01 rna N/A GO:0042254 ... N/A N/A
    141 5dgv:l8 (3.1) BS02 rna N/A GO:0042254 ... N/A N/A
    142 5dgv:l9 (3.1) BS01 rna ? GO:0002181 ... P05738 N/A
    143 5dgv:m0 (3.1) BS01 rna ? GO:0000027 ... P41805 N/A
    144 5dgv:m0 (3.1) BS02 rna ? GO:0000027 ... P41805 N/A
    145 5dgv:m1 (3.1) BS01 rna ? GO:0000027 ... Q3E757 N/A
    146 5dgv:m1 (3.1) BS02 rna ? GO:0000027 ... Q3E757 N/A
    147 5dgv:m2 (3.1) BS01 rna N/A N/A N/A N/A
    148 5dgv:m3 (3.1) BS01 rna ? GO:0002181 ... Q12690 N/A
    149 5dgv:m3 (3.1) BS02 rna ? GO:0002181 ... Q12690 N/A
    150 5dgv:m4 (3.1) BS01 rna ? GO:0000027 ... P36105 N/A
    151 5dgv:m5 (3.1) BS01 rna ? GO:0002181 ... P05748 N/A
    152 5dgv:m5 (3.1) BS02 rna ? GO:0002181 ... P05748 N/A
    153 5dgv:m6 (3.1) BS01 rna ? GO:0000470 ... P26784 N/A
    154 5dgv:m7 (3.1) BS01 rna ? GO:0000448 ... P05740 N/A
    155 5dgv:m7 (3.1) BS02 rna ? GO:0000448 ... P05740 N/A
    156 5dgv:m8 (3.1) BS01 rna ? GO:0002181 ... P0CX49 N/A
    157 5dgv:m9 (3.1) BS01 rna ? GO:0002181 ... P0CX82 N/A
    158 5dgv:m9 (3.1) BS02 rna ? GO:0002181 ... P0CX82 N/A
    159 5dgv:n0 (3.1) BS01 rna ? GO:0002181 ... P0CX23 N/A
    160 5dgv:n0 (3.1) BS02 rna ? GO:0002181 ... P0CX23 N/A
    161 5dgv:n1 (3.1) BS01 rna ? GO:0002181 ... Q02753 N/A
    162 5dgv:n1 (3.1) BS02 rna ? GO:0002181 ... Q02753 N/A
    163 5dgv:n2 (3.1) BS01 rna ? GO:0002181 ... P05749 N/A
    164 5dgv:n3 (3.1) BS01 rna ? GO:0002181 ... P0CX41 N/A
    165 5dgv:n3 (3.1) BS02 rna ? GO:0002181 ... P0CX41 N/A
    166 5dgv:n4 (3.1) BS01 rna ? GO:0002181 ... P04449 N/A
    167 5dgv:n4 (3.1) BS02 rna ? GO:0002181 ... P04449 N/A
    168 5dgv:n5 (3.1) BS01 rna ? GO:0000027 ... P04456 N/A
    169 5dgv:n5 (3.1) BS02 rna ? GO:0000027 ... P04456 N/A
    170 5dgv:n6 (3.1) BS01 rna ? GO:0002181 ... P05743 N/A
    171 5dgv:n6 (3.1) BS02 rna ? GO:0002181 ... P05743 N/A
    172 5dgv:n7 (3.1) BS01 rna ? GO:0002181 ... P0C2H6 N/A
    173 5dgv:n8 (3.1) BS01 rna ? GO:0002181 ... P02406 N/A
    174 5dgv:n9 (3.1) BS01 rna ? GO:0002181 ... P05747 N/A
    175 5dgv:o0 (3.1) BS01 rna ? GO:0002181 ... P14120 N/A
    176 5dgv:o1 (3.1) BS01 rna ? GO:0002181 ... P0C2H8 N/A
    177 5dgv:o2 (3.1) BS01 rna ? GO:0002181 ... P38061 N/A
    178 5dgv:o3 (3.1) BS01 rna ? GO:0000027 ... P05744 N/A
    179 5dgv:o4 (3.1) BS01 rna ? GO:0002181 ... P87262 N/A
    180 5dgv:o5 (3.1) BS01 rna ? GO:0000463 ... P0CX84 N/A
    181 5dgv:o5 (3.1) BS02 rna ? GO:0000463 ... P0CX84 N/A
    182 5dgv:o6 (3.1) BS01 rna ? GO:0002181 ... P05745 N/A
    183 5dgv:o7 (3.1) BS01 rna ? GO:0000448 ... P49166 N/A
    184 5dgv:o7 (3.1) BS02 rna ? GO:0000448 ... P49166 N/A
    185 5dgv:o7 (3.1) BS03 ZN ? GO:0000448 ... P49166 N/A
    186 5dgv:o8 (3.1) BS01 rna ? GO:0002181 ... P49167 N/A
    187 5dgv:o9 (3.1) BS01 rna ? GO:0002181 ... P04650 N/A
    188 5dgv:o9 (3.1) BS02 rna ? GO:0002181 ... P04650 N/A
    189 5dgv:p0 (3.1) BS01 rna ? GO:0000027 ... P05317 N/A
    190 5dgv:q0 (3.1) BS01 rna ? GO:0003735 ... P0CH08 N/A
    191 5dgv:q0 (3.1) BS02 ZN ? GO:0003735 ... P0CH08 N/A
    192 5dgv:q2 (3.1) BS01 rna ? GO:0002181 ... P0CX27 N/A
    193 5dgv:q2 (3.1) BS02 ZN ? GO:0002181 ... P0CX27 N/A
    194 5dgv:q3 (3.1) BS01 rna ? GO:0002181 ... P0CX25 N/A
    195 5dgv:q3 (3.1) BS02 rna ? GO:0002181 ... P0CX25 N/A
    196 5dgv:q3 (3.1) BS03 ZN ? GO:0002181 ... P0CX25 N/A
    197 5dgv:s0 (3.1) BS01 rna ? GO:0000028 ... P32905 N/A
    198 5dgv:s1 (3.1) BS01 rna ? GO:0000462 ... P33442 N/A
    199 5dgv:s1 (3.1) BS02 rna ? GO:0000462 ... P33442 N/A
    200 5dgv:s2 (3.1) BS01 rna ? GO:0000054 ... P25443 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).
  • 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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