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BioLiP
Download all results in tab-seperated text for 6479 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 1a4r:A (2.5) BS01 GDP 3.6.5.2 GO:0000139 ... P60953 10211824 MOAD: Kd=9.4pM
    2 1aa9:A (-1.00) BS02 GDP 3.6.5.2 GO:0000139 ... P01112 9230043
    3 1agr:A (2.8) BS03 GDP ? GO:0000287 ... P10824 9108480
    4 1agr:D (2.8) BS03 GDP ? GO:0000287 ... P10824 9108480
    5 1an0:A (2.8) BS01 GDP 3.6.5.2 GO:0000139 ... P60953 N/A
    6 1an0:B (2.8) BS01 GDP 3.6.5.2 GO:0000139 ... P60953 N/A
    7 1as2:A (2.8) BS01 GDP ? GO:0000287 ... P10824 9398294
    8 1as3:A (2.4) BS01 GDP ? GO:0000287 ... P10824 9398294
    9 1bhn:A (2.4) BS02 GDP 2.7.4.6 GO:0004550 ... P52174 10329774
    10 1bhn:B (2.4) BS02 GDP 2.7.4.6 GO:0004550 ... P52174 10329774
    11 1bhn:C (2.4) BS02 GDP 2.7.4.6 GO:0004550 ... P52174 10329774
    12 1bhn:D (2.4) BS02 GDP 2.7.4.6 GO:0004550 ... P52174 10329774
    13 1bhn:E (2.4) BS02 GDP 2.7.4.6 GO:0004550 ... P52174 10329774
    14 1bhn:F (2.4) BS02 GDP 2.7.4.6 GO:0004550 ... P52174 10329774
    15 1bof:A (2.2) BS02 GDP ? GO:0000287 ... P10824 9772163
    16 1byu:A (2.15) BS01 GDP 3.6.5.- GO:0000054 ... P62825 9878368
    17 1byu:B (2.15) BS01 GDP 3.6.5.- GO:0000054 ... P62825 9878368
    18 1cc0:A (5.0) BS02 GDP 3.6.5.2 GO:0000902 ... P61586 10489445
    19 1cc0:C (5.0) BS02 GDP 3.6.5.2 GO:0000902 ... P61586 10489445
    20 1cg0:A (2.5) BS04 GDP 6.3.4.4 GO:0000166 ... P0A7D4 10346917
    21 1cg1:A (2.5) BS04 GDP 6.3.4.4 GO:0000166 ... P0A7D4 10346917
    22 1cg3:A (2.5) BS04 GDP 6.3.4.4 GO:0000166 ... P0A7D4 10346917
    23 1cg4:A (2.5) BS03 GDP 6.3.4.4 GO:0000166 ... P0A7D4 10346917
    24 1cib:A (2.3) BS02 GDP 6.3.4.4 GO:0000166 ... P0A7D4 10364182
    25 1clq:A (2.7) BS07 GDP 2.7.7.7
    3.1.11.-    		 GO:0000166 ... Q38087 10535734
    26 1crp:A (-1.00) BS01 GDP 3.6.5.2 GO:0003924 ... P01112 8142349
    27 1crq:A (-1.00) BS01 GDP 3.6.5.2 GO:0003924 ... P01112 8142349
    28 1crr:A (-1.00) BS02 GDP 3.6.5.2 GO:0003924 ... P01112 8142349
    29 1d2e:A (1.94) BS01 GDP ? GO:0003746 ... P49410 10715211 MOAD: Kd=1uM
    PDBbind: -logKd/Ki=6.00, Kd=1uM
    30 1d2e:B (1.94) BS01 GDP ? GO:0003746 ... P49410 10715211 MOAD: Kd=1uM
    31 1d2e:C (1.94) BS01 GDP ? GO:0003746 ... P49410 10715211 MOAD: Kd=1uM
    32 1d2e:D (1.94) BS01 GDP ? GO:0003746 ... P49410 10715211 MOAD: Kd=1uM
    33 1d5c:A (2.3) BS01 GDP ? GO:0003924 ... Q26000 10944329
    34 1d8t:A (2.35) BS02 GDP ? GO:0003723 ... P0CE47 10625477
    35 1d8t:B (2.35) BS02 GDP ? GO:0003723 ... P0CE47 10625477
    36 1dar:A (2.4) BS01 GDP ? GO:0003746 ... Q5SHN5 8736554 MOAD: Kd=11uM
    PDBbind: -logKd/Ki=4.96, Kd=11uM
    37 1dg1:G (2.5) BS01 GDP ? GO:0003723 ... P0CE48 8939740
    38 1dg1:H (2.5) BS01 GDP ? GO:0003723 ... P0CE48 8939740
    39 1dj2:A (2.9) BS01 GDP 6.3.4.4 GO:0000166 ... Q96529 10669609
    40 1dj2:B (2.9) BS01 GDP 6.3.4.4 GO:0000166 ... Q96529 10669609
    41 1dj3:A (3.0) BS01 GDP 6.3.4.4 GO:0000166 ... O24396 10669609
    42 1dj3:B (3.0) BS01 GDP 6.3.4.4 GO:0000166 ... O24396 10669609
    43 1doa:A (2.6) BS02 GDP 3.6.5.2 GO:0000139 ... P60953 10676816
    44 1dpf:A (2.0) BS01 GDP 3.6.5.2 GO:0000902 ... P61586 10748207
    45 1ds6:A (2.35) BS02 GDP ? GO:0003924 ... P15153 10655614
    46 1e0s:A (2.28) BS01 GDP 3.6.5.2 GO:0001726 ... P62330 10881192
    47 1efc:A (2.05) BS01 GDP ? GO:0003723 ... P0CE47 9918724
    48 1efc:B (2.05) BS01 GDP ? GO:0003723 ... P0CE47 9918724
    49 1efg:A (2.7) BS01 GDP ? GO:0003746 ... Q5SHN5 8070396
    50 1efm:A (2.7) BS01 GDP ? GO:0003723 ... P0CE48 3898365
    51 1ek0:A (1.48) BS03 GDP ? GO:0003924 ... P36017 10756108
    52 1etu:A (2.9) BS01 GDP ? GO:0003723 ... P0CE47 3908095
    53 1f6b:A (1.7) BS02 GDP 3.6.5.2 GO:0003400 ... Q9QVY3 11739406
    54 1f6b:B (1.7) BS01 GDP 3.6.5.2 GO:0003400 ... Q9QVY3 11739406
    55 1ffx:B (3.95) BS01 GDP ? GO:0000226 ... P02554 11030624
    56 1ffx:D (3.95) BS01 GDP ? GO:0000226 ... P02554 11030624
    57 1fnm:A (2.8) BS01 GDP ? GO:0000287 ... P13551 11054294
    58 1fqj:A (2.02) BS03 GDP ? GO:0003924 ... P04695
    P10824    		 11234020
    59 1fqj:D (2.02) BS03 GDP ? GO:0003924 ... P04695
    P10824    		 11234020
    60 1fqk:A (2.3) BS03 GDP ? GO:0003924 ... P04695
    P10824    		 11234020
    61 1fqk:C (2.3) BS03 GDP ? GO:0003924 ... P04695
    P10824    		 11234020
    62 1fsz:A (2.8) BS01 GDP ? GO:0000917 ... Q57816 9428770
    63 1ftn:A (2.1) BS02 GDP 3.6.5.2 GO:0000902 ... P61586 9302995
    64 1fzq:A (1.7) BS01 GDP ? GO:0000139 ... Q9WUL7 11188688 MOAD: Kd=24nM
    PDBbind: -logKd/Ki=7.62, Kd=24nM
    65 1g16:A (1.8) BS02 GDP ? GO:0003924 ... P07560 11099382
    66 1g16:B (1.8) BS01 GDP ? GO:0003924 ... P07560 11099382
    67 1g16:C (1.8) BS01 GDP ? GO:0003924 ... P07560 11099382
    68 1g16:D (1.8) BS02 GDP ? GO:0003924 ... P07560 11099382
    69 1g4u:R (2.3) BS02 GDP 3.6.5.2 GO:0001764 ... P63000 11163217
    70 1g4u:S (2.3) BS01 GDP 3.1.3.48 GO:0004725 ... P74873 11163217
    71 1g7s:A (2.0) BS01 GDP ? GO:0003743 ... O26359 11114334
    72 1gdd:A (2.2) BS01 GDP ? GO:0000287 ... P10824 7481799
    73 1gfi:A (2.2) BS03 GDP ? GO:0000287 ... P10824 8073283
    74 1gg2:A (2.4) BS01 GDP ? GO:0000287 ... P10824 8521505
    75 1gim:A (2.5) BS04 GDP 6.3.4.4 GO:0000166 ... P0A7D4 9000627
    76 1gin:A (2.8) BS04 GDP 6.3.4.4 GO:0000166 ... P0A7D4 9000627
    77 1git:A (2.6) BS02 GDP ? GO:0000287 ... P10824 8939752
    78 1got:A (2.0) BS01 GDP ? GO:0000035 ... P04695 8552184
    79 1gp2:A (2.3) BS01 GDP ? GO:0000287 ... P10824 8521505
    80 1grn:A (2.1) BS02 GDP 3.6.5.2 GO:0000139 ... P60953 9846874
    81 1h2t:Z (2.1) BS01 GDP ? GO:0000184 ... P52298 12374755 PDBbind: -logKd/Ki=7.89, Kd=13nM
    82 1h2u:X (2.4) BS01 GDP ? GO:0000184 ... P52298 12374755 PDBbind: -logKd/Ki=7.89, Kd=13nM
    83 1h2u:Y (2.4) BS01 GDP ? GO:0000184 ... P52298 12374755
    84 1h65:A (2.0) BS01 GDP 3.6.5.- GO:0005525 ... Q41009 11753431
    85 1h65:B (2.0) BS01 GDP 3.6.5.- GO:0005525 ... Q41009 11753431
    86 1h65:B (2.0) BS03 GDP 3.6.5.- GO:0005525 ... Q41009 11753431
    87 1h65:C (2.0) BS01 GDP 3.6.5.- GO:0005525 ... Q41009 11753431
    88 1h65:C (2.0) BS02 GDP 3.6.5.- GO:0005525 ... Q41009 11753431
    89 1ha3:A (2.0) BS01 GDP 3.1.5.1 GO:0003723 ... Q5SHN6 11278992
    90 1ha3:B (2.0) BS01 GDP 3.1.5.1 GO:0003723 ... Q5SHN6 11278992
    91 1he1:A (2.0) BS01 GDP ? GO:0005096 ... Q51451 11135665
    92 1he1:B (2.0) BS01 GDP ? GO:0005096 ... Q51451 11135665
    93 1he1:C (2.0) BS01 GDP 3.6.5.2 GO:0001764 ... P63000 11135665
    94 1he1:D (2.0) BS01 GDP 3.6.5.2 GO:0001764 ... P63000 11135665
    95 1hh4:A (2.7) BS01 GDP 3.6.5.2 GO:0001764 ... P63000 11513578
    96 1hh4:B (2.7) BS01 GDP 3.6.5.2 GO:0001764 ... P63000 11513578
    97 1hur:A (2.0) BS02 GDP 3.6.5.2 GO:0000139 ... P84077 7990966
    98 1hur:B (2.0) BS02 GDP 3.6.5.2 GO:0000139 ... P84077 7990966
    99 1i4d:D (2.5) BS01 GDP 3.6.5.2 GO:0001764 ... P63000 11346801 MOAD: Kd=3uM
    100 1i4l:D (2.7) BS01 GDP 3.6.5.2 GO:0001764 ... P63000 11346801
    101 1ia0:B (15.0) BS01 GDP ? GO:0000226 ... P02554 11373668
    102 1ije:A (2.4) BS01 GDP ? GO:0000329 ... P02994 11373622
    103 1ijf:A (3.0) BS01 GDP ? GO:0000329 ... P02994 11373622
    104 1ioz:A (2.0) BS01 GDP 3.6.5.2 GO:0000139 ... P01112 12836672
    105 1jff:B (3.5) BS01 GDP ? GO:0000226 ... Q6B856 11700061
    106 1jny:A (1.8) BS01 GDP ? GO:0003746 ... P35021 11574461
    107 1jny:B (1.8) BS01 GDP ? GO:0003746 ... P35021 11574461
    108 1juy:A (2.5) BS02 GDP 6.3.4.4 GO:0000166 ... P0A7D4 8961938
    109 1jwy:A (2.3) BS04 GDP ? GO:0003774 ... P08799
    Q94464    		 11689422
    110 1k5g:A (3.1) BS02 GDP 3.6.5.- GO:0000054 ... P62826 11832950
    111 1k5g:D (3.1) BS02 GDP 3.6.5.- GO:0000054 ... P62826 11832950
    112 1k5g:G (3.1) BS02 GDP 3.6.5.- GO:0000054 ... P62826 11832950
    113 1k5g:J (3.1) BS02 GDP 3.6.5.- GO:0000054 ... P62826 11832950
    114 1kao:A (1.7) BS01 GDP 3.6.5.2 GO:0000287 ... P10114 9312017
    115 1kjy:A (2.7) BS01 GDP ? GO:0000287 ... P63096 11976690
    116 1kjy:C (2.7) BS01 GDP ? GO:0000287 ... P63096 11976690
    117 1kk2:A (2.1) BS02 GDP 3.6.5.3 GO:0000049 ... Q9V1G0 11927566
    118 1kk3:A (1.9) BS02 GDP 3.6.5.3 GO:0000049 ... Q9V1G0 11927566
    119 1ksh:A (1.8) BS02 GDP ? GO:0003924 ... Q9D0J4 11980706
    120 1ksj:A (2.6) BS02 GDP ? GO:0003924 ... Q9D0J4 11980706
    121 1ksz:A (2.8) BS02 GDP 6.3.4.4 GO:0000166 ... P0A7D4 9182542
    122 1kv3:A (2.8) BS01 GDP 2.3.1.-
    2.3.2.13
    3.4.-.-
    3.5.1.44    		 GO:0000785 ... P21980 11867708
    123 1kv3:B (2.8) BS01 GDP 2.3.1.-
    2.3.2.13
    3.4.-.-
    3.5.1.44    		 GO:0000785 ... P21980 11867708
    124 1kv3:C (2.8) BS01 GDP 2.3.1.-
    2.3.2.13
    3.4.-.-
    3.5.1.44    		 GO:0000785 ... P21980 11867708
    125 1kv3:D (2.8) BS01 GDP 2.3.1.-
    2.3.2.13
    3.4.-.-
    3.5.1.44    		 GO:0000785 ... P21980 11867708
    126 1kv3:E (2.8) BS01 GDP 2.3.1.-
    2.3.2.13
    3.4.-.-
    3.5.1.44    		 GO:0000785 ... P21980 11867708
    127 1kv3:F (2.8) BS01 GDP 2.3.1.-
    2.3.2.13
    3.4.-.-
    3.5.1.44    		 GO:0000785 ... P21980 11867708
    128 1ky3:A (1.35) BS01 GDP ? GO:0003924 ... P32939 11937061
    129 1lf5:A (1.7) BS01 GDP 3.6.5.2 GO:0003924 ... P01112 12213964
    130 1lny:A (2.2) BS03 GDP 6.3.4.4 GO:0000166 ... P28650 12004071
    131 1lny:B (2.2) BS02 GDP 6.3.4.4 GO:0000166 ... P28650 12004071
    132 1lon:A (2.1) BS04 GDP 6.3.4.4 GO:0000166 ... P28650 12004071
    133 1mez:A (2.4) BS03 GDP 6.3.4.4 GO:0000166 ... P28650 12186864
    134 1mf0:A (2.5) BS04 GDP 6.3.4.4 GO:0000166 ... P28650 12186864
    135 1mky:A (1.9) BS01 GDP ? GO:0005525 ... Q9X1F8 12467572
    136 1moz:A (3.17) BS01 GDP ? GO:0000407 ... P38116 11535602
    137 1moz:B (3.17) BS01 GDP ? GO:0000407 ... P38116 11535602
    138 1mre:L (2.3) BS02 GDP N/A N/A N/A 7523684
    139 1n1h:A (2.8) BS05 GDP 2.7.7.48 GO:0000166 ... P0CK31 12464184
    140 1n6i:A (1.6) BS02 GDP 3.6.5.2 GO:0003924 ... P20339 12433916
    141 1n6k:A (1.55) BS02 GDP 3.6.5.2 GO:0003924 ... P20339 12433916
    142 1n7h:A (1.8) BS02 GDP 4.2.1.47 GO:0005525 ... P93031 12501186
    143 1n7h:B (1.8) BS02 GDP 4.2.1.47 GO:0005525 ... P93031 12501186
    144 1ng1:A (2.03) BS01 GDP 3.6.5.4 GO:0003924 ... O07347 10426959
    145 1nht:A (2.5) BS02 GDP 6.3.4.4 GO:0000166 ... P0A7D4 9182542
    146 1nue:A (2.0) BS01 GDP 2.7.13.3
    2.7.4.6    		 GO:0001726 ... P22392 8747457
    147 1nue:B (2.0) BS01 GDP 2.7.13.3
    2.7.4.6    		 GO:0001726 ... P22392 8747457
    148 1nue:C (2.0) BS01 GDP 2.7.13.3
    2.7.4.6    		 GO:0001726 ... P22392 8747457
    149 1nue:D (2.0) BS01 GDP 2.7.13.3
    2.7.4.6    		 GO:0001726 ... P22392 8747457
    150 1nue:E (2.0) BS01 GDP 2.7.13.3
    2.7.4.6    		 GO:0001726 ... P22392 8747457
    151 1nue:F (2.0) BS01 GDP 2.7.13.3
    2.7.4.6    		 GO:0001726 ... P22392 8747457
    152 1o87:A (2.1) BS01 GDP 3.6.5.4 GO:0003924 ... O07347 14696184
    153 1o87:B (2.1) BS01 GDP 3.6.5.4 GO:0003924 ... O07347 14696184
    154 1ofu:A (2.1) BS01 GDP ? GO:0003924 ... P47204 12808143
    155 1ofu:B (2.1) BS01 GDP ? GO:0003924 ... P47204 12808143
    156 1oiv:A (1.98) BS01 GDP 3.6.5.2 GO:0003924 ... P62491 14699104
    157 1oiv:B (1.98) BS01 GDP 3.6.5.2 GO:0003924 ... P62491 14699104
    158 1oix:A (1.7) BS01 GDP 3.6.5.2 GO:0003924 ... P62491 15837192
    159 1ow3:B (1.8) BS02 GDP 3.6.5.2 GO:0000902 ... P61586 11927263
    160 1p9b:A (2.0) BS04 GDP 6.3.4.4 GO:0000166 ... Q9U8D3 14729341
    161 1pll:A (2.8) BS01 GDP 3.6.5.2 GO:0003924 ... P01112 15299412
    162 1q21:A (2.2) BS01 GDP 3.6.5.2 GO:0000139 ... P01112 1899707
    163 1qf4:A (2.2) BS03 GDP 6.3.4.4 GO:0000166 ... P0A7D4 10556888
    164 1qf5:A (2.0) BS03 GDP 6.3.4.4 GO:0000166 ... P0A7D4 10556888
    165 1qg2:A (2.5) BS01 GDP 3.6.5.- GO:0000054 ... P62825 10356329
    166 1qg4:A (2.5) BS01 GDP 3.6.5.- GO:0000054 ... P62825 10356329
    167 1qg4:B (2.5) BS01 GDP 3.6.5.- GO:0000054 ... P62825 10356329
    168 1r5n:A (2.9) BS01 GDP 3.6.5.- GO:0000288 ... O74718 15099522 PDBbind: -logKd/Ki=5.42, Kd=3.8uM
    169 1r8s:A (1.46) BS01 GDP 3.6.5.2 GO:0000139 ... P84080 14654833
    170 1re0:A (2.4) BS01 GDP 3.6.5.2 GO:0000139 ... P84077 14690595
    171 1rpn:A (2.15) BS02 GDP 4.2.1.47 GO:0008446 ... Q51366 14739333
    172 1rpn:B (2.15) BS02 GDP 4.2.1.47 GO:0008446 ... Q51366 14739333
    173 1rpn:C (2.15) BS03 GDP 4.2.1.47 GO:0008446 ... Q51366 14739333
    174 1rpn:D (2.15) BS03 GDP 4.2.1.47 GO:0008446 ... Q51366 14739333
    175 1rq7:A (2.6) BS01 GDP ? GO:0000287 ... P9WN95 15342249
    176 1rrf:A (3.0) BS01 GDP 3.6.5.2 GO:0000139 ... P84079 7552752
    177 1rrg:A (2.4) BS01 GDP 3.6.5.2 GO:0000139 ... P84079 7552752
    178 1rrg:B (2.4) BS01 GDP 3.6.5.2 GO:0000139 ... P84079 7552752
    179 1rya:A (1.3) BS02 GDP 3.6.1.- GO:0000287 ... P32056 15274914
    180 1rya:B (1.3) BS02 GDP 3.6.1.- GO:0000287 ... P32056 15274914
    181 1ryf:A (1.75) BS01 GDP 3.6.5.2 GO:0003924 ... P63000 14625275 PDBbind: -logKd/Ki=8.80, Kd=1.6nM
    182 1ryf:B (1.75) BS01 GDP 3.6.5.2 GO:0003924 ... P63000 14625275
    183 1s4o:A (2.01) BS02 GDP 2.4.1.- GO:0000030 ... P27809 14752117
    184 1s4o:B (2.01) BS02 GDP 2.4.1.- GO:0000030 ... P27809 14752117
    185 1s4p:A (2.01) BS03 GDP 2.4.1.- GO:0000030 ... P27809 14752117
    186 1s4p:B (2.01) BS03 GDP 2.4.1.- GO:0000030 ... P27809 14752117
    187 1s8f:A (1.77) BS01 GDP ? GO:0003924 ... P24408 15196914
    188 1s8f:B (1.77) BS01 GDP ? GO:0003924 ... P24408 15196914
    189 1s9d:A (1.8) BS01 GDP 3.6.5.2 GO:0000139 ... P84080 14654833
    190 1sa0:B (3.58) BS01 GDP ? GO:0000226 ... Q6B856 15014504
    191 1sa0:D (3.58) BS01 GDP ? GO:0000226 ... Q6B856 15014504
    192 1sa1:B (4.2) BS01 GDP ? GO:0000226 ... Q6B856 15014504
    193 1sa1:D (4.2) BS01 GDP ? GO:0000226 ... Q6B856 15014504
    194 1shz:A (2.85) BS03 GDP ? GO:0003924 ... P10824
    P27601    		 15665872
    195 1shz:D (2.85) BS03 GDP ? GO:0003924 ... P10824
    P27601    		 15665872
    196 1siw:A (2.2) BS01 GDP 1.7.5.1 GO:0005515 ... P09152 15122898
    197 1skq:A (1.8) BS01 GDP ? GO:0003746 ... P35021 15157096
    198 1skq:B (1.8) BS01 GDP ? GO:0003746 ... P35021 15157096
    199 1svi:A (1.95) BS01 GDP ? GO:0000917 ... P38424 15136032
    200 1svk:A (2.0) BS03 GDP 3.6.1.46 GO:0000287 ... P10824 15128951
    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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