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BioLiP
Download all results in tab-seperated text for 459 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 1cgp:A (3.0) BS04 CMP ? GO:0003677 ... P0ACJ8 1653449
    2 1cgp:B (3.0) BS04 CMP ? GO:0003677 ... P0ACJ8 1653449
    3 1cgp:B (3.0) BS05 CMP ? GO:0003677 ... P0ACJ8 1653449
    4 1cx4:A (2.45) BS01 CMP ? GO:0001932 ... P12369 11342137
    5 1cx4:A (2.45) BS02 CMP ? GO:0001932 ... P12369 11342137
    6 1g6n:A (2.1) BS01 CMP ? GO:0003677 ... P0ACJ8 11124031
    7 1g6n:B (2.1) BS01 CMP ? GO:0003677 ... P0ACJ8 11124031
    8 1hw5:A (1.82) BS01 CMP ? GO:0003677 ... P0ACJ8 11124966 Manual survey: Kb=2.0+-0.3M^-1 (11124966)
    9 1hw5:A (1.82) BS02 CMP ? GO:0003677 ... P0ACJ8 11124966 Manual survey: Kb=2.0+-0.3M^-1 (11124966)
    10 1hw5:B (1.82) BS01 CMP ? GO:0003677 ... P0ACJ8 11124966 Manual survey: Kb=2.0+-0.3M^-1 (11124966)
    11 1hw5:B (1.82) BS02 CMP ? GO:0003677 ... P0ACJ8 11124966 Manual survey: Kb=2.0+-0.3M^-1 (11124966)
    12 1i5z:A (1.9) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    13 1i5z:A (1.9) BS02 CMP ? GO:0003677 ... P0ACJ8 N/A
    14 1i5z:B (1.9) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    15 1i6x:A (2.2) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    16 1i6x:A (2.2) BS02 CMP ? GO:0003677 ... P0ACJ8 N/A
    17 1i6x:B (2.2) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    18 1j59:A (2.5) BS03 CMP ? GO:0003677 ... P0ACJ8 8757802
    19 1j59:B (2.5) BS03 CMP ? GO:0003677 ... P0ACJ8 8757802
    20 1j59:B (2.5) BS04 CMP ? GO:0003677 ... P0ACJ8 8757802
    21 1lb2:A (3.1) BS03 CMP ? GO:0003677 ... P0ACJ8 12202833
    22 1lpc:A (1.7) BS01 CMP 3.2.2.22 GO:0006952 ... P24476 15553110
    23 1nhk:L (1.9) BS01 CMP 2.7.4.6 GO:0004550 ... P15266 7783219
    24 1nhk:R (1.9) BS01 CMP 2.7.4.6 GO:0004550 ... P15266 7783219
    25 1o3q:A (3.0) BS03 CMP ? GO:0003677 ... P0ACJ8 11724532
    26 1o3q:A (3.0) BS04 CMP ? GO:0003677 ... P0ACJ8 11724532
    27 1o3r:A (3.0) BS03 CMP ? GO:0003677 ... P0ACJ8 11724532
    28 1o3r:A (3.0) BS04 CMP ? GO:0003677 ... P0ACJ8 11724532
    29 1o3s:A (3.0) BS03 CMP ? GO:0003677 ... P0ACJ8 11724533
    30 1o3s:A (3.0) BS04 CMP ? GO:0003677 ... P0ACJ8 11724533
    31 1o3t:A (2.8) BS03 CMP ? GO:0003677 ... P0ACJ8 11724532
    32 1o3t:B (2.8) BS03 CMP ? GO:0003677 ... P0ACJ8 11724532
    33 1o3t:B (2.8) BS04 CMP ? GO:0003677 ... P0ACJ8 11724532
    34 1q43:A (2.0) BS01 CMP ? N/A O88703 12968185
    35 1q43:B (2.0) BS01 CMP ? N/A O88703 12968185
    36 1q5o:A (2.3) BS01 CMP ? N/A O88703 12968185
    37 1rgs:A (2.8) BS01 CMP 2.7.1.37 GO:0001932 ... P00514 7638597
    38 1rgs:A (2.8) BS02 CMP 2.7.1.37 GO:0001932 ... P00514 7638597
    39 1run:A (2.7) BS03 CMP ? GO:0003677 ... P0ACJ8 8836098
    40 1run:A (2.7) BS04 CMP ? GO:0003677 ... P0ACJ8 8836098
    41 1run:B (2.7) BS03 CMP ? GO:0003677 ... P0ACJ8 8836098
    42 1run:B (2.7) BS04 CMP ? GO:0003677 ... P0ACJ8 8836098
    43 1ruo:A (2.7) BS03 CMP ? GO:0003677 ... P0ACJ8 8836098
    44 1ruo:A (2.7) BS04 CMP ? GO:0003677 ... P0ACJ8 8836098
    45 1ruo:B (2.7) BS03 CMP ? GO:0003677 ... P0ACJ8 8836098
    46 1ruo:B (2.7) BS04 CMP ? GO:0003677 ... P0ACJ8 8836098
    47 1sk6:A (3.2) BS04 CMP 4.6.1.1 GO:0005576 ... P40136 15131111
    48 1sk6:B (3.2) BS03 CMP 4.6.1.1 GO:0005576 ... P40136 15131111
    49 1sk6:C (3.2) BS04 CMP 4.6.1.1 GO:0005576 ... P40136 15131111
    50 1vp6:A (1.7) BS01 CMP ? GO:0005221 ... Q98GN8 15550244
    51 1vp6:C (1.7) BS01 CMP ? GO:0005221 ... Q98GN8 15550244
    52 1xfw:A (3.4) BS02 CMP 4.6.1.1 GO:0003824 ... P40136 15719022
    53 1xfw:B (3.4) BS02 CMP 4.6.1.1 GO:0003824 ... P40136 15719022
    54 1xfw:C (3.4) BS02 CMP 4.6.1.1 GO:0003824 ... P40136 15719022
    55 1xfw:D (3.4) BS02 CMP 4.6.1.1 GO:0003824 ... P40136 15719022
    56 1xfw:E (3.4) BS02 CMP 4.6.1.1 GO:0003824 ... P40136 15719022
    57 1xfw:F (3.4) BS02 CMP 4.6.1.1 GO:0003824 ... P40136 15719022
    58 1ykd:A (1.9) BS01 CMP 4.6.1.1 N/A P94182 15708973
    59 1ykd:A (1.9) BS02 CMP 4.6.1.1 N/A P94182 15708973
    60 1ykd:B (1.9) BS01 CMP 4.6.1.1 N/A P94182 15708973
    61 1ykd:B (1.9) BS02 CMP 4.6.1.1 N/A P94182 15708973
    62 1z5u:A (2.3) BS02 CMP 3.1.3.2 GO:0003993 ... Q540U1 N/A
    63 1z5u:B (2.3) BS02 CMP 3.1.3.2 GO:0003993 ... Q540U1 N/A
    64 1z5u:C (2.3) BS02 CMP 3.1.3.2 GO:0003993 ... Q540U1 N/A
    65 1z5u:D (2.3) BS02 CMP 3.1.3.2 GO:0003993 ... Q540U1 N/A
    66 1zrc:A (2.8) BS03 CMP ? GO:0003677 ... P0ACJ8 16427082
    67 1zrc:B (2.8) BS03 CMP ? GO:0003677 ... P0ACJ8 16427082
    68 1zrd:A (2.8) BS03 CMP ? GO:0003677 ... P0ACJ8 16427082
    69 1zrd:B (2.8) BS03 CMP ? GO:0003677 ... P0ACJ8 16427082
    70 1zre:A (2.8) BS03 CMP ? GO:0003677 ... P0ACJ8 16427082
    71 1zre:B (2.8) BS03 CMP ? GO:0003677 ... P0ACJ8 16427082
    72 1zrf:A (2.1) BS03 CMP ? GO:0003677 ... P0ACJ8 16427082
    73 1zrf:A (2.1) BS04 CMP ? GO:0003677 ... P0ACJ8 16427082
    74 1zrf:B (2.1) BS03 CMP ? GO:0003677 ... P0ACJ8 16427082
    75 1zrf:B (2.1) BS04 CMP ? GO:0003677 ... P0ACJ8 16427082
    76 2cgp:A (2.2) BS03 CMP ? GO:0003677 ... P0ACJ8 9096308
    77 2cgp:A (2.2) BS04 CMP ? GO:0003677 ... P0ACJ8 9096308
    78 2gzw:A (2.21) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    79 2gzw:A (2.21) BS02 CMP ? GO:0003677 ... P0ACJ8 N/A
    80 2gzw:B (2.21) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    81 2gzw:B (2.21) BS02 CMP ? GO:0003677 ... P0ACJ8 N/A
    82 2gzw:C (2.21) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    83 2gzw:C (2.21) BS02 CMP ? GO:0003677 ... P0ACJ8 N/A
    84 2gzw:D (2.21) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    85 2gzw:D (2.21) BS02 CMP ? GO:0003677 ... P0ACJ8 N/A
    86 2k0g:A (-1.00) BS01 CMP ? GO:0005221 ... Q98GN8 19465888 PDBbind: -logKd/Ki=6.97, Kd=107nM
    87 2our:A (1.45) BS01 CMP 3.1.4.17 GO:0004114 ... Q9Y233 17389385 Manual survey: Km=56nM (17389385)
    88 2ouy:A (1.9) BS02 CMP 3.1.4.17 GO:0004114 ... Q9Y233 17389385 Manual survey: Km=56nM (17389385)
    89 2oz6:A (2.8) BS01 CMP ? GO:0000976 ... P55222 21665969 Manual survey: Kd=1.0uM (21665969)
    PDBbind: -logKd/Ki=5.26, Kd=5.5uM
    90 2oz6:A (2.8) BS02 CMP ? GO:0000976 ... P55222 21665969 Manual survey: Kd=1.0uM (21665969)
    PDBbind: -logKd/Ki=5.26, Kd=5.5uM
    91 2ptm:A (1.93) BS01 CMP ? N/A O76977 17562314 Manual survey: K1/2=1.1uM (17562314)
    92 2pw3:A (1.56) BS02 CMP 3.1.4.53 GO:0004114 ... Q08499 17582435 Manual survey: Km=56nM (17562314)
    93 2pw3:B (1.56) BS02 CMP 3.1.4.53 GO:0004114 ... Q08499 17582435 Manual survey: Km=56nM (17562314)
    94 2zmf:A (2.1) BS01 CMP 3.1.4.17 N/A Q9Y233 18477562
    95 2zmf:B (2.1) BS01 CMP 3.1.4.17 N/A Q9Y233 18477562
    96 3bpz:A (1.65) BS01 CMP ? N/A O88703 18367452
    97 3bpz:B (1.65) BS01 CMP ? N/A O88703 18367452
    98 3bpz:C (1.65) BS01 CMP ? N/A O88703 18367452
    99 3bpz:D (1.65) BS01 CMP ? N/A O88703 18367452
    100 3clp:A (2.0) BS01 CMP ? GO:0005221 ... Q98GN8 18619611 PDBbind: -logKd/Ki=3.69, Kd=205.1uM
    101 3clp:C (2.0) BS01 CMP ? GO:0005221 ... Q98GN8 18619611
    102 3etq:A (1.9) BS01 CMP ? N/A O88703 19525958 Manual survey: Kd=920+-240nM (19525958)
    103 3etq:B (1.9) BS01 CMP ? N/A O88703 19525958 Manual survey: Kd=920+-240nM (19525958)
    104 3gyd:A (1.79) BS01 CMP ? GO:0000166 ... Q1GZZ4 N/A
    105 3gyd:B (1.79) BS01 CMP ? GO:0000166 ... Q1GZZ4 N/A
    106 3h3u:B (2.9) BS01 CMP ? GO:0003677 ... P9WMH3 20338852
    107 3i54:A (2.2) BS01 CMP ? GO:0003677 ... P9WMH3 19740754
    108 3i54:B (2.2) BS01 CMP ? GO:0003677 ... P9WMH3 19740754
    109 3i54:C (2.2) BS01 CMP ? GO:0003677 ... P9WMH3 19740754
    110 3i54:D (2.2) BS01 CMP ? GO:0003677 ... P9WMH3 19740754
    111 3iyd:G (19.8) BS03 CMP ? GO:0003677 ... P0ACJ8 19903881
    112 3iyd:H (19.8) BS03 CMP ? GO:0003677 ... P0ACJ8 19903881
    113 3kcc:A (1.66) BS01 CMP ? GO:0003677 ... P0ACJ8 21255606
    114 3kcc:A (1.66) BS02 CMP ? GO:0003677 ... P0ACJ8 21255606
    115 3kcc:B (1.66) BS01 CMP ? GO:0003677 ... P0ACJ8 21255606
    116 3kcc:B (1.66) BS02 CMP ? GO:0003677 ... P0ACJ8 21255606
    117 3mzh:A (2.9) BS03 CMP ? GO:0003677 ... P9WMH3 N/A
    118 3mzh:B (2.9) BS03 CMP ? GO:0003677 ... P9WMH3 N/A
    119 3mzh:B (2.9) BS04 CMP ? GO:0003677 ... P9WMH3 N/A
    120 3mzh:B (2.9) BS05 CMP ? GO:0003677 ... P9WMH3 N/A
    121 3n10:A (1.6) BS01 CMP 4.6.1.1 GO:0000166 ... A0A2U2H3Y1 21094652
    122 3n10:B (1.6) BS01 CMP 4.6.1.1 GO:0000166 ... A0A2U2H3Y1 21094652
    123 3n4m:A (2.987) BS03 CMP ? GO:0003677 ... P0ACJ8 33205945
    124 3ocp:A (2.49) BS01 CMP 2.7.11.12 N/A Q13976 21526164 Manual survey: Kd=27+-3.6nM (21526164)
    MOAD: Kd=27nM
    PDBbind: -logKd/Ki=7.57, Kd=27nM
    125 3ocp:B (2.49) BS01 CMP 2.7.11.12 N/A Q13976 21526164 Manual survey: Kd=27+-3.6nM (21526164)
    MOAD: Kd=27nM
    126 3of1:A (2.21) BS01 CMP ? N/A P07278 21070946
    127 3of1:A (2.21) BS02 CMP ? N/A P07278 21070946
    128 3ogj:A (2.751) BS01 CMP 2.7.11.12 N/A Q13976 21526164 Manual survey: Kd=27+-3.6nM (21526164)
    129 3ogj:B (2.751) BS01 CMP 2.7.11.12 N/A Q13976 21526164 Manual survey: Kd=27+-3.6nM (21526164)
    130 3otf:A (2.4) BS01 CMP ? N/A Q9Y3Q4 20829353 MOAD: Kd=0.83uM
    PDBbind: -logKd/Ki=6.08, Kd=0.83uM
    131 3pna:A (1.503) BS01 CMP 2.7.1.37 N/A P00514 21081668
    132 3pna:B (1.503) BS01 CMP 2.7.1.37 N/A P00514 21081668
    133 3qop:A (1.96) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    134 3qop:B (1.96) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    135 3r6s:A (2.38) BS01 CMP ? GO:0000976 ... Q79VI7 N/A
    136 3r6s:B (2.38) BS01 CMP ? GO:0000976 ... Q79VI7 N/A
    137 3r6s:C (2.38) BS01 CMP ? GO:0000976 ... Q79VI7 N/A
    138 3r6s:D (2.38) BS01 CMP ? GO:0000976 ... Q79VI7 N/A
    139 3r6s:E (2.38) BS01 CMP ? GO:0000976 ... Q79VI7 N/A
    140 3r6s:F (2.38) BS01 CMP ? GO:0000976 ... Q79VI7 N/A
    141 3rdi:A (2.95) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    142 3rdi:B (2.95) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    143 3rou:A (2.1) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    144 3rou:A (2.1) BS02 CMP ? GO:0003677 ... P0ACJ8 N/A
    145 3rou:A (2.1) BS03 CMP ? GO:0003677 ... P0ACJ8 N/A
    146 3rou:B (2.1) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    147 3rou:B (2.1) BS02 CMP ? GO:0003677 ... P0ACJ8 N/A
    148 3rpq:A (2.61) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    149 3rpq:A (2.61) BS02 CMP ? GO:0003677 ... P0ACJ8 N/A
    150 3rpq:B (2.61) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    151 3rpq:B (2.61) BS02 CMP ? GO:0003677 ... P0ACJ8 N/A
    152 3ryp:A (1.6) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    153 3ryp:B (1.6) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    154 3ryr:A (2.7) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    155 3ryr:A (2.7) BS02 CMP ? GO:0003677 ... P0ACJ8 N/A
    156 3ryr:B (2.7) BS01 CMP ? GO:0003677 ... P0ACJ8 N/A
    157 3shr:A (2.5) BS01 CMP 2.7.11.12 GO:0001932 ... P00516 21893290
    158 3shr:B (2.5) BS01 CMP 2.7.11.12 GO:0001932 ... P00516 21893290
    159 3u0z:A (2.9) BS01 CMP ? N/A O88704 22006928 Manual survey: Kd=39.7nM (22006928)
    160 3u0z:B (2.9) BS01 CMP ? N/A O88704 22006928 Manual survey: Kd=39.7nM (22006928)
    161 3u10:A (2.3) BS01 CMP ? N/A Q9UL51 22006928 Manual survey: Kd=82.0nM (22006928)
    PDBbind: -logKd/Ki=5.44, Kd=3.6uM
    162 3u11:A (2.5) BS01 CMP ? N/A Q9Y3Q4 22006928 Manual survey: Kd=39.2nM (22006928)
    163 3u11:B (2.5) BS01 CMP ? N/A Q9Y3Q4 22006928 Manual survey: Kd=39.2nM (22006928)
    164 4a2u:A (2.63) BS01 CMP N/A GO:0003677 ... N/A N/A
    165 4a2u:A (2.63) BS02 CMP N/A GO:0003677 ... N/A N/A
    166 4a2u:B (2.63) BS01 CMP N/A GO:0003677 ... N/A N/A
    167 4a2u:C (2.63) BS01 CMP N/A GO:0003677 ... N/A N/A
    168 4a2u:D (2.63) BS01 CMP N/A GO:0003677 ... N/A N/A
    169 4a2u:D (2.63) BS02 CMP N/A GO:0003677 ... N/A N/A
    170 4a2u:E (2.63) BS01 CMP N/A GO:0003677 ... N/A N/A
    171 4a2u:F (2.63) BS01 CMP N/A GO:0003677 ... N/A N/A
    172 4a2u:G (2.63) BS01 CMP N/A GO:0003677 ... N/A N/A
    173 4a2u:G (2.63) BS02 CMP N/A GO:0003677 ... N/A N/A
    174 4a2u:H (2.63) BS01 CMP N/A GO:0003677 ... N/A N/A
    175 4avb:A (1.8) BS01 CMP 2.3.1.- GO:0003700 ... O05581 22773105
    176 4avb:B (1.8) BS01 CMP 2.3.1.- GO:0003700 ... O05581 22773105
    177 4avc:A (2.806) BS01 CMP 2.3.1.- GO:0003700 ... O05581 22773105
    178 4avc:B (2.806) BS01 CMP 2.3.1.- GO:0003700 ... O05581 22773105
    179 4clp:A (1.9) BS01 CMP 4.6.1.1 GO:0009190 ... Q96PN6 24567411 MOAD: Kd=54.2mM
    PDBbind: -logKd/Ki=1.27, Kd=54.2mM
    180 4clp:A (1.9) BS02 CMP 4.6.1.1 GO:0009190 ... Q96PN6 24567411 MOAD: Kd=54.2mM
    PDBbind: -logKd/Ki=1.27, Kd=54.2mM
    181 4clt:A (1.95) BS02 CMP 4.6.1.1 GO:0009190 ... Q96PN6 24567411 MOAD: Ki=54.2uM
    182 4clt:A (1.95) BS03 CMP 4.6.1.1 GO:0009190 ... Q96PN6 24567411 MOAD: Ki=54.2uM
    183 4cyd:A (1.82) BS02 CMP ? GO:0000166 ... H7C677 25469635 MOAD: Kd=17uM
    184 4cyd:B (1.82) BS02 CMP ? GO:0000166 ... H7C677 25469635 MOAD: Kd=17uM
    185 4cyd:C (1.82) BS02 CMP ? GO:0000166 ... H7C677 25469635 MOAD: Kd=17uM
    186 4cyd:D (1.82) BS02 CMP ? GO:0000166 ... H7C677 25469635 MOAD: Kd=17uM
    187 4d7t:A (2.582) BS01 CMP ? GO:0005221 ... E0RR11 25625648
    188 4d7t:B (2.582) BS01 CMP ? GO:0005221 ... E0RR11 25625648
    189 4ev0:A (2.402) BS01 CMP ? GO:0000166 ... Q5SID7 N/A
    190 4ev0:D (2.402) BS01 CMP ? GO:0000166 ... Q5SID7 N/A
    191 4ft8:A (1.966) BS01 CMP ? GO:0003677 ... P0ACJ8 24817710
    192 4ft8:B (1.966) BS01 CMP ? GO:0003677 ... P0ACJ8 24817710
    193 4hbn:A (2.6) BS01 CMP ? N/A Q9Y3Q4 23103389 PDBbind: -logKd/Ki=6.10, Kd=0.8uM
    194 4hzf:A (1.48) BS01 CMP ? GO:0003677 ... P0ACJ8 24058293
    195 4hzf:A (1.48) BS02 CMP ? GO:0003677 ... P0ACJ8 24058293
    196 4hzf:B (1.48) BS01 CMP ? GO:0003677 ... P0ACJ8 24058293
    197 4i01:A (2.3) BS01 CMP ? GO:0003677 ... P0ACJ8 24058293
    198 4i01:A (2.3) BS02 CMP ? GO:0003677 ... P0ACJ8 24058293
    199 4i01:B (2.3) BS01 CMP ? GO:0003677 ... P0ACJ8 24058293
    200 4i02:A (1.75) BS01 CMP ? GO:0003677 ... P0ACJ8 24058293

    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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