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●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 432 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 1amu:A (1.9) BS01 PHE 5.1.1.11 N/A P0C061 9250661
    2 1amu:B (1.9) BS02 PHE 5.1.1.11 N/A P0C061 9250661
    3 1b70:A (2.7) BS01 PHE 6.1.1.20 GO:0000049 ... P27001 10092459
    4 1c1d:A (1.25) BS01 PHE 1.4.1.20 GO:0000166 ... Q59771 10924111
    5 1c1d:B (1.25) BS01 PHE 1.4.1.20 GO:0000166 ... Q59771 10924111
    6 1f2p:A (1.8) BS04 PHE 3.4.11.24 GO:0004177 ... P80561 11484227 MOAD: Ki=12.7mM
    PDBbind: -logKd/Ki=1.90, Ki=12.7mM
    7 1i7a:D (2.24) BS01 PHE ? GO:0007216 ... Q9QWW1 11491285
    8 1is7:K (2.8) BS01 PHE ? GO:0004857 ... P70552 11818540
    9 1is7:K (2.8) BS02 PHE ? GO:0004857 ... P70552 11818540
    10 1is7:L (2.8) BS01 PHE ? GO:0004857 ... P70552 11818540
    11 1is7:L (2.8) BS02 PHE ? GO:0004857 ... P70552 11818540
    12 1is7:M (2.8) BS01 PHE ? GO:0004857 ... P70552 11818540
    13 1is7:M (2.8) BS02 PHE ? GO:0004857 ... P70552 11818540
    14 1is7:N (2.8) BS01 PHE ? GO:0004857 ... P70552 11818540
    15 1is7:N (2.8) BS02 PHE ? GO:0004857 ... P70552 11818540
    16 1is7:O (2.8) BS01 PHE ? GO:0004857 ... P70552 11818540
    17 1is7:O (2.8) BS02 PHE ? GO:0004857 ... P70552 11818540
    18 1is7:P (2.8) BS01 PHE ? GO:0004857 ... P70552 11818540
    19 1is7:P (2.8) BS02 PHE ? GO:0004857 ... P70552 11818540
    20 1is7:Q (2.8) BS01 PHE ? GO:0004857 ... P70552 11818540
    21 1is7:Q (2.8) BS02 PHE ? GO:0004857 ... P70552 11818540
    22 1is7:R (2.8) BS01 PHE ? GO:0004857 ... P70552 11818540
    23 1is7:R (2.8) BS02 PHE ? GO:0004857 ... P70552 11818540
    24 1is7:S (2.8) BS01 PHE ? GO:0004857 ... P70552 11818540
    25 1is7:S (2.8) BS02 PHE ? GO:0004857 ... P70552 11818540
    26 1is7:T (2.8) BS01 PHE ? GO:0004857 ... P70552 11818540
    27 1is7:T (2.8) BS02 PHE ? GO:0004857 ... P70552 11818540
    28 1is8:K (2.7) BS01 PHE ? GO:0004857 ... P70552 11818540
    29 1is8:K (2.7) BS02 PHE ? GO:0004857 ... P70552 11818540
    30 1is8:L (2.7) BS01 PHE ? GO:0004857 ... P70552 11818540
    31 1is8:L (2.7) BS02 PHE ? GO:0004857 ... P70552 11818540
    32 1is8:M (2.7) BS01 PHE ? GO:0004857 ... P70552 11818540
    33 1is8:M (2.7) BS02 PHE ? GO:0004857 ... P70552 11818540
    34 1is8:N (2.7) BS01 PHE ? GO:0004857 ... P70552 11818540
    35 1is8:N (2.7) BS02 PHE ? GO:0004857 ... P70552 11818540
    36 1is8:O (2.7) BS01 PHE ? GO:0004857 ... P70552 11818540
    37 1is8:O (2.7) BS02 PHE ? GO:0004857 ... P70552 11818540
    38 1is8:P (2.7) BS01 PHE ? GO:0004857 ... P70552 11818540
    39 1is8:P (2.7) BS02 PHE ? GO:0004857 ... P70552 11818540
    40 1is8:Q (2.7) BS01 PHE ? GO:0004857 ... P70552 11818540
    41 1is8:Q (2.7) BS02 PHE ? GO:0004857 ... P70552 11818540
    42 1is8:R (2.7) BS01 PHE ? GO:0004857 ... P70552 11818540
    43 1is8:R (2.7) BS02 PHE ? GO:0004857 ... P70552 11818540
    44 1is8:S (2.7) BS01 PHE ? GO:0004857 ... P70552 11818540
    45 1is8:S (2.7) BS02 PHE ? GO:0004857 ... P70552 11818540
    46 1is8:T (2.7) BS01 PHE ? GO:0004857 ... P70552 11818540
    47 1is8:T (2.7) BS02 PHE ? GO:0004857 ... P70552 11818540
    48 1kfl:A (2.8) BS02 PHE 2.5.1.54 GO:0003849 ... P0AB91 12126632
    49 1kfl:B (2.8) BS02 PHE 2.5.1.54 GO:0003849 ... P0AB91 12126632
    50 1kfl:C (2.8) BS02 PHE 2.5.1.54 GO:0003849 ... P0AB91 12126632
    51 1kfl:D (2.8) BS02 PHE 2.5.1.54 GO:0003849 ... P0AB91 12126632
    52 1kfl:E (2.8) BS02 PHE 2.5.1.54 GO:0003849 ... P0AB91 12126632
    53 1kfl:E (2.8) BS04 PHE 2.5.1.54 GO:0003849 ... P0AB91 12126632
    54 1kfl:F (2.8) BS02 PHE 2.5.1.54 GO:0003849 ... P0AB91 12126632
    55 1kfl:G (2.8) BS02 PHE 2.5.1.54 GO:0003849 ... P0AB91 12126632
    56 1kfl:H (2.8) BS01 PHE 2.5.1.54 GO:0003849 ... P0AB91 12126632
    57 1kfl:H (2.8) BS03 PHE 2.5.1.54 GO:0003849 ... P0AB91 12126632
    58 1ofr:C (2.7) BS02 PHE 2.5.1.54 GO:0003849 ... P32449 15019786
    59 1ofr:C (2.7) BS03 PHE 2.5.1.54 GO:0003849 ... P32449 15019786
    60 1ofr:D (2.7) BS01 PHE 2.5.1.54 GO:0003849 ... P32449 15019786
    61 1ofr:D (2.7) BS03 PHE 2.5.1.54 GO:0003849 ... P32449 15019786
    62 1ofr:G (2.7) BS02 PHE 2.5.1.54 GO:0003849 ... P32449 15019786
    63 1ofr:H (2.7) BS02 PHE 2.5.1.54 GO:0003849 ... P32449 15019786
    64 1ofr:H (2.7) BS03 PHE 2.5.1.54 GO:0003849 ... P32449 15019786
    65 1og0:A (2.7) BS02 PHE 2.5.1.54 GO:0003849 ... P32449 N/A
    66 1og0:B (2.7) BS01 PHE 2.5.1.54 GO:0003849 ... P32449 N/A
    67 1og0:C (2.7) BS02 PHE 2.5.1.54 GO:0003849 ... P32449 N/A
    68 1og0:C (2.7) BS03 PHE 2.5.1.54 GO:0003849 ... P32449 N/A
    69 1og0:D (2.7) BS01 PHE 2.5.1.54 GO:0003849 ... P32449 N/A
    70 1og0:D (2.7) BS03 PHE 2.5.1.54 GO:0003849 ... P32449 N/A
    71 1og0:E (2.7) BS02 PHE 2.5.1.54 GO:0003849 ... P32449 N/A
    72 1og0:E (2.7) BS03 PHE 2.5.1.54 GO:0003849 ... P32449 N/A
    73 1og0:F (2.7) BS01 PHE 2.5.1.54 GO:0003849 ... P32449 N/A
    74 1og0:F (2.7) BS03 PHE 2.5.1.54 GO:0003849 ... P32449 N/A
    75 1og0:G (2.7) BS02 PHE 2.5.1.54 GO:0003849 ... P32449 N/A
    76 1og0:G (2.7) BS03 PHE 2.5.1.54 GO:0003849 ... P32449 N/A
    77 1og0:H (2.7) BS01 PHE 2.5.1.54 GO:0003849 ... P32449 N/A
    78 1og0:H (2.7) BS03 PHE 2.5.1.54 GO:0003849 ... P32449 N/A
    79 1tdo:A (3.0) BS02 PHE 1.4.3.2 GO:0001716 ... Q6STF1 N/A
    80 1ttt:A (2.7) BS03 PHE ? GO:0003746 ... Q01698 7491491
    81 1ttt:B (2.7) BS03 PHE ? GO:0003746 ... Q01698 7491491
    82 1ttt:C (2.7) BS03 PHE ? GO:0003746 ... Q01698 7491491
    83 1usi:A (1.8) BS01 PHE ? GO:0006865 ... P04816 14672931 MOAD: Kd=0.18uM
    84 1usi:C (1.8) BS01 PHE ? GO:0006865 ... P04816 14672931 MOAD: Kd=0.18uM
    85 1usi:C (1.8) BS02 PHE ? GO:0006865 ... P04816 14672931 MOAD: Kd=0.18uM
    86 1w7m:A (2.7) BS01 PHE 2.6.1.64
    2.6.1.7
    4.4.1.13    		 GO:0005515 ... Q16773 15364907
    87 1xqw:A (2.0) BS01 PHE 3.4.11.5 GO:0004177 ... P96084 15994304
    88 1xqw:A (2.0) BS03 PHE 3.4.11.5 GO:0004177 ... P96084 15994304
    89 1xrm:A (2.7) BS01 PHE 3.4.11.5 GO:0004177 ... P96084 15994304
    90 1zef:A (1.9) BS01 PHE 3.1.3.1 GO:0000287 ... P05187 15946677
    91 1zef:A (1.9) BS02 PHE 3.1.3.1 GO:0000287 ... P05187 15946677
    92 2bb4:A (1.6) BS04 PHE 3.4.21.36 GO:0004252 ... P00772 16754679
    93 2bd7:A (1.6) BS03 PHE 3.4.21.36 GO:0004252 ... P00772 16754679
    94 2bd8:A (1.7) BS03 PHE 3.4.21.36 GO:0004252 ... P00772 16754679
    95 2bn2:A (2.8) BS01 PHE ? GO:0005185 ... P01180 2034668
    96 2bn2:C (2.8) BS01 PHE ? GO:0005185 ... P01180 2034668
    97 2bn2:E (2.8) BS01 PHE ? GO:0005185 ... P01180 2034668
    98 2bn2:G (2.8) BS01 PHE ? GO:0005185 ... P01180 2034668
    99 2efu:A (2.3) BS01 PHE ? GO:0006508 ... Q9LCC8 18323628
    100 2efu:B (2.3) BS01 PHE ? GO:0006508 ... Q9LCC8 18323628
    101 2efu:C (2.3) BS01 PHE ? GO:0006508 ... Q9LCC8 18323628
    102 2efu:D (2.3) BS01 PHE ? GO:0006508 ... Q9LCC8 18323628
    103 2efu:E (2.3) BS01 PHE ? GO:0006508 ... Q9LCC8 18323628
    104 2efu:F (2.3) BS01 PHE ? GO:0006508 ... Q9LCC8 18323628
    105 2fmg:A (1.6) BS02 PHE 4.2.1.1
    4.2.1.69    		 GO:0002009 ... P00918 16686544
    106 2hnu:A (2.0) BS01 PHE ? GO:0005185 ... P01175 17192588
    107 2hnu:B (2.0) BS01 PHE ? GO:0005185 ... P01175 17192588
    108 2hnu:C (2.0) BS01 PHE ? GO:0005185 ... P01175 17192588
    109 2hnu:D (2.0) BS01 PHE ? GO:0005185 ... P01175 17192588
    110 2hnu:E (2.0) BS01 PHE ? GO:0005185 ... P01175 17192588
    111 2hnv:A (2.5) BS01 PHE ? GO:0005185 ... P01175 17192588
    112 2hnv:B (2.5) BS01 PHE ? GO:0005185 ... P01175 17192588
    113 2hnv:C (2.5) BS01 PHE ? GO:0005185 ... P01175 17192588
    114 2hnv:D (2.5) BS01 PHE ? GO:0005185 ... P01175 17192588
    115 2hnv:E (2.5) BS01 PHE ? GO:0005185 ... P01175 17192588
    116 2hu5:A (2.0) BS02 PHE 3.4.19.1 GO:0004252 ... Q9YBQ2 17350041
    117 2hu5:B (2.0) BS01 PHE 3.4.19.1 GO:0004252 ... Q9YBQ2 17350041
    118 2hu7:A (2.01) BS01 PHE 3.4.19.1 GO:0004252 ... Q9YBQ2 17350041
    119 2hu7:B (2.01) BS01 PHE 3.4.19.1 GO:0004252 ... Q9YBQ2 17350041
    120 2hu8:A (2.4) BS01 PHE 3.4.19.1 GO:0004252 ... Q9YBQ2 17350041
    121 2hu8:B (2.4) BS02 PHE 3.4.19.1 GO:0004252 ... Q9YBQ2 17350041
    122 2iid:A (1.8) BS01 PHE 1.4.3.2 GO:0001716 ... P81382 17046020
    123 2iid:B (1.8) BS01 PHE 1.4.3.2 GO:0001716 ... P81382 17046020
    124 2iid:C (1.8) BS01 PHE 1.4.3.2 GO:0001716 ... P81382 17046020
    125 2iid:D (1.8) BS01 PHE 1.4.3.2 GO:0001716 ... P81382 17046020
    126 2jb2:A (1.45) BS01 PHE 1.4.3.2 GO:0000166 ... Q8VPD4 17234209
    127 2jb2:B (1.45) BS01 PHE 1.4.3.2 GO:0000166 ... Q8VPD4 17234209
    128 2qmx:A (2.3) BS01 PHE 4.2.1.51 GO:0004106 ... Q8KBW6 18171624
    129 2qmx:A (2.3) BS02 PHE 4.2.1.51 GO:0004106 ... Q8KBW6 18171624
    130 2qmx:B (2.3) BS01 PHE 4.2.1.51 GO:0004106 ... Q8KBW6 18171624
    131 2qmx:B (2.3) BS02 PHE 4.2.1.51 GO:0004106 ... Q8KBW6 18171624
    132 2vbw:A (2.2) BS01 PHE ? GO:0003677 ... P96896 17962306
    133 2ypo:A (2.0) BS02 PHE 2.5.1.54 GO:0003849 ... O53512 23274137 MOAD: Kd=21uM
    PDBbind: -logKd/Ki=4.68, Kd=21uM
    134 2ypo:B (2.0) BS01 PHE 2.5.1.54 GO:0003849 ... O53512 23274137 MOAD: Kd=21uM
    PDBbind: -logKd/Ki=4.68, Kd=21uM
    135 2ypo:B (2.0) BS03 PHE 2.5.1.54 GO:0003849 ... O53512 23274137 MOAD: Kd=21uM
    PDBbind: -logKd/Ki=4.68, Kd=21uM
    136 2z3k:A (2.85) BS02 PHE 2.3.2.6 GO:0005737 ... P0A8P1 17891155
    137 2z3k:B (2.85) BS02 PHE 2.3.2.6 GO:0005737 ... P0A8P1 17891155
    138 2z3m:A (2.7) BS02 PHE 2.3.2.6 GO:0005737 ... P0A8P1 17891155
    139 2z3m:B (2.7) BS02 PHE 2.3.2.6 GO:0005737 ... P0A8P1 17891155
    140 2z3o:A (2.4) BS01 PHE 2.3.2.6 GO:0005737 ... P0A8P1 17891155
    141 2z3o:B (2.4) BS01 PHE 2.3.2.6 GO:0005737 ... P0A8P1 17891155
    142 3ayj:A (1.1) BS02 PHE 1.13.12.9 GO:0000166 ... Q5W9R9 21841183
    143 3ayj:B (1.1) BS02 PHE 1.13.12.9 GO:0000166 ... Q5W9R9 21841183
    144 3b34:A (1.3) BS02 PHE 3.4.11.2 GO:0004177 ... P04825 18416562
    145 3bwn:F (2.25) BS02 PHE 2.6.1.27
    2.6.1.99    		 GO:0004021 ... Q9S7N2 18394996
    146 3des:A (2.3) BS03 PHE 5.1.1.20 GO:0016853 ... Q9WXM1 19000819
    147 3des:B (2.3) BS03 PHE 5.1.1.20 GO:0016853 ... Q9WXM1 19000819
    148 3des:C (2.3) BS03 PHE 5.1.1.20 GO:0016853 ... Q9WXM1 19000819
    149 3des:D (2.3) BS03 PHE 5.1.1.20 GO:0016853 ... Q9WXM1 19000819
    150 3kgf:A (2.0) BS01 PHE 2.5.1.54 GO:0003849 ... O53512 20667835
    151 3kgf:B (2.0) BS01 PHE 2.5.1.54 GO:0003849 ... O53512 20667835
    152 3kgf:B (2.0) BS02 PHE 2.5.1.54 GO:0003849 ... O53512 20667835
    153 3kgf:B (2.0) BS06 PHE 2.5.1.54 GO:0003849 ... O53512 20667835
    154 3l4g:A (3.3) BS01 PHE 6.1.1.20 GO:0000049 ... Q9Y285 20223217
    155 3l4g:C (3.3) BS01 PHE 6.1.1.20 GO:0000049 ... Q9Y285 20223217
    156 3l4g:E (3.3) BS01 PHE 6.1.1.20 GO:0000049 ... Q9Y285 20223217
    157 3l4g:G (3.3) BS01 PHE 6.1.1.20 GO:0000049 ... Q9Y285 20223217
    158 3l4g:I (3.3) BS01 PHE 6.1.1.20 GO:0000049 ... Q9Y285 20223217
    159 3l4g:K (3.3) BS01 PHE 6.1.1.20 GO:0000049 ... Q9Y285 20223217
    160 3l4g:M (3.3) BS01 PHE 6.1.1.20 GO:0000049 ... Q9Y285 20223217
    161 3l4g:O (3.3) BS01 PHE 6.1.1.20 GO:0000049 ... Q9Y285 20223217
    162 3lkv:A (2.2) BS01 PHE ? N/A Q9KT04 N/A
    163 3mk2:A (1.89) BS01 PHE 3.1.3.1 GO:0000287 ... P05187 20693656
    164 3mk2:A (1.89) BS02 PHE 3.1.3.1 GO:0000287 ... P05187 20693656
    165 3mwb:A (2.0) BS01 PHE 4.2.1.51 GO:0004106 ... A1R118 N/A
    166 3mwb:A (2.0) BS02 PHE 4.2.1.51 GO:0004106 ... A1R118 N/A
    167 3mwb:B (2.0) BS01 PHE 4.2.1.51 GO:0004106 ... A1R118 N/A
    168 3mwb:B (2.0) BS02 PHE 4.2.1.51 GO:0004106 ... A1R118 N/A
    169 3nud:A (3.0) BS01 PHE 2.5.1.54 GO:0003849 ... O53512 20667835
    170 3nud:A (3.0) BS03 PHE 2.5.1.54 GO:0003849 ... O53512 20667835
    171 3nud:B (3.0) BS01 PHE 2.5.1.54 GO:0003849 ... O53512 20667835
    172 3nud:B (3.0) BS02 PHE 2.5.1.54 GO:0003849 ... O53512 20667835
    173 3nud:B (3.0) BS03 PHE 2.5.1.54 GO:0003849 ... O53512 20667835
    174 3pco:A (3.02) BS01 PHE 6.1.1.20 GO:0000049 ... P08312 21082706
    175 3pco:C (3.02) BS01 PHE 6.1.1.20 GO:0000049 ... P08312 21082706
    176 3rzi:A (1.95) BS02 PHE 2.5.1.54 GO:0003849 ... O53512 22154807
    177 3rzi:B (1.95) BS02 PHE 2.5.1.54 GO:0003849 ... O53512 22154807
    178 3tcy:A (1.55) BS01 PHE 1.14.16.1 GO:0004497 ... P30967 23860686 PDBbind: -logKd/Ki=4.62, Kd=24uM
    179 3td9:A (1.9) BS01 PHE ? N/A Q9X0L9 N/A
    180 3tk2:A (1.35) BS01 PHE 1.14.16.1 GO:0004497 ... P30967 23860686 PDBbind: -logKd/Ki=4.62, Kd=24uM
    181 3unv:A (1.54) BS02 PHE ? GO:0003824 ... Q84FL5 22319000
    182 4cxh:A (8.9) BS03 PHE ? GO:0003746 ... Q9YAV0 24995983
    183 4d2c:A (2.47) BS07 PHE ? GO:0005886 ... Q5M4H8 24916388
    184 4fxj:A (2.9) BS03 PHE 2.7.10.2
    2.7.11.1
    2.7.1.40    		 GO:0000287 ... P14618 23530218 PDBbind: -logKd/Ki=3.62, IC50=240uM
    185 4fxj:B (2.9) BS02 PHE 2.7.10.2
    2.7.11.1
    2.7.1.40    		 GO:0000287 ... P14618 23530218
    186 4fxj:C (2.9) BS02 PHE 2.7.10.2
    2.7.11.1
    2.7.1.40    		 GO:0000287 ... P14618 23530218
    187 4fxj:D (2.9) BS02 PHE 2.7.10.2
    2.7.11.1
    2.7.1.40    		 GO:0000287 ... P14618 23530218
    188 4io7:A (1.92) BS01 PHE ? GO:0015276 ... E9P5T5 23434404 PDBbind: -logKd/Ki=3.68, Kd=211uM
    189 4io7:B (1.92) BS01 PHE ? GO:0015276 ... E9P5T5 23434404
    190 4jpx:A (1.55) BS01 PHE 1.14.16.1 GO:0004497 ... P30967 23860686 PDBbind: -logKd/Ki=5.15, Kd=7.0uM
    191 4jpy:A (2.13) BS02 PHE 1.14.16.1 GO:0004497 ... P30967 23860686 PDBbind: -logKd/Ki=4.43, Kd=37uM
    192 4k3l:A (1.5) BS02 PHE 2.7.7.7 GO:0003677 ... P0A988 24090409 PDBbind: -logKd/Ki=2.96, IC50=1.1mM
    193 4k3l:B (1.5) BS02 PHE 2.7.7.7 GO:0003677 ... P0A988 24090409
    194 4ppv:A (2.45) BS01 PHE 5.4.99.5 GO:0004106 ... P42738 25160622
    195 4qfl:A (1.749) BS02 PHE ? GO:0015833 ... A7Y7W1 25605306 PDBbind: -logKd/Ki=5.11, Kd=7.7uM
    196 4qfl:B (1.749) BS02 PHE ? GO:0015833 ... A7Y7W1 25605306
    197 4r2n:A (1.98) BS02 PHE 2.6.1.- GO:0000105 ... P9WML5 26738801
    198 4r2n:A (1.98) BS03 PHE 2.6.1.- GO:0000105 ... P9WML5 26738801
    199 4r2n:B (1.98) BS02 PHE 2.6.1.- GO:0000105 ... P9WML5 26738801
    200 4r2n:B (1.98) BS03 PHE 2.6.1.- GO:0000105 ... P9WML5 26738801
    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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