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BioLiP
Download all results in tab-seperated text for 817662 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.
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  • 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.
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    # PDB
    (Resolution Å)
    Site # Ligand EC number GO terms UniProt PubMed Binding
    affinity
    11001 1f4v:A (2.22) BS01 peptide ? GO:0000156 ... P0AE67 11135671
    11002 1f4v:A (2.22) BS02 BEF ? GO:0000156 ... P0AE67 11135671
    11003 1f4v:A (2.22) BS03 MG ? GO:0000156 ... P0AE67 11135671
    11004 1f4v:B (2.22) BS01 peptide ? GO:0000156 ... P0AE67 11135671
    11005 1f4v:B (2.22) BS02 MG ? GO:0000156 ... P0AE67 11135671
    11006 1f4v:B (2.22) BS03 BEF ? GO:0000156 ... P0AE67 11135671
    11007 1f4v:C (2.22) BS01 peptide ? GO:0000156 ... P0AE67 11135671
    11008 1f4v:C (2.22) BS02 peptide ? GO:0000156 ... P0AE67 11135671
    11009 1f4v:C (2.22) BS03 MG ? GO:0000156 ... P0AE67 11135671
    11010 1f4v:C (2.22) BS04 BEF ? GO:0000156 ... P0AE67 11135671
    11011 1f4z:A (1.8) BS01 RET ? GO:0005216 ... P02945 10903866
    11012 1f50:A (1.7) BS01 RET ? GO:0005216 ... P02945 10903866
    11013 1f51:E (3.0) BS01 MG 2.7.-.- GO:0000160 ... P06628 10997904
    11014 1f52:A (2.49) BS01 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11015 1f52:A (2.49) BS02 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11016 1f52:A (2.49) BS03 ADP 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11017 1f52:B (2.49) BS01 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11018 1f52:B (2.49) BS02 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11019 1f52:B (2.49) BS03 ADP 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11020 1f52:C (2.49) BS01 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11021 1f52:C (2.49) BS02 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11022 1f52:C (2.49) BS03 ADP 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11023 1f52:D (2.49) BS01 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11024 1f52:D (2.49) BS02 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11025 1f52:D (2.49) BS03 ADP 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11026 1f52:E (2.49) BS01 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11027 1f52:E (2.49) BS02 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11028 1f52:E (2.49) BS03 ADP 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11029 1f52:F (2.49) BS01 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11030 1f52:F (2.49) BS02 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11031 1f52:F (2.49) BS03 ADP 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11032 1f52:G (2.49) BS01 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11033 1f52:G (2.49) BS02 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11034 1f52:G (2.49) BS03 ADP 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11035 1f52:H (2.49) BS01 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11036 1f52:H (2.49) BS02 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11037 1f52:H (2.49) BS03 ADP 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11038 1f52:I (2.49) BS01 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11039 1f52:I (2.49) BS02 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11040 1f52:I (2.49) BS03 ADP 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11041 1f52:J (2.49) BS01 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11042 1f52:J (2.49) BS02 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11043 1f52:J (2.49) BS03 ADP 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11044 1f52:K (2.49) BS01 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11045 1f52:K (2.49) BS02 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11046 1f52:K (2.49) BS03 ADP 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11047 1f52:L (2.49) BS01 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11048 1f52:L (2.49) BS02 MN 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11049 1f52:L (2.49) BS03 ADP 6.3.1.2 GO:0003824 ... P0A1P6 11329256
    11050 1f55:A (-1.00) BS01 CA ? GO:0005509 ... P06787 11076504
    11051 1f55:A (-1.00) BS02 CA ? GO:0005509 ... P06787 11076504
    11052 1f56:A (2.05) BS01 CU1 ? GO:0005886 ... O82080 11085657
    11053 1f56:B (2.05) BS01 CU1 ? GO:0005886 ... O82080 11085657
    11054 1f56:C (2.05) BS01 CU1 ? GO:0005886 ... O82080 11085657
    11055 1f57:A (1.75) BS01 ZN 3.4.17.1 GO:0004181 ... P00730 10955996
    11056 1f57:A (1.75) BS02 DCY 3.4.17.1 GO:0004181 ... P00730 10955996 MOAD: Ki=2.3uM
    PDBbind: -logKd/Ki=5.64, Ki=2.3uM
    BindingDB: Ki=2300nM
    11057 1f58:L (2.0) BS01 peptide ? GO:0002250 ... P01666 10368281
    11058 1f59:A (2.8) BS01 peptide ? GO:0006606 ... Q14974 10929717
    11059 1f59:B (2.8) BS01 peptide ? GO:0006606 ... Q14974 10929717
    11060 1f5a:A (2.5) BS01 MN 2.7.7.19 GO:0003723 ... P25500 10944102
    11061 1f5a:A (2.5) BS02 MN 2.7.7.19 GO:0003723 ... P25500 10944102
    11062 1f5a:A (2.5) BS03 3AT 2.7.7.19 GO:0003723 ... P25500 10944102
    11063 1f5a:A (2.5) BS04 3PO 2.7.7.19 GO:0003723 ... P25500 10944102
    11064 1f5b:A (1.62) BS01 F3S ? GO:0003677 ... P00214 11875515
    11065 1f5b:A (1.62) BS02 SF4 ? GO:0003677 ... P00214 11875515
    11066 1f5c:A (1.75) BS01 F3S ? GO:0003677 ... P00214 11875515
    11067 1f5c:A (1.75) BS02 SF4 ? GO:0003677 ... P00214 11875515
    11068 1f5e:P (-1.00) BS01 dna ? GO:0000981 ... P21228 11566132
    11069 1f5e:P (-1.00) BS02 dna ? GO:0000981 ... P21228 11566132
    11070 1f5e:P (-1.00) BS03 ZN ? GO:0000981 ... P21228 11566132
    11071 1f5e:P (-1.00) BS04 ZN ? GO:0000981 ... P21228 11566132
    11072 1f5j:B (1.8) BS01 SO4 3.2.1.8 GO:0004553 ... P77853 11053833
    11073 1f5k:U (1.8) BS01 BEN 3.4.21.73 GO:0004252 ... P00749 10926521
    11074 1f5l:A (2.1) BS01 AMR 3.4.21.73 GO:0004252 ... P00749 10926521 MOAD: Ki=5.3uM
    PDBbind: -logKd/Ki=5.28, Ki=5.3uM
    BindingDB: IC50=7000nM, Ki=7000nM
    11075 1f5n:A (1.7) BS01 MG 3.6.1.-
    3.6.5.-
    GO:0000139 ... P32455 10970849
    11076 1f5n:A (1.7) BS02 GNP 3.6.1.-
    3.6.5.-
    GO:0000139 ... P32455 10970849
    11077 1f5o:A (2.9) BS01 HEM ? GO:0005344 ... P02208 11340069
    11078 1f5o:B (2.9) BS01 HEM ? GO:0005344 ... P02208 11340069
    11079 1f5o:C (2.9) BS01 HEM ? GO:0005344 ... P02208 11340069
    11080 1f5o:D (2.9) BS01 HEM ? GO:0005344 ... P02208 11340069
    11081 1f5o:E (2.9) BS01 HEM ? GO:0005344 ... P02208 11340069
    11082 1f5o:F (2.9) BS01 HEM ? GO:0005344 ... P02208 11340069
    11083 1f5p:A (2.9) BS01 HEM ? GO:0005344 ... P02208 11340069
    11084 1f5p:A (2.9) BS02 CMO ? GO:0005344 ... P02208 11340069
    11085 1f5p:B (2.9) BS01 HEM ? GO:0005344 ... P02208 11340069
    11086 1f5p:B (2.9) BS02 CMO ? GO:0005344 ... P02208 11340069
    11087 1f5p:C (2.9) BS01 HEM ? GO:0005344 ... P02208 11340069
    11088 1f5p:C (2.9) BS02 CMO ? GO:0005344 ... P02208 11340069
    11089 1f5p:D (2.9) BS01 HEM ? GO:0005344 ... P02208 11340069
    11090 1f5p:D (2.9) BS02 CMO ? GO:0005344 ... P02208 11340069
    11091 1f5p:E (2.9) BS01 HEM ? GO:0005344 ... P02208 11340069
    11092 1f5p:E (2.9) BS02 CMO ? GO:0005344 ... P02208 11340069
    11093 1f5p:F (2.9) BS01 HEM ? GO:0005344 ... P02208 11340069
    11094 1f5r:A (1.65) BS01 CA 3.4.21.4 GO:0004252 ... P00763 11420435
    11095 1f5s:A (1.8) BS01 PO4 3.1.3.3 GO:0000287 ... Q58989 11342136
    11096 1f5s:A (1.8) BS02 MG 3.1.3.3 GO:0000287 ... Q58989 11342136
    11097 1f5s:B (1.8) BS01 PO4 3.1.3.3 GO:0000287 ... Q58989 11342136
    11098 1f5s:B (1.8) BS02 MG 3.1.3.3 GO:0000287 ... Q58989 11342136
    11099 1f5s:B (1.8) BS03 PO4 3.1.3.3 GO:0000287 ... Q58989 11342136
    11100 1f5s:B (1.8) BS04 PO4 3.1.3.3 GO:0000287 ... Q58989 11342136
    11101 1f5t:A (3.0) BS01 dna ? GO:0003677 ... P0DJL7 10956029 PDBbind: Kd=460nM
    11102 1f5t:A (3.0) BS02 dna ? GO:0003677 ... P0DJL7 10956029 PDBbind: Kd=460nM
    11103 1f5t:A (3.0) BS03 NI ? GO:0003677 ... P0DJL7 10956029
    11104 1f5t:A (3.0) BS04 NI ? GO:0003677 ... P0DJL7 10956029
    11105 1f5t:B (3.0) BS01 dna ? GO:0003677 ... P0DJL7 10956029 PDBbind: Kd=460nM
    11106 1f5t:B (3.0) BS02 dna ? GO:0003677 ... P0DJL7 10956029 PDBbind: Kd=460nM
    11107 1f5t:B (3.0) BS03 NI ? GO:0003677 ... P0DJL7 10956029
    11108 1f5t:B (3.0) BS04 NI ? GO:0003677 ... P0DJL7 10956029
    11109 1f5t:C (3.0) BS01 dna ? GO:0003677 ... P0DJL7 10956029 PDBbind: Kd=460nM
    11110 1f5t:C (3.0) BS02 dna ? GO:0003677 ... P0DJL7 10956029 PDBbind: Kd=460nM
    11111 1f5t:C (3.0) BS03 NI ? GO:0003677 ... P0DJL7 10956029
    11112 1f5t:C (3.0) BS04 NI ? GO:0003677 ... P0DJL7 10956029
    11113 1f5t:D (3.0) BS01 dna ? GO:0003677 ... P0DJL7 10956029 PDBbind: Kd=460nM
    11114 1f5t:D (3.0) BS02 dna ? GO:0003677 ... P0DJL7 10956029 PDBbind: Kd=460nM
    11115 1f5t:D (3.0) BS03 NI ? GO:0003677 ... P0DJL7 10956029
    11116 1f5t:D (3.0) BS04 NI ? GO:0003677 ... P0DJL7 10956029
    11117 1f5v:A (1.7) BS01 FMN 1.-.-.- GO:0003955 ... P17117 11034992
    11118 1f5v:A (1.7) BS02 FMN 1.-.-.- GO:0003955 ... P17117 11034992
    11119 1f5v:B (1.7) BS01 FMN 1.-.-.- GO:0003955 ... P17117 11034992
    11120 1f5v:B (1.7) BS02 FMN 1.-.-.- GO:0003955 ... P17117 11034992
    11121 1f61:A (2.0) BS01 MG 4.1.3.1 GO:0003824 ... P9WKK7 10932251
    11122 1f61:B (2.0) BS01 MG 4.1.3.1 GO:0003824 ... P9WKK7 10932251
    11123 1f62:A (-1.00) BS01 ZN 2.7.10.2 GO:0006338 ... Q9UIG0 11124022
    11124 1f62:A (-1.00) BS02 ZN 2.7.10.2 GO:0006338 ... Q9UIG0 11124022
    11125 1f63:A (1.8) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 10049310
    11126 1f65:A (1.7) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 10049310
    11127 1f65:A (1.7) BS02 OXY 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 10049310
    11128 1f66:A (2.6) BS01 dna ? GO:0000786 ... P84233 11101893
    11129 1f66:A (2.6) BS02 dna ? GO:0000786 ... P84233 11101893
    11130 1f66:B (2.6) BS01 dna ? GO:0000786 ... P62806 11101893
    11131 1f66:B (2.6) BS02 dna ? GO:0000786 ... P62806 11101893
    11132 1f66:C (2.6) BS01 dna ? GO:0000786 ... P0C0S5 11101893
    11133 1f66:C (2.6) BS02 dna ? GO:0000786 ... P0C0S5 11101893
    11134 1f66:C (2.6) BS03 MN ? GO:0000786 ... P0C0S5 11101893
    11135 1f66:D (2.6) BS01 dna ? GO:0000786 ... P02281 11101893
    11136 1f66:D (2.6) BS02 dna ? GO:0000786 ... P02281 11101893
    11137 1f66:E (2.6) BS01 dna ? GO:0000786 ... P84233 11101893
    11138 1f66:E (2.6) BS02 dna ? GO:0000786 ... P84233 11101893
    11139 1f66:F (2.6) BS01 dna ? GO:0000786 ... P62806 11101893
    11140 1f66:F (2.6) BS02 dna ? GO:0000786 ... P62806 11101893
    11141 1f66:G (2.6) BS01 dna ? GO:0000786 ... P0C0S5 11101893
    11142 1f66:G (2.6) BS02 dna ? GO:0000786 ... P0C0S5 11101893
    11143 1f66:G (2.6) BS03 MN ? GO:0000786 ... P0C0S5 11101893
    11144 1f66:H (2.6) BS01 dna ? GO:0000786 ... P02281 11101893
    11145 1f66:H (2.6) BS02 dna ? GO:0000786 ... P02281 11101893
    11146 1f6b:A (1.7) BS01 MG 3.6.5.2 GO:0003400 ... Q9QVY3 11739406
    11147 1f6b:A (1.7) BS02 GDP 3.6.5.2 GO:0003400 ... Q9QVY3 11739406
    11148 1f6b:B (1.7) BS01 GDP 3.6.5.2 GO:0003400 ... Q9QVY3 11739406
    11149 1f6d:A (2.5) BS01 UDP 5.1.3.14 GO:0003824 ... P27828 11106477
    11150 1f6d:B (2.5) BS01 UDP 5.1.3.14 GO:0003824 ... P27828 11106477
    11151 1f6d:C (2.5) BS01 UDP 5.1.3.14 GO:0003824 ... P27828 11106477
    11152 1f6d:D (2.5) BS01 UDP 5.1.3.14 GO:0003824 ... P27828 11106477
    11153 1f6h:A (3.31) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 N/A
    11154 1f6m:A (2.95) BS01 FAD 1.8.1.9 GO:0004791 ... P0A9P4 10947986
    11155 1f6m:A (2.95) BS02 3AA 1.8.1.9 GO:0004791 ... P0A9P4 10947986
    11156 1f6m:B (2.95) BS01 FAD 1.8.1.9 GO:0004791 ... P0A9P4 10947986
    11157 1f6m:B (2.95) BS02 3AA 1.8.1.9 GO:0004791 ... P0A9P4 10947986
    11158 1f6m:E (2.95) BS01 FAD 1.8.1.9 GO:0004791 ... P0A9P4 10947986
    11159 1f6m:E (2.95) BS02 3AA 1.8.1.9 GO:0004791 ... P0A9P4 10947986
    11160 1f6m:F (2.95) BS01 FAD 1.8.1.9 GO:0004791 ... P0A9P4 10947986
    11161 1f6m:F (2.95) BS02 3AA 1.8.1.9 GO:0004791 ... P0A9P4 10947986
    11162 1f6n:L (2.8) BS01 BCL ? GO:0009772 ... P0C0Y8 11284681
    11163 1f6n:L (2.8) BS02 BCL ? GO:0009772 ... P0C0Y8 11284681
    11164 1f6n:L (2.8) BS03 BCL ? GO:0009772 ... P0C0Y8 11284681
    11165 1f6n:L (2.8) BS04 BPH ? GO:0009772 ... P0C0Y8 11284681
    11166 1f6n:L (2.8) BS05 U10 ? GO:0009772 ... P0C0Y8 11284681
    11167 1f6n:L (2.8) BS06 FE ? GO:0009772 ... P0C0Y8 11284681
    11168 1f6n:L (2.8) BS07 BPH ? GO:0009772 ... P0C0Y8 11284681
    11169 1f6n:L (2.8) BS08 U10 ? GO:0009772 ... P0C0Y8 11284681
    11170 1f6n:M (2.8) BS01 BCL ? GO:0009772 ... P0C0Y9 11284681
    11171 1f6n:M (2.8) BS02 BCL ? GO:0009772 ... P0C0Y9 11284681
    11172 1f6n:M (2.8) BS03 BPH ? GO:0009772 ... P0C0Y9 11284681
    11173 1f6n:M (2.8) BS04 FE ? GO:0009772 ... P0C0Y9 11284681
    11174 1f6n:M (2.8) BS05 BCL ? GO:0009772 ... P0C0Y9 11284681
    11175 1f6n:M (2.8) BS06 BPH ? GO:0009772 ... P0C0Y9 11284681
    11176 1f6n:M (2.8) BS07 U10 ? GO:0009772 ... P0C0Y9 11284681
    11177 1f6n:M (2.8) BS08 SPO ? GO:0009772 ... P0C0Y9 11284681
    11178 1f6o:A (2.4) BS01 dna 3.2.2.21 GO:0003677 ... P29372 11106395
    11179 1f6o:A (2.4) BS02 dna 3.2.2.21 GO:0003677 ... P29372 11106395
    11180 1f6s:A (2.2) BS01 CA ? GO:0003796 ... P00711 10896943
    11181 1f6s:B (2.2) BS01 CA ? GO:0003796 ... P00711 10896943
    11182 1f6s:C (2.2) BS01 CA ? GO:0003796 ... P00711 10896943
    11183 1f6s:D (2.2) BS01 CA ? GO:0003796 ... P00711 10896943
    11184 1f6s:E (2.2) BS01 CA ? GO:0003796 ... P00711 10896943
    11185 1f6s:F (2.2) BS01 CA ? GO:0003796 ... P00711 10896943
    11186 1f6t:A (1.92) BS01 TBD 2.7.4.6 GO:0004550 ... P22887 10899107
    11187 1f6t:B (1.92) BS01 TBD 2.7.4.6 GO:0004550 ... P22887 10899107
    11188 1f6t:C (1.92) BS01 TBD 2.7.4.6 GO:0004550 ... P22887 10899107
    11189 1f6u:A (-1.00) BS01 rna 2.7.7.-
    2.7.7.49
    2.7.7.7
    3.1.-.-
    3.1.13.2
    3.1.26.13
    3.4.23.16
    GO:0003676 ... P35963 10926523 PDBbind: Kd=110nM
    11190 1f6u:A (-1.00) BS02 ZN 2.7.7.-
    2.7.7.49
    2.7.7.7
    3.1.-.-
    3.1.13.2
    3.1.26.13
    3.4.23.16
    GO:0003676 ... P35963 10926523
    11191 1f6u:A (-1.00) BS03 ZN 2.7.7.-
    2.7.7.49
    2.7.7.7
    3.1.-.-
    3.1.13.2
    3.1.26.13
    3.4.23.16
    GO:0003676 ... P35963 10926523
    11192 1f73:A (1.95) BS01 HMN 4.1.3.3 GO:0005737 ... P44539 11031117 MOAD: Ki=4.1mM
    PDBbind: -logKd/Ki=2.39, Ki=4.1mM
    11193 1f73:B (1.95) BS01 HMN 4.1.3.3 GO:0005737 ... P44539 11031117 MOAD: Ki=4.1mM
    11194 1f73:C (1.95) BS01 HMN 4.1.3.3 GO:0005737 ... P44539 11031117 MOAD: Ki=4.1mM
    PDBbind: -logKd/Ki=2.39, Ki=4.1mM
    11195 1f73:D (1.95) BS01 HMN 4.1.3.3 GO:0005737 ... P44539 11031117 MOAD: Ki=4.1mM
    PDBbind: -logKd/Ki=2.39, Ki=4.1mM
    11196 1f74:A (1.6) BS01 NAY 4.1.3.3 GO:0005737 ... P44539 11031117 MOAD: Ki=0.9mM
    PDBbind: -logKd/Ki=3.05, Ki=0.9mM
    11197 1f74:C (1.6) BS01 NAY 4.1.3.3 GO:0005737 ... P44539 11031117 MOAD: Ki=0.9mM
    PDBbind: -logKd/Ki=3.05, Ki=0.9mM
    11198 1f76:A (2.5) BS01 FMN 1.3.5.2 GO:0004152 ... P0A7E1 12220493
    11199 1f76:B (2.5) BS01 FMN 1.3.5.2 GO:0004152 ... P0A7E1 12220493
    11200 1f76:D (2.5) BS01 FMN 1.3.5.2 GO:0004152 ... P0A7E1 12220493

    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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