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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Interaction pattern similarity measured by Grim
You can zoom onto the graph by using the mouse to make a selection

Binding Modes are compared using Grim.
For more information, please see the following publication: Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65


Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
1c0f ATP Major actin

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1c0f ATPMajor actin / 1.144
1s22 ATPActin, alpha skeletal muscle / 1.134
1qz5 ATPActin, alpha skeletal muscle / 1.133
4k41 ATPActin, alpha skeletal muscle / 1.120
1dej ATPMajor actin / 1.118
4pkg ATPActin, alpha skeletal muscle / 1.118
1t44 ATPActin, alpha skeletal muscle / 1.101
3a5o ATPMajor actin / 1.083
3m6g ATPActin, alpha skeletal muscle / 1.077
3chw ATPMajor actin / 1.073
1wua ATPActin, alpha skeletal muscle / 1.066
4b1v ATPActin, alpha skeletal muscle / 1.065
4pl8 ATPActin, alpha skeletal muscle / 1.065
3w3d ATPActin, gamma-enteric smooth muscle / 1.060
4pki ATPActin, alpha skeletal muscle / 1.051
2q36 ATPActin, alpha skeletal muscle / 1.046
3mn9 ATPActin-5C / 1.045
3mn6 ATPActin-5C / 1.032
1eqy ATPActin, alpha skeletal muscle / 1.030
1nlv ATPMajor actin / 1.030
3eks ATPActin-5C / 1.015
3mn7 ATPActin-5C / 1.010
4cbx ATPActin-2 / 0.996
5ce3 ATPActin / 0.995
1kxp ATPActin, alpha skeletal muscle / 0.992
3eku ATPActin-5C / 0.981
3m1f ATPActin, alpha skeletal muscle / 0.980
2q97 ATPActin, alpha skeletal muscle / 0.977
3ffk ATPActin, alpha skeletal muscle / 0.977
1mdu ATPActin, alpha skeletal muscle / 0.976
3tu5 ATPActin, alpha skeletal muscle / 0.967
3el2 ATPActin-5C / 0.957
2v51 ATPActin, alpha skeletal muscle / 0.956
2p9k ATPActin-related protein 2 / 0.955
2oan ATPActin, cytoplasmic 1 / 0.950
3daw ATPActin, alpha skeletal muscle / 0.950
4ci6 ATPActin / 0.945
1rgi ATPActin, alpha skeletal muscle / 0.930
2a41 ATPActin, alpha skeletal muscle / 0.894
4pkh ADPActin, alpha skeletal muscle / 0.880
4m63 ATPActin-5C / 0.873
1lot ATPActin, alpha skeletal muscle / 0.854
3a5m ATPMajor actin / 0.840
1atn ATPActin, alpha skeletal muscle / 0.836
4b9q ATPChaperone protein DnaK / 0.831
4ehu ANP2-hydroxyisocaproyl-CoA dehydratase activator / 0.821
3wt0 ATPCell division protein FtsA / 0.820
1ijj ATPActin, alpha skeletal muscle / 0.816
1nmd ATPMajor actin / 0.816
3d2e ATPHeat shock protein homolog SSE1 / 0.804
1nm1 ATPMajor actin / 0.803
1yxq ATPActin, alpha skeletal muscle / 0.799
4eht ADP2-hydroxyisocaproyl-CoA dehydratase activator / 0.778
1rfq ATPActin, alpha skeletal muscle / 0.773
3ule ATPActin-related protein 2 / 0.769
4brg GNPEctonucleoside triphosphate diphosphohydrolase I / 0.748
4a61 ANPPlasmid segregation protein ParM / 0.741
4a62 ANPPlasmid segregation protein ParM / 0.737
2e2q ADPATP-dependent hexokinase / 0.733
4brd ANPEctonucleoside triphosphate diphosphohydrolase I / 0.731
4jhd ANPActin-5C / 0.730
2zgy GDPPlasmid segregation protein ParM / 0.719
3wqt ANPCell division protein FtsA / 0.719
4k42 ADPActin, alpha skeletal muscle / 0.713
1h1v ATPActin, alpha skeletal muscle / 0.710
4bri UNPEctonucleoside triphosphate diphosphohydrolase I / 0.710
4k43 ADPActin, alpha skeletal muscle / 0.706
5f1x ATP78 kDa glucose-regulated protein / 0.706
3ldo ANP78 kDa glucose-regulated protein / 0.703
3ldl ATP78 kDa glucose-regulated protein / 0.700
1mwm ADPPlasmid segregation protein ParM / 0.694
3orl AGSSerine/threonine protein kinase / 0.690
5bsm ATP4-coumarate--CoA ligase 2 6.2.1.12 0.688
2pz8 APCNH(3)-dependent NAD(+) synthetase / 0.680
2qwn ADPHeat shock cognate 71 kDa protein / 0.678
4dqw ATPInosine-5'-monophosphate dehydrogenase / 0.678
3fe1 ADPHeat shock 70 kDa protein 6 / 0.677
4bqz GNPEctonucleoside triphosphate diphosphohydrolase 2 / 0.677
3u9d ATPActin, alpha skeletal muscle / 0.676
4gvz ADPArginine kinase 2.7.3.3 0.668
2fsn ADPArchaeal actin homolog / 0.666
4ihj GTPTubulin alpha-1B chain / 0.666
3ryh GTPTubulin alpha chain / 0.665
1ngi ANPHeat shock cognate 71 kDa protein / 0.660
1nly AGSCag alpha / 0.659
3ez3 IPEFarnesyl pyrophosphate synthase, putative / 0.659
5itz GTPTubulin alpha-1B chain / 0.659
1nge ATPHeat shock cognate 71 kDa protein / 0.656
1q24 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.656
1e4g ATPCell division protein FtsA / 0.653
3hzi ATPSerine/threonine-protein kinase toxin HipA / 0.653
4ymv ATPABC-type polar amino acid transport system, ATPase component / 0.653
1ih8 APCNH(3)-dependent NAD(+) synthetase 6.3.1.5 0.651
3wqu ATPCell division protein FtsA / 0.651
4tv9 GTPTubulin alpha-1B chain / 0.650