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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
1mdu ATP Actin, alpha skeletal muscle

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1mdu ATPActin, alpha skeletal muscle / 1.031
2q36 ATPActin, alpha skeletal muscle / 0.999
4pki ATPActin, alpha skeletal muscle / 0.999
1t44 ATPActin, alpha skeletal muscle / 0.998
1qz5 ATPActin, alpha skeletal muscle / 0.997
4pkg ATPActin, alpha skeletal muscle / 0.997
1dej ATPMajor actin / 0.996
1s22 ATPActin, alpha skeletal muscle / 0.996
4k41 ATPActin, alpha skeletal muscle / 0.996
4pl8 ATPActin, alpha skeletal muscle / 0.980
1c0f ATPMajor actin / 0.976
3a5o ATPMajor actin / 0.962
4b1v ATPActin, alpha skeletal muscle / 0.960
5ce3 ATPActin / 0.948
3mn7 ATPActin-5C / 0.931
2q97 ATPActin, alpha skeletal muscle / 0.928
3mn6 ATPActin-5C / 0.921
1lot ATPActin, alpha skeletal muscle / 0.915
1eqy ATPActin, alpha skeletal muscle / 0.913
3eks ATPActin-5C / 0.913
4ci6 ATPActin / 0.912
3eku ATPActin-5C / 0.911
1wua ATPActin, alpha skeletal muscle / 0.909
3mn9 ATPActin-5C / 0.908
3el2 ATPActin-5C / 0.907
2v51 ATPActin, alpha skeletal muscle / 0.904
3m6g ATPActin, alpha skeletal muscle / 0.903
3chw ATPMajor actin / 0.902
3tu5 ATPActin, alpha skeletal muscle / 0.900
3ffk ATPActin, alpha skeletal muscle / 0.898
1kxp ATPActin, alpha skeletal muscle / 0.895
3m1f ATPActin, alpha skeletal muscle / 0.895
3w3d ATPActin, gamma-enteric smooth muscle / 0.895
4cbx ATPActin-2 / 0.888
1rgi ATPActin, alpha skeletal muscle / 0.886
2oan ATPActin, cytoplasmic 1 / 0.874
3daw ATPActin, alpha skeletal muscle / 0.873
2a41 ATPActin, alpha skeletal muscle / 0.855
1atn ATPActin, alpha skeletal muscle / 0.839
4m63 ATPActin-5C / 0.836
3wt0 ATPCell division protein FtsA / 0.831
2p9k ATPActin-related protein 2 / 0.825
1ijj ATPActin, alpha skeletal muscle / 0.823
1nlv ATPMajor actin / 0.820
1h1v ATPActin, alpha skeletal muscle / 0.815
4pkh ADPActin, alpha skeletal muscle / 0.800
3a5m ATPMajor actin / 0.798
4b9q ATPChaperone protein DnaK / 0.784
1rfq ATPActin, alpha skeletal muscle / 0.778
1yxq ATPActin, alpha skeletal muscle / 0.771
4jhd ANPActin-5C / 0.762
4ehu ANP2-hydroxyisocaproyl-CoA dehydratase activator / 0.758
1nmd ATPMajor actin / 0.757
3wqt ANPCell division protein FtsA / 0.751
4a62 ANPPlasmid segregation protein ParM / 0.749
1nm1 ATPMajor actin / 0.741
4a61 ANPPlasmid segregation protein ParM / 0.725
2e2q ADPATP-dependent hexokinase / 0.723
3d2e ATPHeat shock protein homolog SSE1 / 0.709
2zgz GNPPlasmid segregation protein ParM / 0.706
4eht ADP2-hydroxyisocaproyl-CoA dehydratase activator / 0.705
4brg GNPEctonucleoside triphosphate diphosphohydrolase I / 0.700
1mwm ADPPlasmid segregation protein ParM / 0.691
4brd ANPEctonucleoside triphosphate diphosphohydrolase I / 0.689
3ule ATPActin-related protein 2 / 0.685
4bri UNPEctonucleoside triphosphate diphosphohydrolase I / 0.684
3ub5 ATPActin, cytoplasmic 1 / 0.678
4k42 ADPActin, alpha skeletal muscle / 0.674
4dqw ATPInosine-5'-monophosphate dehydrogenase / 0.672
4tnp DCPDeoxynucleoside triphosphate triphosphohydrolase SAMHD1 3.1.5 0.672
4nke RISFarnesyl pyrophosphate synthase 2.5.1.10 0.671
4k43 ADPActin, alpha skeletal muscle / 0.665
3orl AGSSerine/threonine protein kinase / 0.664
4iyg 1HUStrictosidine synthase 4.3.3.2 0.656
2qmz LDPRibosyldihydronicotinamide dehydrogenase [quinone] / 0.654
2yeg XQGHeat shock protein HSP 90-alpha / 0.654
2pz8 APCNH(3)-dependent NAD(+) synthetase / 0.651
2qcs ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.650
4o4l GTPTubulin alpha-1B chain / 0.650