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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
3a5o ATP Major actin

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3a5o ATPMajor actin / 1.146
1qz5 ATPActin, alpha skeletal muscle / 1.117
4b1v ATPActin, alpha skeletal muscle / 1.115
4pkg ATPActin, alpha skeletal muscle / 1.098
1wua ATPActin, alpha skeletal muscle / 1.095
1dej ATPMajor actin / 1.088
4k41 ATPActin, alpha skeletal muscle / 1.086
1c0f ATPMajor actin / 1.083
1s22 ATPActin, alpha skeletal muscle / 1.083
3m6g ATPActin, alpha skeletal muscle / 1.076
3chw ATPMajor actin / 1.065
3w3d ATPActin, gamma-enteric smooth muscle / 1.065
3mn9 ATPActin-5C / 1.062
1kxp ATPActin, alpha skeletal muscle / 1.055
1t44 ATPActin, alpha skeletal muscle / 1.055
4pki ATPActin, alpha skeletal muscle / 1.048
1nlv ATPMajor actin / 1.047
3mn6 ATPActin-5C / 1.047
4pl8 ATPActin, alpha skeletal muscle / 1.035
2v51 ATPActin, alpha skeletal muscle / 1.034
3eku ATPActin-5C / 1.030
3mn7 ATPActin-5C / 1.026
2a41 ATPActin, alpha skeletal muscle / 1.021
1eqy ATPActin, alpha skeletal muscle / 1.017
3eks ATPActin-5C / 1.014
3m1f ATPActin, alpha skeletal muscle / 1.006
5ce3 ATPActin / 1.003
2q36 ATPActin, alpha skeletal muscle / 0.998
2q97 ATPActin, alpha skeletal muscle / 0.994
4cbx ATPActin-2 / 0.979
1mdu ATPActin, alpha skeletal muscle / 0.962
2p9k ATPActin-related protein 2 / 0.953
3el2 ATPActin-5C / 0.949
3daw ATPActin, alpha skeletal muscle / 0.948
1ijj ATPActin, alpha skeletal muscle / 0.929
3ffk ATPActin, alpha skeletal muscle / 0.926
3tu5 ATPActin, alpha skeletal muscle / 0.926
1lot ATPActin, alpha skeletal muscle / 0.925
2oan ATPActin, cytoplasmic 1 / 0.910
1rgi ATPActin, alpha skeletal muscle / 0.901
4pkh ADPActin, alpha skeletal muscle / 0.900
4ci6 ATPActin / 0.899
1h1v ATPActin, alpha skeletal muscle / 0.885
1atn ATPActin, alpha skeletal muscle / 0.879
3wt0 ATPCell division protein FtsA / 0.861
3a5m ATPMajor actin / 0.860
4m63 ATPActin-5C / 0.845
1nm1 ATPMajor actin / 0.829
1yxq ATPActin, alpha skeletal muscle / 0.828
1rfq ATPActin, alpha skeletal muscle / 0.821
3d2e ATPHeat shock protein homolog SSE1 / 0.803
4jhd ANPActin-5C / 0.794
1nmd ATPMajor actin / 0.793
4ehu ANP2-hydroxyisocaproyl-CoA dehydratase activator / 0.768
3ule ATPActin-related protein 2 / 0.755
4k42 ADPActin, alpha skeletal muscle / 0.755
2zgz GNPPlasmid segregation protein ParM / 0.741
4a61 ANPPlasmid segregation protein ParM / 0.736
3wqt ANPCell division protein FtsA / 0.729
4a62 ANPPlasmid segregation protein ParM / 0.721
3u4l ATPActin, cytoplasmic 1 / 0.712
4k43 ADPActin, alpha skeletal muscle / 0.703
2fsn ADPArchaeal actin homolog / 0.694
4brd ANPEctonucleoside triphosphate diphosphohydrolase I / 0.693
4bri UNPEctonucleoside triphosphate diphosphohydrolase I / 0.692
3u9d ATPActin, alpha skeletal muscle / 0.681
5bsm ATP4-coumarate--CoA ligase 2 6.2.1.12 0.680
1mwm ADPPlasmid segregation protein ParM / 0.671
3ryh GTPTubulin alpha chain / 0.670
1i7l ATPSynapsin-2 / 0.668
3zcb ATPAdenosine monophosphate-protein transferase VbhT 2.7.7.n1 0.668
2a84 ATPPantothenate synthetase 6.3.2.1 0.667
5itz GTPTubulin alpha-1B chain / 0.662
4a2b AGSCell division protein FtsA / 0.661
2x60 GTPMannose-1-phosphate guanylyltransferase / 0.659
2olq ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.658
5c03 AGSNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.658
4tv9 GTPTubulin alpha-1B chain / 0.655
4yj2 GTPTubulin alpha-1B chain / 0.654
3ldo ANP78 kDa glucose-regulated protein / 0.653
4ihj GTPTubulin alpha-1B chain / 0.652
4a2a ATPCell division protein FtsA / 0.651
3ruq ADPChaperonin / 0.650
4bqz GNPEctonucleoside triphosphate diphosphohydrolase 2 / 0.650