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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
3dyh 721 Farnesyl pyrophosphate synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3dyh 721Farnesyl pyrophosphate synthase / 1.212
3egt 722Farnesyl pyrophosphate synthase / 1.055
3icz PB6Farnesyl pyrophosphate synthase / 0.986
4dem YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.932
4ga3 4GAFarnesyl pyrophosphate synthase 2.5.1.10 0.924
4q23 RISFarnesyl pyrophosphate synthase 2.5.1.10 0.889
3rye UNRFarnesyl pyrophosphate synthase 2.5.1.10 0.888
4dxj 0M9Farnesyl pyrophosphate synthase / 0.886
4kqs RISFarnesyl pyrophosphate synthase 2.5.1.10 0.883
4lfv YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.867
4h5e YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.858
3ldw ZOLFarnesyl pyrophosphate synthase, putative / 0.854
1rqj RISFarnesyl diphosphate synthase 2.5.1.10 0.850
4nke RISFarnesyl pyrophosphate synthase 2.5.1.10 0.847
4h5c YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.841
1yv5 RISFarnesyl pyrophosphate synthase 2.5.1.10 0.840
3ez3 ZOLFarnesyl pyrophosphate synthase, putative / 0.838
4h5d YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.837
2o1o RISPutative farnesyl pyrophosphate synthase / 0.768
3ryw K9HFarnesyl pyrophosphate synthase, putative / 0.764
1zw5 ZOLFarnesyl pyrophosphate synthase 2.5.1.10 0.757
2f94 BFQFarnesyl pyrophosphate synthase 2.5.1.10 0.745
4jvj 1MVFarnesyl pyrophosphate synthase 2.5.1.10 0.745
2zev B71Geranylgeranyl pyrophosphate synthase / 0.737
5erm 210Fusicoccadiene synthase 4.2.3.43 0.699
2py7 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.694
4l2x YL2Farnesyl pyrophosphate synthase 2.5.1.10 0.694
3rbm B73Farnesyl pyrophosphate synthase, putative / 0.690
2e91 ZOLGeranylgeranyl pyrophosphate synthase / 0.673
5bsm ATP4-coumarate--CoA ligase 2 6.2.1.12 0.673
2z4w 749Geranylgeranyl pyrophosphate synthase / 0.672
3mhy ATPNitrogen regulatory protein P-II 1 / 0.669
2r5t ANPSerine/threonine-protein kinase Sgk1 2.7.11.1 0.668
1aq2 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.666
2z4y 252Geranylgeranyl pyrophosphate synthase / 0.665
1svm ATPLarge T antigen 3.6.4 0.663
4dwb 0M7Farnesyl pyrophosphate synthase / 0.660
2x0q ATPAlcaligin biosynthesis protein / 0.659
1day GNPCasein kinase II subunit alpha 2.7.11.1 0.656
3zcb ATPAdenosine monophosphate-protein transferase VbhT 2.7.7.n1 0.656
1khe GCPPhosphoenolpyruvate carboxykinase, cytosolic [GTP] 4.1.1.32 0.655
1aux AGSSynapsin-1 / 0.654
3dkv AP5Adenylate kinase / 0.651
4dh7 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.651
5itz GTPTubulin alpha-1B chain / 0.651
4j1t NAPNAD(P) transhydrogenase subunit beta / 0.650