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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
4ga3 4GA Farnesyl pyrophosphate synthase 2.5.1.10

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4ga3 4GAFarnesyl pyrophosphate synthase 2.5.1.10 1.170
4h5c YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.982
4lfv YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.965
4dem YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.947
4h5d YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.928
4kqs RISFarnesyl pyrophosphate synthase 2.5.1.10 0.926
3dyh 721Farnesyl pyrophosphate synthase / 0.924
4q23 RISFarnesyl pyrophosphate synthase 2.5.1.10 0.886
4h5e YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.881
2f94 BFQFarnesyl pyrophosphate synthase 2.5.1.10 0.877
2opm NI9Farnesyl pyrophosphate synthase 2.5.1.10 0.850
1rqj RISFarnesyl diphosphate synthase 2.5.1.10 0.846
4dxj 0M9Farnesyl pyrophosphate synthase / 0.844
4l2x YL2Farnesyl pyrophosphate synthase 2.5.1.10 0.837
4dwb 0M7Farnesyl pyrophosphate synthase / 0.836
3egt 722Farnesyl pyrophosphate synthase / 0.820
4nke RISFarnesyl pyrophosphate synthase 2.5.1.10 0.820
3icz PB6Farnesyl pyrophosphate synthase / 0.799
1yv5 RISFarnesyl pyrophosphate synthase 2.5.1.10 0.797
3rye UNRFarnesyl pyrophosphate synthase 2.5.1.10 0.781
2o1o RISPutative farnesyl pyrophosphate synthase / 0.780
3krf DSTGeranyl diphosphate synthase large subunit / 0.771
1zw5 ZOLFarnesyl pyrophosphate synthase 2.5.1.10 0.767
2z52 H23Geranylgeranyl pyrophosphate synthase / 0.754
3ldw ZOLFarnesyl pyrophosphate synthase, putative / 0.738
5erm 210Fusicoccadiene synthase 4.2.3.43 0.736
3ryw K9HFarnesyl pyrophosphate synthase, putative / 0.730
4jvj 1MVFarnesyl pyrophosphate synthase 2.5.1.10 0.730
3oab DSTGeranyl diphosphate synthase large subunit / 0.713
2e95 B75Geranylgeranyl pyrophosphate synthase / 0.711
2olq ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.710
2jj2 ANPATP synthase subunit beta, mitochondrial 3.6.3.14 0.707
2i19 1BYFarnesyl pyrophosphate synthase / 0.703
1x09 IPEDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) 2.5.1.31 0.697
2jiz ANPATP synthase subunit beta, mitochondrial 3.6.3.14 0.696
1yq7 RISFarnesyl pyrophosphate synthase 2.5.1.10 0.687
2z4z SC0Geranylgeranyl pyrophosphate synthase / 0.686
2z7h GG3Geranylgeranyl pyrophosphate synthase / 0.686
2z4w 749Geranylgeranyl pyrophosphate synthase / 0.684
1g4p FQPThiamine-phosphate synthase / 0.677
3rbm B73Farnesyl pyrophosphate synthase, putative / 0.674
2e93 B29Geranylgeranyl pyrophosphate synthase / 0.673
3ryh GTPTubulin alpha chain / 0.673
3zhq TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.673
3s87 DGTRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.671
3oes GNPGTPase RhebL1 / 0.670
2cvx DGTRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.669
4hut ATPCob(I)yrinic acid a,c-diamide adenosyltransferase 2.5.1.17 0.669
4tv9 GTPTubulin alpha-1B chain / 0.665
1z2c GNPRho-related GTP-binding protein RhoC / 0.663
2e8w IPEGeranylgeranyl pyrophosphate synthase / 0.662
4yj2 GTPTubulin alpha-1B chain / 0.662
2hgs ADPGlutathione synthetase 6.3.2.3 0.661
3exh TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.661
3exh TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.661
3lzx NAPFerredoxin--NADP reductase 2 1.18.1.2 0.659
4tnr DTPDeoxynucleoside triphosphate triphosphohydrolase SAMHD1 3.1.5 0.659
4dbz NDPPutative ketoacyl reductase 1.3.1 0.657
4mz7 DGTDeoxynucleoside triphosphate triphosphohydrolase SAMHD1 3.1.5 0.657
4bzc T8TDeoxynucleoside triphosphate triphosphohydrolase SAMHD1 3.1.5 0.656
3ar4 ATPSarcoplasmic/endoplasmic reticulum calcium ATPase 1 3.6.3.8 0.655
1pno NAPNAD(P) transhydrogenase subunit beta 1.6.1.2 0.652
2a2d ANPN-acetylgalactosamine kinase 2.7.1.157 0.651
4xjx ATPType I restriction enzyme EcoR124II R protein 3.1.21.3 0.651
1eqg IBPProstaglandin G/H synthase 1 1.14.99.1 0.650
1svm ATPLarge T antigen 3.6.4 0.650
3kmw ATPIntegrin-linked protein kinase 2.7.11.1 0.650