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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
3ldw ZOL Farnesyl pyrophosphate synthase, putative

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3ldw ZOLFarnesyl pyrophosphate synthase, putative / 0.959
3rye UNRFarnesyl pyrophosphate synthase 2.5.1.10 0.923
3ez3 ZOLFarnesyl pyrophosphate synthase, putative / 0.900
2f94 BFQFarnesyl pyrophosphate synthase 2.5.1.10 0.899
4kqs RISFarnesyl pyrophosphate synthase 2.5.1.10 0.899
4nke RISFarnesyl pyrophosphate synthase 2.5.1.10 0.879
1zw5 ZOLFarnesyl pyrophosphate synthase 2.5.1.10 0.859
3dyh 721Farnesyl pyrophosphate synthase / 0.854
4q23 RISFarnesyl pyrophosphate synthase 2.5.1.10 0.848
3icz PB6Farnesyl pyrophosphate synthase / 0.837
3egt 722Farnesyl pyrophosphate synthase / 0.836
4h5e YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.831
4dxj 0M9Farnesyl pyrophosphate synthase / 0.828
4h5c YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.816
4dwb 0M7Farnesyl pyrophosphate synthase / 0.806
3rbm B73Farnesyl pyrophosphate synthase, putative / 0.785
4dem YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.780
2e95 B75Geranylgeranyl pyrophosphate synthase / 0.778
4h5d YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.778
1yv5 RISFarnesyl pyrophosphate synthase 2.5.1.10 0.758
1rqj RISFarnesyl diphosphate synthase 2.5.1.10 0.743
2e91 ZOLGeranylgeranyl pyrophosphate synthase / 0.743
2i19 1BYFarnesyl pyrophosphate synthase / 0.741
3ryw K9HFarnesyl pyrophosphate synthase, putative / 0.740
4lfv YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.740
4ga3 4GAFarnesyl pyrophosphate synthase 2.5.1.10 0.738
4l2x YL2Farnesyl pyrophosphate synthase 2.5.1.10 0.733
1yq7 RISFarnesyl pyrophosphate synthase 2.5.1.10 0.724
5erm 210Fusicoccadiene synthase 4.2.3.43 0.724
2z4w 749Geranylgeranyl pyrophosphate synthase / 0.714
2zev B71Geranylgeranyl pyrophosphate synthase / 0.703
2z4z SC0Geranylgeranyl pyrophosphate synthase / 0.696
4mrt COA4'-phosphopantetheinyl transferase sfp 2.7.8 0.688
5ero 210Fusicoccadiene synthase 2.5.1.29 0.686
1khb GCPPhosphoenolpyruvate carboxykinase, cytosolic [GTP] 4.1.1.32 0.678
2z52 H23Geranylgeranyl pyrophosphate synthase / 0.674
3krf DSTGeranyl diphosphate synthase large subunit / 0.673
3umo ATPATP-dependent 6-phosphofructokinase isozyme 2 2.7.1.11 0.671
3ump ATPATP-dependent 6-phosphofructokinase isozyme 2 2.7.1.11 0.669
2py7 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.668
1svm ATPLarge T antigen 3.6.4 0.665
4tl6 ANPCircadian clock protein kinase KaiC 2.7.11.1 0.665
1aq2 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.661
4jvj 1MVFarnesyl pyrophosphate synthase 2.5.1.10 0.660
5flj QUEQuercetinase QueD / 0.658
1xjk DGTVitamin B12-dependent ribonucleotide reductase / 0.657
2q0c CTPPoly(A) polymerase, putative / 0.655
2yeg XQGHeat shock protein HSP 90-alpha / 0.654
3bxz ADPProtein translocase subunit SecA / 0.654
3kzo AN0N-acetylornithine carbamoyltransferase 2.1.3.9 0.654
4ag5 ADPType IV secretory pathway VirB4 components-like protein / 0.654
1lwx AZDNucleoside diphosphate kinase, cytosolic 2.7.4.6 0.653
1os1 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.650
2hgs ADPGlutathione synthetase 6.3.2.3 0.650
4guk P2GNeuronal calcium sensor 1 / 0.650