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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
2z52 H23 Geranylgeranyl pyrophosphate synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2z52 H23Geranylgeranyl pyrophosphate synthase / 1.265
4nke RISFarnesyl pyrophosphate synthase 2.5.1.10 0.858
2f94 BFQFarnesyl pyrophosphate synthase 2.5.1.10 0.848
4kqs RISFarnesyl pyrophosphate synthase 2.5.1.10 0.824
4q23 RISFarnesyl pyrophosphate synthase 2.5.1.10 0.812
4lfv YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.789
3ez3 ZOLFarnesyl pyrophosphate synthase, putative / 0.788
2e91 ZOLGeranylgeranyl pyrophosphate synthase / 0.786
4dem YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.780
2e95 B75Geranylgeranyl pyrophosphate synthase / 0.755
4ga3 4GAFarnesyl pyrophosphate synthase 2.5.1.10 0.754
2z4y 252Geranylgeranyl pyrophosphate synthase / 0.739
3rye UNRFarnesyl pyrophosphate synthase 2.5.1.10 0.737
5erm 210Fusicoccadiene synthase 4.2.3.43 0.733
4h5d YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.730
2z4w 749Geranylgeranyl pyrophosphate synthase / 0.724
4dwb 0M7Farnesyl pyrophosphate synthase / 0.724
4l2x YL2Farnesyl pyrophosphate synthase 2.5.1.10 0.721
3icz PB6Farnesyl pyrophosphate synthase / 0.709
4h5e YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.693
3rbm B73Farnesyl pyrophosphate synthase, putative / 0.689
2i19 1BYFarnesyl pyrophosphate synthase / 0.688
4brd ANPEctonucleoside triphosphate diphosphohydrolase I / 0.686
2o1o RISPutative farnesyl pyrophosphate synthase / 0.684
2z4z SC0Geranylgeranyl pyrophosphate synthase / 0.684
4bri UNPEctonucleoside triphosphate diphosphohydrolase I / 0.683
2z50 028Geranylgeranyl pyrophosphate synthase / 0.681
4dxj 0M9Farnesyl pyrophosphate synthase / 0.680
2opm NI9Farnesyl pyrophosphate synthase 2.5.1.10 0.676
2zev B71Geranylgeranyl pyrophosphate synthase / 0.676
1n2e APCPantothenate synthetase 6.3.2.1 0.675
1zw5 ZOLFarnesyl pyrophosphate synthase 2.5.1.10 0.675
3ldw ZOLFarnesyl pyrophosphate synthase, putative / 0.674
2e8w IPEGeranylgeranyl pyrophosphate synthase / 0.662
4m69 ANPReceptor-interacting serine/threonine-protein kinase 3 2.7.11.1 0.656
1yv5 RISFarnesyl pyrophosphate synthase 2.5.1.10 0.652
2oap ANPType II secretion system protein (GspE-2) / 0.651
3oab DSTGeranyl diphosphate synthase large subunit / 0.650
3vth APCCarbamoyltransferase / 0.650