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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
3ryw K9H Farnesyl pyrophosphate synthase, putative

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3ryw K9HFarnesyl pyrophosphate synthase, putative / 1.328
4kqs RISFarnesyl pyrophosphate synthase 2.5.1.10 0.822
4dxj 0M9Farnesyl pyrophosphate synthase / 0.783
3ez3 ZOLFarnesyl pyrophosphate synthase, putative / 0.781
4q23 RISFarnesyl pyrophosphate synthase 2.5.1.10 0.765
3dyh 721Farnesyl pyrophosphate synthase / 0.764
1rqj RISFarnesyl diphosphate synthase 2.5.1.10 0.761
4h5d YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.751
3rye UNRFarnesyl pyrophosphate synthase 2.5.1.10 0.744
3ldw ZOLFarnesyl pyrophosphate synthase, putative / 0.740
3rbm B73Farnesyl pyrophosphate synthase, putative / 0.738
4ga3 4GAFarnesyl pyrophosphate synthase 2.5.1.10 0.730
2o1o RISPutative farnesyl pyrophosphate synthase / 0.724
2f94 BFQFarnesyl pyrophosphate synthase 2.5.1.10 0.721
4lfv YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.708
4nke RISFarnesyl pyrophosphate synthase 2.5.1.10 0.702
2e8w IPEGeranylgeranyl pyrophosphate synthase / 0.698
4h5e YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.690
2bc9 GNPGuanylate-binding protein 1 / 0.686
3m0e ATPTranscriptional regulator (NtrC family) / 0.684
1yv5 RISFarnesyl pyrophosphate synthase 2.5.1.10 0.679
4dwb 0M7Farnesyl pyrophosphate synthase / 0.679
3oab DSTGeranyl diphosphate synthase large subunit / 0.677
1esn ANPPantothenate kinase 2.7.1.33 0.670
2i19 1BYFarnesyl pyrophosphate synthase / 0.666
2zev B71Geranylgeranyl pyrophosphate synthase / 0.665
1khe GCPPhosphoenolpyruvate carboxykinase, cytosolic [GTP] 4.1.1.32 0.662
1ytm ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.662
3icz PB6Farnesyl pyrophosphate synthase / 0.662
3dt4 GTPPhosphoenolpyruvate carboxykinase, cytosolic [GTP] 4.1.1.32 0.658
3dt2 GTPPhosphoenolpyruvate carboxykinase, cytosolic [GTP] 4.1.1.32 0.657
2e91 ZOLGeranylgeranyl pyrophosphate synthase / 0.656
1zw5 ZOLFarnesyl pyrophosphate synthase 2.5.1.10 0.653
3bxz ADPProtein translocase subunit SecA / 0.651
4h5c YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.651