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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
3krfIPEGeranyl diphosphate synthase large subunit

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
3krfIPEGeranyl diphosphate synthase large subunit/1.000
3krfDSTGeranyl diphosphate synthase large subunit/0.946
3oabDSTGeranyl diphosphate synthase large subunit/0.627
4lfgIPEPutative geranyltranstransferase/0.548
1rqjRISFarnesyl diphosphate synthase2.5.1.100.535
1rqjIPEFarnesyl diphosphate synthase2.5.1.100.534
3rywK9HFarnesyl pyrophosphate synthase, putative/0.498
3ez3ZOLFarnesyl pyrophosphate synthase, putative/0.485
4nkeRISFarnesyl pyrophosphate synthase2.5.1.100.484
1zw5ZOLFarnesyl pyrophosphate synthase2.5.1.100.482
4kqsRISFarnesyl pyrophosphate synthase2.5.1.100.482
3ldwZOLFarnesyl pyrophosphate synthase, putative/0.480
4kqsIPEFarnesyl pyrophosphate synthase2.5.1.100.479
4nkeIPEFarnesyl pyrophosphate synthase2.5.1.100.475
4lfvYS4Farnesyl pyrophosphate synthase2.5.1.100.471
2opmNI9Farnesyl pyrophosphate synthase2.5.1.100.465
3ez3IPEFarnesyl pyrophosphate synthase, putative/0.463
3ldwIPEFarnesyl pyrophosphate synthase, putative/0.463
3dyh721Farnesyl pyrophosphate synthase/0.452
2f94BFQFarnesyl pyrophosphate synthase2.5.1.100.447
4q23RISFarnesyl pyrophosphate synthase2.5.1.100.442