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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites 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
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
3kroIPEGeranyl diphosphate synthase large subunit

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3kroIPEGeranyl diphosphate synthase large subunit/1.000
3upkUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.455
4k88HFGBifunctional glutamate/proline--tRNA ligase6.1.1.150.453
4gh6LUOHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.451
3hj9FMNUncharacterized protein/0.450
2ourCMPcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.446
4bb3KKAIsopenicillin N synthase1.21.3.10.443
4bgePYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.442
1bcpATPPertussis toxin subunit 4/0.441
1bcpATPPertussis toxin subunit 5/0.441
1blzACVIsopenicillin N synthase1.21.3.10.440
1tw2ERTCarminomycin 4-O-methyltransferase DnrK2.1.1.2920.440