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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
3od0PCGcGMP-dependent protein kinase 12.7.11.12

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
3od0PCGcGMP-dependent protein kinase 12.7.11.121.000
4z07PCGcGMP-dependent protein kinase 12.7.11.120.522
5c8wPCGcGMP-dependent protein kinase 22.7.11.120.491
5c6cCMPcGMP-dependent protein kinase 22.7.11.120.475
3lqfNADGalactitol dehydrogenase/0.454
3ictFADCoenzyme A disulfide reductase/0.452
1phhFADp-hydroxybenzoate hydroxylase/0.451
2ww4ADP4-diphosphocytidyl-2-C-methyl-D-erythritol kinase2.7.1.1480.451
1v1aKDG2-dehydro-3-deoxygluconokinase2.7.1.450.450
1hw8ADP3-hydroxy-3-methylglutaryl-coenzyme A reductase1.1.1.340.449
4r1lADPPhenylacetate-coenzyme A ligase/0.449
2itwITQEpidermal growth factor receptor2.7.10.10.447
4k28NADShikimate dehydrogenase family protein/0.447
1dssNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.446
3kjm245Cytokinin dehydrogenase 11.5.99.120.444
2chx090Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.443
2vwpNDPGlucose 1-dehydrogenase/0.443
4rlh0WEEnoyl-[acyl-carrier-protein] reductase [NADH]/0.443
4a9e3PFBromodomain-containing protein 2/0.442
2g5cNADPrephenate dehydrogenase/0.441
2oz6CMPCyclic AMP receptor-like protein/0.441
4hgs15GCasein kinase I isoform gamma-32.7.11.10.441
4imoPWZProstaglandin-H2 D-isomerase5.3.99.20.441
4ix5ANPUncharacterized protein/0.440