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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
5ex0SAHHistone-lysine N-methyltransferase SMYD32.1.1.43

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
5ex0SAHHistone-lysine N-methyltransferase SMYD32.1.1.431.000
3ru0SFGHistone-lysine N-methyltransferase SMYD32.1.1.430.622
3oxfSAHHistone-lysine N-methyltransferase SMYD32.1.1.430.606
5hq8SAHHistone-lysine N-methyltransferase SMYD32.1.1.430.589
3qwpSAMHistone-lysine N-methyltransferase SMYD32.1.1.430.588
3pdnSFGHistone-lysine N-methyltransferase SMYD32.1.1.430.582
3tg4SAMN-lysine methyltransferase SMYD2/0.549
4o6fSAHN-lysine methyltransferase SMYD2/0.521
3ribSAHN-lysine methyltransferase SMYD2/0.502
3n71SFGHistone-lysine N-methyltransferase Smyd1/0.484
1mlvSAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic2.1.1.1270.471
2h2eSA8Ribulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic2.1.1.1270.468
4yfy0FXVioF/0.457
3toxNAPPutative oxidoreductase/0.452
4yfy1YJVioF/0.449
1ozvSAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic2.1.1.1270.444
4b7754MBeta-secretase 13.4.23.460.443
4hp8NAP2-deoxy-D-gluconate 3-dehydrogenase/0.443
2o23NAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.442
2c29NAPDihydroflavonol 4-reductase/0.441
3qgf46FGenome polyprotein2.7.7.480.441