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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
3pdnSFGHistone-lysine N-methyltransferase SMYD32.1.1.43

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3pdnSFGHistone-lysine N-methyltransferase SMYD32.1.1.431.000
3ru0SFGHistone-lysine N-methyltransferase SMYD32.1.1.430.530
3n71SFGHistone-lysine N-methyltransferase Smyd1/0.497
3qwpSAMHistone-lysine N-methyltransferase SMYD32.1.1.430.486
3oxfSAHHistone-lysine N-methyltransferase SMYD32.1.1.430.481
3tg4SAMN-lysine methyltransferase SMYD2/0.468
3ribSAHN-lysine methyltransferase SMYD2/0.456
5ex0SAHHistone-lysine N-methyltransferase SMYD32.1.1.430.456
4o6fSAHN-lysine methyltransferase SMYD2/0.454
2h21SAMRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic2.1.1.1270.453
5hq8SAHHistone-lysine N-methyltransferase SMYD32.1.1.430.447