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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
3ribSAHN-lysine methyltransferase SMYD2

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3ribSAHN-lysine methyltransferase SMYD2/1.000
3n71SFGHistone-lysine N-methyltransferase Smyd1/0.552
3ru0SFGHistone-lysine N-methyltransferase SMYD32.1.1.430.522
3tg4SAMN-lysine methyltransferase SMYD2/0.517
3pdnSFGHistone-lysine N-methyltransferase SMYD32.1.1.430.514
4o6fSAHN-lysine methyltransferase SMYD2/0.508
5ex0SAHHistone-lysine N-methyltransferase SMYD32.1.1.430.500
2h21SAMRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic2.1.1.1270.484
5hq8SAHHistone-lysine N-methyltransferase SMYD32.1.1.430.472
3cbpSFGHistone-lysine N-methyltransferase SETD72.1.1.430.471
3oxfSAHHistone-lysine N-methyltransferase SMYD32.1.1.430.466
4araC56Acetylcholinesterase3.1.1.70.448
3wqmB29Diterpene synthase3.1.7.80.446
3oadLPORenin3.4.23.150.445
4m0f1YKAcetylcholinesterase3.1.1.70.442
4ey7E20Acetylcholinesterase3.1.1.70.441