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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
3qwpSAMHistone-lysine N-methyltransferase SMYD32.1.1.43

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
3qwpSAMHistone-lysine N-methyltransferase SMYD32.1.1.431.000
3pdnSFGHistone-lysine N-methyltransferase SMYD32.1.1.430.615
3ru0SFGHistone-lysine N-methyltransferase SMYD32.1.1.430.578
3oxfSAHHistone-lysine N-methyltransferase SMYD32.1.1.430.575
5ex0SAHHistone-lysine N-methyltransferase SMYD32.1.1.430.575
5hq8SAHHistone-lysine N-methyltransferase SMYD32.1.1.430.557
4o6fSAHN-lysine methyltransferase SMYD2/0.489
3tg4SAMN-lysine methyltransferase SMYD2/0.485
4yfy1YJVioF/0.458
4eywL0RCarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.454
3ribSAHN-lysine methyltransferase SMYD2/0.450
1rdwLARActin, alpha skeletal muscle/0.448
4e5pNADPhosphonate dehydrogenase1.20.1.10.447
4yfy0FXVioF/0.447
1ikgREXD-alanyl-D-alanine carboxypeptidase3.4.16.40.445
2q1tNADPutative nucleotide sugar epimerase/ dehydratase/0.445
2g8yNADHydroxycarboxylate dehydrogenase B/0.444
5czySAMEukaryotic huntingtin interacting protein B/0.444
3cnpSP7Polyamine oxidase FMS1/0.443
5d3qGDPDynamin-13.6.5.50.442
2h21SAMRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic2.1.1.1270.441
2h2eSA8Ribulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic2.1.1.1270.441
1nhhANPDNA mismatch repair protein MutL/0.440
3vydVYDRenin3.4.23.150.440