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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
3qwpSAMHistone-lysine N-methyltransferase SMYD32.1.1.43

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3qwpSAMHistone-lysine N-methyltransferase SMYD32.1.1.431.000
3pdnSFGHistone-lysine N-methyltransferase SMYD32.1.1.430.627
3ru0SFGHistone-lysine N-methyltransferase SMYD32.1.1.430.592
3oxfSAHHistone-lysine N-methyltransferase SMYD32.1.1.430.584
5ex0SAHHistone-lysine N-methyltransferase SMYD32.1.1.430.575
5hq8SAHHistone-lysine N-methyltransferase SMYD32.1.1.430.557
4o6fSAHN-lysine methyltransferase SMYD2/0.494
3tg4SAMN-lysine methyltransferase SMYD2/0.486
3ribSAHN-lysine methyltransferase SMYD2/0.459
4yaoFMNNADPH--cytochrome P450 reductase/0.459
2h21SAMRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic2.1.1.1270.455
2zsaADPPantothenate kinase2.7.1.330.455
5czySAMEukaryotic huntingtin interacting protein B/0.451
2qjoNADBifunctional NMN adenylyltransferase/Nudix hydrolase2.7.7.10.449
1ikgREXD-alanyl-D-alanine carboxypeptidase3.4.16.40.448
3n71SFGHistone-lysine N-methyltransferase Smyd1/0.447
4ynpSAMHistone-lysine N-methyltransferase ASH1L2.1.1.430.447
1ja1FMNNADPH--cytochrome P450 reductase/0.445
1q8uH52cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.444
3qe2FMNNADPH--cytochrome P450 reductase/0.444
2i4qUA4Renin3.4.23.150.443
1kbo340NAD(P)H dehydrogenase [quinone] 11.6.5.20.442
1k08BZDGlycogen phosphorylase, muscle form2.4.1.10.441
1ozvSAHRibulose-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
4briUNPEctonucleoside triphosphate diphosphohydrolase I/0.441
2oapANPType II secretion system protein (GspE-2)/0.440
2pzjNADPutative nucleotide sugar epimerase/ dehydratase/0.440
3eksCY9Actin-5C/0.440