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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
5f59SAHHistone-lysine N-methyltransferase 2C2.1.1.43

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
5f59SAHHistone-lysine N-methyltransferase 2C2.1.1.431.000
4z4pSAHHistone-lysine N-methyltransferase 2D2.1.1.430.555
4qenSAHHistone-lysine N-methyltransferase, H3 lysine-9 specific SUVH42.1.1.430.505
4ypuSAMHistone-lysine N-methyltransferase ASH1L2.1.1.430.500
2g226IGRenin3.4.23.150.489
2xytTC9Soluble acetylcholine receptor/0.486
1x1aSAMC-20 methyltransferase/0.485
1bwsNDPGDP-L-fucose synthase/0.483
3oqfS51Renin3.4.23.150.481
5ah5LSSLeucine--tRNA ligase/0.479
2wzySQXSoluble acetylcholine receptor/0.473
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.467
3rsv3RSBeta-secretase 13.4.23.460.466
1nquRDL6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.465
4xnw2IDP2Y purinoceptor 1/0.465
3oqkS52Renin3.4.23.150.463
2i4qUA4Renin3.4.23.150.460
3gwfNAPCyclohexanone monooxygenase/0.460
3zkpERBErythromycin C-12 hydroxylase1.14.13.1540.460
3jsxCC2NAD(P)H dehydrogenase [quinone] 11.6.5.20.458
4ynmSAMHistone-lysine N-methyltransferase ASH1L2.1.1.430.457
3oeeANPATP synthase subunit alpha, mitochondrial/0.456
3oeeANPATP synthase subunit beta, mitochondrial3.6.3.140.456
3otwCOAPhosphopantetheine adenylyltransferase/0.456
2zsaADPPantothenate kinase2.7.1.330.454
3aezGDPPantothenate kinase2.7.1.330.453
4gdcNDPUDP-galactopyranose mutase/0.453
5fd8A5APutative carboxypeptidase yocD/0.452
2g1s4IGRenin3.4.23.150.450
2geuCOKPantothenate kinase2.7.1.330.450
2xnvVU3Soluble acetylcholine receptor/0.449
3af0GDPPantothenate kinase2.7.1.330.449
4r81FMNPredicted NADH dehydrogenase/0.449
1fapRAPPeptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.448
1fapRAPSerine/threonine-protein kinase mTOR2.7.11.10.448
2g1r3IGRenin3.4.23.150.448
1gg5FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.447
2uxoTACHTH-type transcriptional regulator TtgR/0.447
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.447
1h66FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.446
1rf7DHFDihydrofolate reductase1.5.1.30.446
2ejzSAHDiphthine synthase/0.446
2fw3BUICarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.446
2gesCOKPantothenate kinase2.7.1.330.446
2o8jSAHHistone-lysine N-methyltransferase EHMT2/0.446
4bfvZVVPantothenate kinase2.7.1.330.446
4r21STRCytochrome P450 family 17 polypeptide 2/0.446
1fmlRTLRetinol dehydratase/0.445
1jqdSAHHistamine N-methyltransferase2.1.1.80.445
3fapARDPeptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.445
3fapARDSerine/threonine-protein kinase mTOR2.7.11.10.445
1dxqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.444
4rh10TTSpore photoproduct lyase/0.444
4ynpSAMHistone-lysine N-methyltransferase ASH1L2.1.1.430.444
1rneC60Renin3.4.23.150.443
2g247IGRenin3.4.23.150.443
3pm1ETHTH-type transcriptional regulator QacR/0.443
2gv8NDPThiol-specific monooxygenase1.14.130.442
3b9oFMNAlkane monoxygenase/0.441
3fhxPXLPyridoxal kinase2.7.1.350.441
4b144XBGlycylpeptide N-tetradecanoyltransferase/0.441