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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
3rbqGLY_ALA_GLY_ALA_DAOProtein unc-119 homolog A

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3rbqGLY_ALA_GLY_ALA_DAOProtein unc-119 homolog A/1.000
3rbqGLY_ALA_GLY_DAOProtein unc-119 homolog A/0.613
2g1n1IGRenin3.4.23.150.506
1qbgFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.481
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.480
1bwsNDPGDP-L-fucose synthase/0.476
2g1o2IGRenin3.4.23.150.476
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.476
4cukNAID-lactate dehydrogenase/0.475
2g1s4IGRenin3.4.23.150.474
2g247IGRenin3.4.23.150.470
4wdb2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.469
2ikuLIYRenin3.4.23.150.468
4ryvZEAProtein LlR18A/0.468
4pb25UDNucleoside permease/0.466
1e7qNAPGDP-L-fucose synthase/0.465
2d29FADAcyl-CoA dehydrogenase/0.464
3v2uATPProtein GAL3/0.463
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.461
1nzdUPGDNA beta-glucosyltransferase/0.461
4i6gFADCryptochrome-2/0.461
2uxoTACHTH-type transcriptional regulator TtgR/0.460
1kr2TADNicotinamide/nicotinic acid mononucleotide adenylyltransferase 12.7.7.10.458
2i4jDRJPeroxisome proliferator-activated receptor gamma/0.457
3gwfNAPCyclohexanone monooxygenase/0.457
4ruoBIVVitamin D3 receptor A/0.457
1kboFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.456
2pr2DG1Enoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.456
3cib314Beta-secretase 13.4.23.460.456
3lqfNADGalactitol dehydrogenase/0.456
1rpwDIDHTH-type transcriptional regulator QacR/0.455
2e9aB28Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.455
3vt7VDXVitamin D3 receptor/0.454
4ipw1G7Mycocyclosin synthase1.14.21.90.454
1bsvNDPGDP-L-fucose synthase/0.452
1zmdNAIDihydrolipoyl dehydrogenase, mitochondrial1.8.1.40.452
2hcdBIVVitamin D3 receptor A/0.452
3bk2U5PRibonuclease J/0.452
4eywL0RCarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.452
4xnw2IDP2Y purinoceptor 1/0.452
1hdcCBO3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.451
1i59ANPChemotaxis protein CheA2.7.13.30.451
1kkq471Peroxisome proliferator-activated receptor alpha/0.451
2ejvNADL-threonine 3-dehydrogenase/0.451
2g1r3IGRenin3.4.23.150.451
2g1y5IGRenin3.4.23.150.451
2iodMYCDihydroflavonol 4-reductase1.1.1.2190.451
2j3jHC4NADPH-dependent oxidoreductase 2-alkenal reductase1.3.1.740.451
2xviFADPutative flavin-containing monooxygenase/0.451
4hbm0Y7E3 ubiquitin-protein ligase Mdm26.3.20.451
4o7uTHFThymidylate synthase/0.451
1hygNAPL-2-hydroxycarboxylate dehydrogenase (NAD(P)(+))/0.450
1xs7MMIBeta-secretase 13.4.23.460.450
2gv8NDPThiol-specific monooxygenase1.14.130.450
2iqgF2IBeta-secretase 13.4.23.460.450
2rcyNAPPyrroline-5-carboxylate reductase/0.450
3vetADPnebramycin 5' synthase6.1.2.20.450
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.449
3kp4MIITranscriptional regulator TcaR/0.449
3vt9YI4Vitamin D3 receptor/0.449
4ed4ATP4-diphosphocytidyl-2-C-methyl-D-erythritol kinase/0.449
1aiqCB3Thymidylate synthase/0.448
1dxqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.448
1hb3SCVIsopenicillin N synthase1.21.3.10.448
4e5yNDPGDP-L-fucose synthase1.1.1.2710.448
4g3jVNTLanosterol 14-alpha-demethylase/0.448
4nbtNAD3-oxoacyl-[acyl-carrier-protein] reductase/0.447
1pq944BOxysterols receptor LXR-beta/0.446
1zeoC01Peroxisome proliferator-activated receptor gamma/0.446
2g8yNADHydroxycarboxylate dehydrogenase B/0.446
2y6fM9FIsopenicillin N synthase1.21.3.10.446
6ctsCICCitrate synthase, mitochondrial2.3.3.10.446
1e3eNAIAlcohol dehydrogenase 41.1.1.10.445
1h69FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.445
2g226IGRenin3.4.23.150.445
2lbaCHOFatty acid binding protein 6/0.445
3t4nADP5'-AMP-activated protein kinase subunit gamma/0.445
4nd2A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.445
1h50FMNPentaerythritol tetranitrate reductase/0.444
1obnASVIsopenicillin N synthase1.21.3.10.444
1oc1ASVIsopenicillin N synthase1.21.3.10.444
1ps9MDE2,4-dienoyl-CoA reductase1.3.1.340.444
2ptfFMNUncharacterized protein MTH_863/0.444
2qtaTDPPyruvate dehydrogenase E1 component1.2.4.10.444
3hl0NADMaleylacetate reductase/0.444
3p74FMNPentaerythritol tetranitrate reductase/0.444
1nuqNXXNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.443
1r2jFADFkbI/0.443
3f1kNAPUncharacterized oxidoreductase YciK10.443
4a30QMIGlycylpeptide N-tetradecanoyltransferase/0.443
4ambDUDPutative glycosyl transferase/0.443
4enhFVXCholesterol 24-hydroxylase/0.443
4i1iNADMalate dehydrogenase/0.443
4jvnYUGEstrogen sulfotransferase2.8.2.40.443
1aquESTEstrogen sulfotransferase, testis isoform2.8.2.40.442
1fmlRTLRetinol dehydratase/0.442
1nuuNADNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.442
3jzdNADMaleylacetate reductase/0.442
4ge70K5Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.442
4haiI23Bifunctional epoxide hydrolase 23.1.3.760.442
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.441
1fxsNAPGDP-L-fucose synthase/0.441
1gcoNADGlucose 1-dehydrogenase1.1.1.470.441
3lpiZ74Beta-secretase 13.4.23.460.441
3p62FMNPentaerythritol tetranitrate reductase/0.441
4cdmFO1Deoxyribodipyrimidine photolyase/0.441
4i8vBHFCytochrome P450 1A11.14.14.10.441
4qemHC4Phospholipase A2 VRV-PL-VIIIa/0.441
4tuvCPZCytochrome P450 1191.140.441
1sd2MTHS-methyl-5'-thioadenosine phosphorylase/0.440
2aa0MTPAdenosine kinase2.7.1.200.440
2w03ADNAcsD/0.440
2zbaZBATrichothecene 3-O-acetyltransferase/0.440
3b70NAPEnoyl reductase LovC10.440
3c1tMYCDihydroflavonol 4-reductase1.1.1.2190.440
3fpjSAMUncharacterized protein/0.440
4f4dCHDFerrochelatase, mitochondrial4.99.1.10.440
4xwtU5PRibonuclease J/0.440