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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
2cjpVPREpoxide hydrolase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2cjpVPREpoxide hydrolase/1.000
3v2uATPProtein GAL3/0.494
3otqMZLBifunctional epoxide hydrolase 23.3.2.100.489
4haiI23Bifunctional epoxide hydrolase 23.1.3.760.484
2y02WHJBeta-1 adrenergic receptor/0.476
3kp0Z98D-ornithine 4,5-aminomutase subunit beta/0.474
3q9bB3NAcetylpolyamine amidohydrolase/0.473
4ipw1G7Mycocyclosin synthase1.14.21.90.472
3gjwGJWPoly [ADP-ribose] polymerase 12.4.2.300.469
2xlrFADPutative flavin-containing monooxygenase/0.468
2zhf49UProthrombin3.4.21.50.468
3kozZ97D-ornithine 4,5-aminomutase subunit beta/0.466
5dp2NAPCurF/0.466
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.465
4ips1G4Mycocyclosin synthase1.14.21.90.465
1amoFMNNADPH--cytochrome P450 reductase/0.464
3cmfPDN3-oxo-5-beta-steroid 4-dehydrogenase/0.463
3zhsTD6Multifunctional 2-oxoglutarate metabolism enzyme1.2.4.20.463
3oadLPORenin3.4.23.150.462
4c72TLG3-oxoacyl-ACP synthase/0.462
2cibCM6Lanosterol 14-alpha demethylase1.14.13.700.461
4cax646Glycylpeptide N-tetradecanoyltransferase2.3.1.970.461
1d4pBPPProthrombin3.4.21.50.460
2po7CHDFerrochelatase, mitochondrial4.99.1.10.460
4m9aFDAAcyl-CoA dehydrogenase/0.459
3uyk0CXProbable NDP-rhamnosyltransferase/0.458
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.458
1eveE20Acetylcholinesterase3.1.1.70.457
1txtCAAHMG-CoA synthase/0.457
2iqgF2IBeta-secretase 13.4.23.460.457
2r2mI50Prothrombin3.4.21.50.456
3dv0TPWPyruvate dehydrogenase E1 component subunit alpha1.2.4.10.456
3dv0TPWPyruvate dehydrogenase E1 component subunit beta1.2.4.10.456
3fktSIIBeta-secretase 13.4.23.460.456
3ipq965Oxysterols receptor LXR-alpha/0.456
1nm6L86Prothrombin3.4.21.50.455
2oalFADFlavin-dependent tryptophan halogenase RebH1.14.19.90.455
2ziq26UProthrombin3.4.21.50.455
3c15FOKAdenylate cyclase type 2/0.455
3c15FOKAdenylate cyclase type 5/0.455
4b12C23Glycylpeptide N-tetradecanoyltransferase/0.455
1d3pBT3Prothrombin3.4.21.50.454
4b4vL34Bifunctional protein FolD/0.454
2cekN8TAcetylcholinesterase3.1.1.70.453
3w8wFADPutative FAD-dependent oxygenase EncM/0.452
4x7zZM3Mycinamicin III 3''-O-methyltransferase2.1.1.2370.452
2jj2ANPATP synthase subunit beta, mitochondrial3.6.3.140.451
4bb3KKAIsopenicillin N synthase1.21.3.10.451
4xsvC5PEthanolamine-phosphate cytidylyltransferase2.7.7.140.451
1efyBZCPoly [ADP-ribose] polymerase 12.4.2.300.450
1h66RH1NAD(P)H dehydrogenase [quinone] 11.6.5.20.450
2yneYNEGlycylpeptide N-tetradecanoyltransferase/0.450
3dh7FMNIsopentenyl-diphosphate delta-isomerase/0.450
3iqiASN_GLU_ASN_ILECysteine synthase2.5.1.470.450
5cmx0G6Prothrombin3.4.21.50.450
5hbrCOAAcyl-CoA synthetase (NDP forming)/0.450
1c7oPPGHemolysin/0.449
1thz326Bifunctional purine biosynthesis protein PURH2.1.2.30.449
4a959MTGlycylpeptide N-tetradecanoyltransferase/0.449
1cjkFOKAdenylate cyclase type 2/0.448
1cjkFOKAdenylate cyclase type 5/0.448
3jsxCC2NAD(P)H dehydrogenase [quinone] 11.6.5.20.448
4bbhYBNGlycylpeptide N-tetradecanoyltransferase/0.448
1pqc444Oxysterols receptor LXR-beta/0.447
2bn4FMNNADPH--cytochrome P450 reductase/0.447
2ohhFMNType A flavoprotein FprA10.447
2xupTZ5Acetylcholinesterase3.1.1.70.447
3k1wBFXRenin3.4.23.150.447
3pblETQD(3) dopamine receptor/0.447
2xlpNAPPutative flavin-containing monooxygenase/0.446
4nwiCTN7-methylguanosine phosphate-specific 5'-nucleotidase/0.446
2bf4FMNNADPH--cytochrome P450 reductase/0.445
2d29FADAcyl-CoA dehydrogenase/0.445
2g25TDKPyruvate dehydrogenase E1 component1.2.4.10.445
2jh6894Prothrombin3.4.21.50.445
2xi4AFTAcetylcholinesterase3.1.1.70.445
2xlpFADPutative flavin-containing monooxygenase/0.445
3lpiZ74Beta-secretase 13.4.23.460.445
4a2zVIQGlycylpeptide N-tetradecanoyltransferase/0.445
1ve3SAMUncharacterized protein/0.444
3k3ePDBHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.444
3vqsJT1Genome polyprotein/0.444
4araC56Acetylcholinesterase3.1.1.70.444
4iilRBFMembrane lipoprotein TpN38(b)/0.444
5cc9DDFDihydrofolate reductase1.5.1.30.444
1e66HUXAcetylcholinesterase3.1.1.70.443
2pksG44Prothrombin3.4.21.50.443
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.443
4bfxZVXPantothenate kinase2.7.1.330.443
4c1iEH9cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.443
4jv81M1Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.443
4opiFDAConserved Archaeal protein/0.443
1culFOKAdenylate cyclase type 2/0.442
1culFOKAdenylate cyclase type 5/0.442
1h22E10Acetylcholinesterase3.1.1.70.442
2j9fTHV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial1.2.4.40.442
2j9fTHV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial1.2.4.40.442
2vb8TLM3-oxoacyl-[acyl-carrier-protein] synthase 12.3.1.410.442
3qe2FMNNADPH--cytochrome P450 reductase/0.442
3uzzASD3-oxo-5-beta-steroid 4-dehydrogenase/0.442
4bftZVTPantothenate kinase2.7.1.330.442
4g95OAGDihydrofolate reductase1.5.1.30.442
4rsyB3NLeukotriene A-4 hydrolase3.3.2.60.442
1zgv501Prothrombin3.4.21.50.441
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.441
4hfp15UProthrombin3.4.21.50.441
4rn615UProthrombin3.4.21.50.441
4ycpFMNtRNA-dihydrouridine(16) synthase/0.441
1d3dBZTProthrombin3.4.21.50.440
1w7gMIUProthrombin3.4.21.50.440
2a59LMZ6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.440
2jh0701Prothrombin3.4.21.50.440
2qs4LY5Glutamate receptor ionotropic, kainate 1/0.440
2vqbNAPPutative flavin-containing monooxygenase/0.440
3cic316Beta-secretase 13.4.23.460.440
3egkM18Prothrombin3.4.21.50.440
3f3y4OABile salt sulfotransferase2.8.2.140.440
3ixj586Beta-secretase 13.4.23.460.440
3zhuTD8Multifunctional 2-oxoglutarate metabolism enzyme1.2.4.20.440
4b13X25Glycylpeptide N-tetradecanoyltransferase/0.440
4mrm2BYGamma-aminobutyric acid type B receptor subunit 1/0.440
4n3l2FNProthrombin3.4.21.50.440
4xmxBESAminopeptidase N3.4.11.20.440
5a88ADPRiboflavin biosynthesis protein RibF2.7.1.260.440