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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
3keqNADRedox-sensing transcriptional repressor Rex

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
3keqNADRedox-sensing transcriptional repressor Rex/1.000
2d1yNADOxidoreductase, short-chain dehydrogenase/reductase family/0.506
5fd8A5APutative carboxypeptidase yocD/0.501
2nnqT4BFatty acid-binding protein, adipocyte/0.497
4uymVOR14-alpha sterol demethylase Cyp51B/0.493
3sl2ATPSensor histidine kinase WalK/0.491
3iktNADRedox-sensing transcriptional repressor Rex/0.490
3qe2FMNNADPH--cytochrome P450 reductase/0.488
2ab8MTPAdenosine kinase2.7.1.200.487
3jsxCC2NAD(P)H dehydrogenase [quinone] 11.6.5.20.485
3fr28CAFatty acid-binding protein, adipocyte/0.483
3fr4F8AFatty acid-binding protein, adipocyte/0.482
4fgcPQ0NADPH-dependent 7-cyano-7-deazaguanine reductase1.7.1.130.482
3p67FMNPentaerythritol tetranitrate reductase/0.481
2geuCOKPantothenate kinase2.7.1.330.480
1qiqACCIsopenicillin N synthase1.21.3.10.479
2iko7IGRenin3.4.23.150.479
2vbdV10Isopenicillin N synthase1.21.3.10.479
2y882ERPhosphoribosyl isomerase A5.3.1.160.478
1gky5GPGuanylate kinase2.7.4.80.477
1jtvTESEstradiol 17-beta-dehydrogenase 11.1.1.620.477
1xddAAYIntegrin alpha-L/0.477
2iviACWIsopenicillin N synthase1.21.3.10.477
3vqsJT1Genome polyprotein/0.477
4bfvZVVPantothenate kinase2.7.1.330.477
3s1dZIRCytokinin dehydrogenase 11.5.99.120.476
1fmjRTLRetinol dehydratase/0.475
1sd2MTHS-methyl-5'-thioadenosine phosphorylase/0.475
2wo7ASVIsopenicillin N synthase1.21.3.10.475
3gncQQQGlutaryl-CoA dehydrogenase/0.475
3hl0NADMaleylacetate reductase/0.475
1fmlRTLRetinol dehydratase/0.472
3ziaADPATP synthase subunit beta, mitochondrial3.6.3.140.472
4hbm0Y7E3 ubiquitin-protein ligase Mdm26.3.20.472
4rh10TTSpore photoproduct lyase/0.472
1h50FMNPentaerythritol tetranitrate reductase/0.471
1xe65FPPlasmepsin-23.4.23.390.471
4j531J4Serine/threonine-protein kinase PLK12.7.11.210.471
3zoiM2WIsopenicillin N synthase1.21.3.10.470
4bfwZVWPantothenate kinase2.7.1.330.470
3sn6P0GBeta-2 adrenergic receptor/0.470
1h51FMNPentaerythritol tetranitrate reductase/0.469
2a9z26AAdenosine kinase2.7.1.200.469
2ed3SAHDiphthine synthase/0.469
4fhd0TTSpore photoproduct lyase/0.469
5js6NAD17-beta-hydroxysteroid dehydrogenase 141.1.10.469
1bk0ACVIsopenicillin N synthase1.21.3.10.468
1cqp803Integrin alpha-L/0.468
1if7SBRCarbonic anhydrase 24.2.1.10.468
2fb8215Serine/threonine-protein kinase B-raf2.7.11.10.468
3fr5I4AFatty acid-binding protein, adipocyte/0.467
5irnADPNucleotide binding oligomerization domain containing 2/0.467
1dr4HBIDihydrofolate reductase1.5.1.30.466
1oj4CDM4-diphosphocytidyl-2-C-methyl-D-erythritol kinase2.7.1.1480.466
3dylIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.466
4bfzZVZPantothenate kinase2.7.1.330.466
1gg5E09NAD(P)H dehydrogenase [quinone] 11.6.5.20.465
1hb3SCVIsopenicillin N synthase1.21.3.10.465
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.465
3zkyWT4Isopenicillin N synthase1.21.3.10.465
4dc0NDPPutative ketoacyl reductase1.3.10.465
3pm1ETHTH-type transcriptional regulator QacR/0.464
4iarERM5-hydroxytryptamine receptor 1B/0.464
4v0s2HN3-dehydroquinate dehydratase4.2.1.100.464
1jd0AZMCarbonic anhydrase 124.2.1.10.463
2jb4A14Isopenicillin N synthase1.21.3.10.463
2q9fC3SCholesterol 24-hydroxylase/0.463
2rhrEMOPutative ketoacyl reductase1.3.10.463
2xiq5ADMethylmalonyl-CoA mutase, mitochondrial/0.463
4bb3KKAIsopenicillin N synthase1.21.3.10.463
4bfyZVYPantothenate kinase2.7.1.330.463
4q0kGA3Phytohormone-binding protein/0.463
1hb1OCVIsopenicillin N synthase1.21.3.10.462
3gw9VNILanosterol 14-alpha-demethylase/0.462
3gwfNAPCyclohexanone monooxygenase/0.462
3slkNDPPolyketide synthase extender module 2/0.462
4enhFVXCholesterol 24-hydroxylase/0.462
1omoNADAlanine dehydrogenase/0.461
2jizANPATP synthase subunit beta, mitochondrial3.6.3.140.461
2y05RALProstaglandin reductase 1/0.461
4rlh0WEEnoyl-[acyl-carrier-protein] reductase [NADH]/0.461
2hunNAD336aa long hypothetical dTDP-glucose 4,6-dehydratase/0.460
2x9dITCTetracycline repressor protein class D/0.460
3uicNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.460
4tx9AMZPhosphoribosyl isomerase A/0.460
5hs1VORLanosterol 14-alpha demethylase/0.460
2ft9CHDFatty acid-binding protein 2, liver/0.459
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.459
3em0CHDFatty acid-binding protein 6, ileal (gastrotropin)/0.459
3h3t16HCollagen type IV alpha-3-binding protein/0.459
3h4vDVPPteridine reductase 11.5.1.330.459
4ixd1HVIntegrin alpha-L/0.459
5dn1AMZPhosphoribosyl isomerase A5.3.1.160.459
1g1aNADdTDP-glucose 4,6-dehydratase/0.458
2y60M8FIsopenicillin N synthase1.21.3.10.458
3hk1B64Fatty acid-binding protein, adipocyte/0.458
3uzwNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.458
4yaoFMNNADPH--cytochrome P450 reductase/0.458
2bf4FMNNADPH--cytochrome P450 reductase/0.457
3ch6311Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.457
3otbDGTProbable tRNA(His) guanylyltransferase2.7.7.790.457
4bftZVTPantothenate kinase2.7.1.330.457
4oe4NADDelta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial1.2.1.880.457
1bwsNDPGDP-L-fucose synthase/0.456
1h69ARHNAD(P)H dehydrogenase [quinone] 11.6.5.20.456
2fr0NDP6-deoxyerythronolide-B synthase EryA1, modules 1 and 2/0.456
2g1n1IGRenin3.4.23.150.456
2xw7NDPDihydrofolate reductase/0.456
4iaq2GM5-hydroxytryptamine receptor 1B/0.456
1qjfACSIsopenicillin N synthase1.21.3.10.455
1vyrFMNPentaerythritol tetranitrate reductase/0.455
1xuoLA1Integrin alpha-L/0.455
2gvdFKPAdenylate cyclase type 2/0.455
2gvdFKPAdenylate cyclase type 5/0.455
3bgxMEFThymidylate synthase/0.455
3oqkS52Renin3.4.23.150.455
4jnkNAIL-lactate dehydrogenase A chain1.1.1.270.455
1oc1ASVIsopenicillin N synthase1.21.3.10.454
1rzuADPGlycogen synthase 12.4.1.210.454
3f1kNAPUncharacterized oxidoreductase YciK10.454
4bfuZVUPantothenate kinase2.7.1.330.454
4bfxZVXPantothenate kinase2.7.1.330.454
4brgGNPEctonucleoside triphosphate diphosphohydrolase I/0.454
1eioGCHGastrotropin/0.453
1pkfEPDEpothilone C/D epoxidase1.140.453
1ry8RUTAldo-keto reductase family 1 member C3/0.453
1towCRZFatty acid-binding protein, adipocyte/0.453
1u1d181Uridine phosphorylase2.4.2.30.453
2a0xDIHPurine nucleoside phosphorylase2.4.2.10.453
2a94AP0L-lactate dehydrogenase1.1.1.270.453
2a9y26AAdenosine kinase2.7.1.200.453
2cvzNDP3-hydroxyisobutyrate dehydrogenase/0.453
2qw034Z4-chlorobenzoyl CoA ligase/0.453
2zruFMNIsopentenyl-diphosphate delta-isomerase/0.453
3p8iFMNPentaerythritol tetranitrate reductase/0.453
4usqFADPyridine nucleotide-disulfide oxidoreductase/0.453
1gtrATPGlutamine--tRNA ligase6.1.1.180.452
1pd9CO4Dihydrofolate reductase1.5.1.30.452
2nr4FMNConserved protein/0.452
3dyqIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.452
3otwCOAPhosphopantetheine adenylyltransferase/0.452
3rueNADUDP-N-acetylglucosamine 4-epimerase/0.452
3sqwANPATP-dependent RNA helicase MSS116, mitochondrial3.6.4.130.452
4b144XBGlycylpeptide N-tetradecanoyltransferase/0.452
4q73FADBifunctional protein PutA/0.452
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.451
1kbo340NAD(P)H dehydrogenase [quinone] 11.6.5.20.451
1nm6L86Prothrombin3.4.21.50.451
1rr6IMHPurine nucleoside phosphorylase2.4.2.10.451
2g226IGRenin3.4.23.150.451
2hk9NAPShikimate dehydrogenase (NADP(+))/0.451
2v2zCDM4-diphosphocytidyl-2-C-methyl-D-erythritol kinase/0.451
3p62FMNPentaerythritol tetranitrate reductase/0.451
4brdANPEctonucleoside triphosphate diphosphohydrolase I/0.451
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.451
4eufNADTrans-2-enoyl-CoA reductase [NADH]/0.451
4fhf0TTSpore photoproduct lyase/0.451
4i1nFOLDihydrofolate reductase1.5.1.30.451
1h66FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.450
1toiHCIAspartate aminotransferase2.6.1.10.450
1vi2NADQuinate/shikimate dehydrogenase/0.450
1x1aSAMC-20 methyltransferase/0.450
2a5kAZPReplicase polyprotein 1ab3.4.220.450
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.450
2j3jHC4NADPH-dependent oxidoreductase 2-alkenal reductase1.3.1.740.450
2o1sTDP1-deoxy-D-xylulose-5-phosphate synthase2.2.1.70.450
3g70A5TRenin3.4.23.150.450
4fapARDPeptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.450
4fapARDSerine/threonine-protein kinase mTOR2.7.11.10.450
4q71FADBifunctional protein PutA/0.450
1a9cGTPGTP cyclohydrolase 13.5.4.160.449
1ja1FMNNADPH--cytochrome P450 reductase/0.449
1mrqSTRAldo-keto reductase family 1 member C1/0.449
2acwUPGGlycosyltransferase/0.449
2ejzSAHDiphthine synthase/0.449
2gevCOKPantothenate kinase2.7.1.330.449
2hydADPPutative multidrug export ATP-binding/permease protein SAV18663.6.30.449
2o7oDXTTetracycline repressor protein class D/0.449
2yj4ATPCopper-transporting ATPase/0.449
3hdhNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.449
3qeoLLTDeoxycytidine kinase2.7.1.740.449
3uoyFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.449
4b4vL34Bifunctional protein FolD/0.449
4bgePYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.449
4ips1G4Mycocyclosin synthase1.14.21.90.449
1ay0TPPTransketolase 12.2.1.10.448
1u1f183Uridine phosphorylase2.4.2.30.448
2emuSAHDiphthine synthase/0.448
2nnlNAPDihydroflavonol 4-reductase1.1.1.2190.448
2vwqNAPGlucose 1-dehydrogenase/0.448
3eon341Glutaryl-CoA dehydrogenase/0.448
4ap1NAPSteroid monooxygenase/0.448
4bb6HD1Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.448
4e2yJHZMethyltransferase/0.448
4ey6GNTAcetylcholinesterase3.1.1.70.448
1fxsNAPGDP-L-fucose synthase/0.447
1mczRMNBenzoylformate decarboxylase4.1.1.70.447
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.447
1r2jFADFkbI/0.447
1u1gBBBUridine phosphorylase2.4.2.30.447
1u2gAPRNAD(P) transhydrogenase subunit alpha part 11.6.1.20.447
1w19T1P6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.447
1zdwFLVPrenyltransferase/0.447
2g5cNADPrephenate dehydrogenase/0.447
2i4qUA4Renin3.4.23.150.447
2iyfERYOleandomycin glycosyltransferase2.4.10.447
3c14FOKAdenylate cyclase type 2/0.447
3c14FOKAdenylate cyclase type 5/0.447
3h3qH13Collagen type IV alpha-3-binding protein/0.447
3jyoNADQuinate/shikimate dehydrogenase (NAD(+))/0.447
3zeiAWHO-acetylserine sulfhydrylase/0.447
4m83ERYOleandomycin glycosyltransferase2.4.10.447
1fm4DXCMajor pollen allergen Bet v 1-L/0.446
1i5rHYCEstradiol 17-beta-dehydrogenase 11.1.1.620.446
1obnASVIsopenicillin N synthase1.21.3.10.446
2fonFADAcyl-coenzyme A oxidase/0.446
2getCOKPantothenate kinase2.7.1.330.446
2hkoFADLysine-specific histone demethylase 1A10.446
2ignFADPyranose 2-oxidase/0.446
2qbmCAMCamphor 5-monooxygenase1.14.15.10.446
2qc8ADPGlutamine synthetase6.3.1.20.446
2rqfJH3Hemolymph juvenile hormone binding protein/0.446
2uagUMAUDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.446
2y6fM9FIsopenicillin N synthase1.21.3.10.446
3d5qT30Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.446
3nbvANPKetohexokinase/0.446
3ogwIMNLactoperoxidase1.11.1.70.446
3w6hAZMCarbonic anhydrase 14.2.1.10.446
4biwANPSensor histidine kinase CpxA/0.446
4req5ADMethylmalonyl-CoA mutase large subunit5.4.99.20.446
4u7wNDPMxaA/0.446
4wh2ADPN-acetylhexosamine 1-kinase2.7.1.1620.446
4x7wMVIMycinamicin III 3''-O-methyltransferase2.1.1.2370.446
1bxkNADdTDP-glucose 4,6-dehydratase 2/0.445
1f20FADNitric oxide synthase, brain1.14.13.390.445
1txtCAAHMG-CoA synthase/0.445
1vbiNADMalate/L-lactate dehydrogenase family protein/0.445
1x8lOXRRetinol dehydratase/0.445
1xe55FEPlasmepsin-23.4.23.390.445
2b37NADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.445
2in6839Wee1-like protein kinase2.7.10.20.445
2obxINI6,7-dimethyl-8-ribityllumazine synthase 22.5.1.780.445
2ptfFMNUncharacterized protein MTH_863/0.445
2w0bCMWLanosterol 14-alpha demethylase1.14.13.700.445
2xfyACXBeta-amylase3.2.1.20.445
3eheNADUDP-glucose 4-epimerase (GalE-1)/0.445
3i587NA2,7-dihydroxy-5-methyl-1-naphthoate 7-O-methyltransferase/0.445
3ohh3HHBeta-secretase 13.4.23.460.445
4eqrCOACoenzyme A disulfide reductase/0.445
4lk3NADUDP-glucuronic acid decarboxylase 14.1.1.350.445
4o701QKBromodomain-containing protein 4/0.445
4p9dTMPDeoxycytidylate deaminase/0.445
4ryvZEAProtein LlR18A/0.445
5kjcNAJAlcohol dehydrogenase E chain1.1.1.10.445
1aypINBPhospholipase A2, membrane associated/0.444
1cdoNADAlcohol dehydrogenase 11.1.1.10.444
1ja0FMNNADPH--cytochrome P450 reductase/0.444
1qyxASDEstradiol 17-beta-dehydrogenase 11.1.1.620.444
1t3zCAOFormyl-CoA:oxalate CoA-transferase/0.444
2ddoATPPyridoxine/pyridoxal/pyridoxamine kinase/0.444
2vkeTACTetracycline repressor protein class D/0.444
3aezGDPPantothenate kinase2.7.1.330.444
3br3ETHTH-type transcriptional regulator QacR/0.444
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.444
3gkaFMNN-ethylmaleimide reductase/0.444
3ndrNADPyridoxal 4-dehydrogenase1.1.1.1070.444
3nmpPYVAbscisic acid receptor PYL2/0.444
3qj0QI3Botulinum neurotoxin type A3.4.24.690.444
3rsv3RSBeta-secretase 13.4.23.460.444
4ktl1CQCytochrome P450/0.444
4v2gITCTetracycline repressor protein class D/0.444
4ycoFMNtRNA-dihydrouridine(16) synthase/0.444
5fkmTDCTetracycline repressor protein class D/0.444
1bsvNDPGDP-L-fucose synthase/0.443
1e79ATPATP synthase subunit alpha, mitochondrial/0.443
1e79ATPATP synthase subunit beta, mitochondrial3.6.3.140.443
1ex75GPGuanylate kinase2.7.4.80.443
2a0wDIHPurine nucleoside phosphorylase2.4.2.10.443
3fhxPXLPyridoxal kinase2.7.1.350.443
3lpgZ78Beta-glucuronidase3.2.1.310.443
3qt62P0Mevalonate diphosphate decarboxylase/0.443
3ruaNADUDP-N-acetylglucosamine 4-epimerase/0.443
4a83DXCMajor pollen allergen Bet v 1-A/0.443
4fxy0W2Neurolysin, mitochondrial3.4.24.160.443
4xo7ASDAldo-keto reductase family 1 member C2/0.443
1bim0QBRenin3.4.23.150.442
1bvrNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.442
1i5eU5PUracil phosphoribosyltransferase/0.442
1mkdZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.442
1phgMYTCamphor 5-monooxygenase1.14.15.10.442
1wp4NDP3-hydroxyisobutyrate dehydrogenase/0.442
1xpqFADPolyamine oxidase FMS1/0.442
2bn4FMNNADPH--cytochrome P450 reductase/0.442
2eklNADD-3-phosphoglycerate dehydrogenase/0.442
2po7CHDFerrochelatase, mitochondrial4.99.1.10.442
2rcyNAPPyrroline-5-carboxylate reductase/0.442
3c35KAIGlutamate receptor ionotropic, kainate 1/0.442
3dlp1744-chlorobenzoyl CoA ligase/0.442
3g6zA7TRenin3.4.23.150.442
3ozd4CTS-methyl-5'-thioadenosine phosphorylase/0.442
3pqbVGPPutative oxidoreductase/0.442
4b8zNAPGDP-L-fucose synthase1.1.1.2710.442
4cvmANPUDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase/0.442
4djaFAD(6-4) photolyase/0.442
4psbGA3Cytokinin-specific binding protein/0.442
4uwmFMN3,6-diketocamphane 1,6 monooxygenase1.14.130.442
1g6kNADGlucose 1-dehydrogenase1.1.1.470.441
1t7o152Carnitine O-acetyltransferase2.3.1.70.441
2gnaGDUUDP-N-acetylglucosamine 4,6-dehydratase (inverting)4.2.1.1150.441
2rirNAPDipicolinate synthase subunit A/0.441
3bi6396Wee1-like protein kinase2.7.10.20.441
3ml2SU0Carbonic anhydrase 24.2.1.10.441
4dbzNDPPutative ketoacyl reductase1.3.10.441
4e2bFMNDehydrogenase/0.441
4eqsCOACoenzyme A disulfide reductase/0.441
4ktkKTKCytochrome P450/0.441
4r21STRCytochrome P450 family 17 polypeptide 2/0.441
4xr9NADCalS8/0.441
1a9p9DIPurine nucleoside phosphorylase2.4.2.10.440
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.440
1xl8152Peroxisomal carnitine O-octanoyltransferase2.3.1.1370.440
2fj1CTCTetracycline repressor protein class D/0.440
2ftoCB3Thymidylate synthase/0.440
2ztsADPUncharacterized protein/0.440
3bi5FADPolyamine oxidase FMS1/0.440
3f63GTXGlutathione transferase GST1-4/0.440
3ig6438Urokinase-type plasminogen activator3.4.21.730.440
3q9bB3NAcetylpolyamine amidohydrolase/0.440
3zs7ATPPyridoxine/pyridoxal/pyridoxamine kinase/0.440
4kp61S1cAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.440
4lhtCNL1,8-cineole 2-endo-monooxygenase1.14.13.1560.440