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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
2e07SAHDiphthine synthase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
2e07SAHDiphthine synthase/1.000
2huqSAHDiphthine synthase/0.814
2eh4SAHDiphthine synthase/0.812
2ejjSAHDiphthine synthase/0.810
1wngSAHDiphthine synthase/0.786
2owuSAHDiphthine synthase/0.779
2z6rSAHDiphthine synthase/0.769
2dshSAHDiphthine synthase/0.758
2e4nSAHDiphthine synthase/0.757
2huvSAHDiphthine synthase/0.754
2eeqSAHDiphthine synthase/0.750
2e17SAHDiphthine synthase/0.740
2p9dSAHDiphthine synthase/0.735
2ed3SAHDiphthine synthase/0.732
2pcaSAHDiphthine synthase/0.710
2el0SAHDiphthine synthase/0.702
2p6iSAHDiphthine synthase/0.702
2dv4SAHDiphthine synthase/0.691
2e15SAHDiphthine synthase/0.687
2el3SAHDiphthine synthase/0.685
2dv3SAHDiphthine synthase/0.683
2ek2SAHDiphthine synthase/0.683
2pb5SAHDiphthine synthase/0.680
2owgSAHDiphthine synthase/0.678
2dxxSAHDiphthine synthase/0.670
1vceSAHDiphthine synthase/0.665
2ed5SAHDiphthine synthase/0.663
2ek4SAHDiphthine synthase/0.660
2pb6SAHDiphthine synthase/0.654
2pckSAHDiphthine synthase/0.651
2e8hSAHDiphthine synthase/0.649
2eldSAHDiphthine synthase/0.647
2eniSAHDiphthine synthase/0.647
2ek3SAHDiphthine synthase/0.643
2dekSAHDiphthine synthase/0.641
2e8rSAHDiphthine synthase/0.641
2e08SAHDiphthine synthase/0.640
2dv7SAHDiphthine synthase/0.639
2dv5SAHDiphthine synthase/0.638
2p5cSAHDiphthine synthase/0.638
2p6lSAHDiphthine synthase/0.636
2dsgSAHDiphthine synthase/0.632
2egbSAHDiphthine synthase/0.632
2dsiSAHDiphthine synthase/0.626
2hr8SAHDiphthine synthase/0.625
2owvSAHDiphthine synthase/0.625
2hutSAHDiphthine synthase/0.620
2huxSAHDiphthine synthase/0.620
2owkSAHDiphthine synthase/0.616
2pciSAHDiphthine synthase/0.616
2dxwSAHDiphthine synthase/0.612
2pchSAHDiphthine synthase/0.612
2e7rSAHDiphthine synthase/0.606
2p2xSAHDiphthine synthase/0.604
2emrSAHDiphthine synthase/0.597
2e8qSAHDiphthine synthase/0.593
2p5fSAHDiphthine synthase/0.588
2eglSAHDiphthine synthase/0.584
2dxvSAHDiphthine synthase/0.581
2p6kSAHDiphthine synthase/0.581
2emuSAHDiphthine synthase/0.577
2egsSAHDiphthine synthase/0.576
2ehlSAHDiphthine synthase/0.576
2owfSAHDiphthine synthase/0.575
2ejkSAHDiphthine synthase/0.574
2e16SAHDiphthine synthase/0.573
2eh2SAHDiphthine synthase/0.573
2ejzSAHDiphthine synthase/0.573
2pb4SAHDiphthine synthase/0.566
2ek7SAHDiphthine synthase/0.564
2pcgSAHDiphthine synthase/0.563
2e8sSAHDiphthine synthase/0.560
2en5SAHDiphthine synthase/0.559
2ekaSAHDiphthine synthase/0.557
2pcmSAHDiphthine synthase/0.551
2eh5SAHDiphthine synthase/0.545
2eleSAHDiphthine synthase/0.526
1xe55FEPlasmepsin-23.4.23.390.510
2p6dSAHDiphthine synthase/0.505
3up5FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.490
4jnkZHKL-lactate dehydrogenase A chain1.1.1.270.485
1f8fNADBenzyl alcohol dehydrogenase/0.482
3dy8IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.482
3tfuPL8Adenosylmethionine-8-amino-7-oxononanoate aminotransferase2.6.1.620.481
2gjlFMNNitronate monooxygenase1.13.12.160.480
1xe65FPPlasmepsin-23.4.23.390.476
3ig6438Urokinase-type plasminogen activator3.4.21.730.476
2q5g1FAPeroxisome proliferator-activated receptor delta/0.475
2ztvNADD(-)-3-hydroxybutyrate dehydrogenase/0.473
1lbcCYZGlutamate receptor 2/0.472
4eb7PLPCysteine desulfurase IscS 2/0.472
1kkq471Peroxisome proliferator-activated receptor alpha/0.471
3uoyFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.471
4g3jVNTLanosterol 14-alpha-demethylase/0.471
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.470
2y3sTIRTamL/0.470
3lqfNADGalactitol dehydrogenase/0.470
3nutSAHPrecorrin-3 methylase/0.470
1pjcNADAlanine dehydrogenase/0.469
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.468
2ifaFMNUncharacterized protein/0.468
4dbzNDPPutative ketoacyl reductase1.3.10.468
4m83ERYOleandomycin glycosyltransferase2.4.10.467
4g7gVFVLanosterol 14-alpha-demethylase/0.466
4nbwNADShort-chain dehydrogenase/reductase SDR/0.465
3gw9VNILanosterol 14-alpha-demethylase/0.464
3uozFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.464
2wyvNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.463
2xhd7T9Glutamate receptor 2/0.463
5c77SAHProtein arginine N-methyltransferase SFM1/0.463
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.462
3c1y2BADNA integrity scanning protein DisA/0.461
4trnNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.461
1dirNADDihydropteridine reductase1.5.1.340.460
2qbuSAHPrecorrin-2 methyltransferase/0.460
3dyqIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.460
2qs3UBEGlutamate receptor ionotropic, kainate 1/0.459
3d91REMRenin3.4.23.150.459
3slkNDPPolyketide synthase extender module 2/0.459
4nd3NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.459
5dqrFAD7-hydroxymethyl chlorophyll a reductase, chloroplastic1.17.7.20.459
2q1sNAIPutative nucleotide sugar epimerase/ dehydratase/0.458
3iqhTYR_ASP_ILECysteine synthase2.5.1.470.458
3iqiASN_GLU_ASN_ILECysteine synthase2.5.1.470.457
3vdqNAD3-hydroxybutyrate dehydrogenase/0.457
1xvaSAMGlycine N-methyltransferase2.1.1.200.456
1zeoC01Peroxisome proliferator-activated receptor gamma/0.456
2ojtUBAGlutamate receptor ionotropic, kainate 1/0.456
3a3gDLZLumazine protein/0.456
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.456
3dylPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.456
3to6LYS_CMCHistone acetyltransferase ESA1/0.456
4a83DXCMajor pollen allergen Bet v 1-A/0.456
3dys5GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.455
4g2l0WLHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.455
1x1aSAMC-20 methyltransferase/0.454
1y7lASN_LEU_ASN_ILECysteine synthase2.5.1.470.454
2ebaFADPutative glutaryl-CoA dehydrogenase/0.454
2g1s4IGRenin3.4.23.150.454
2givACOHistone acetyltransferase KAT8/0.454
2yy2IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.454
2zvcSAHPrecorrin-3 C17-methyltransferase/0.454
3dm6757Beta-secretase 13.4.23.460.454
4ejmNAPPutative zinc-binding dehydrogenase/0.454
1g6kNADGlucose 1-dehydrogenase1.1.1.470.453
2x7hPFNProstaglandin reductase 310.453
3p62FMNPentaerythritol tetranitrate reductase/0.453
2hunNAD336aa long hypothetical dTDP-glucose 4,6-dehydratase/0.452
3dylIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.452
3lpkZ76Beta-secretase 13.4.23.460.452
3qwbNDPProbable quinone oxidoreductase1.6.5.50.452
3s5wFADL-ornithine N(5)-monooxygenase/0.452
4bc7FADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.452
5dp2NAPCurF/0.452
1o97FADElectron transfer flavoprotein subunit alpha/0.451
2clqSTUMitogen-activated protein kinase kinase kinase 52.7.11.250.451
2d1yNADOxidoreductase, short-chain dehydrogenase/reductase family/0.451
2gz7D3FOrf1a polyprotein/0.451
3a1cACPProbable copper-exporting P-type ATPase A3.6.3.540.451
3k5c0BIBeta-secretase 13.4.23.460.451
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.451
1ep1FMNDihydroorotate dehydrogenase B (NAD(+)), catalytic subunit1.3.1.140.450
1mj9COAHistone acetyltransferase ESA1/0.450
1t2cNAIL-lactate dehydrogenase1.1.1.270.450
1w6hTITPlasmepsin-23.4.23.390.450
3k3ePDBHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.450
3u4o08EGenome polyprotein2.7.7.480.450
4bfzZVZPantothenate kinase2.7.1.330.450
4ef8FMNDihydroorotate dehydrogenase (fumarate)/0.450
1f8wFADNADH peroxidase1.11.1.10.449
1v9aSAHUncharacterized protein/0.449
2he5NDPAldo-keto reductase family 1 member C211.1.10.449
3hl0NADMaleylacetate reductase/0.449
5f8eSAHPossible transcriptional regulatory protein/0.449
1nuuNADNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.448
1opmIYGPeptidyl-glycine alpha-amidating monooxygenase1.14.17.30.448
1xddAAYIntegrin alpha-L/0.448
2yyiFAD4-hydroxyphenylacetate 3-monooxygenase oxygenase component1.14.14.90.448
3c212BADNA integrity scanning protein DisA/0.448
3eheNADUDP-glucose 4-epimerase (GalE-1)/0.448
3lpiZ74Beta-secretase 13.4.23.460.448
3tyvHI3Genome polyprotein2.7.7.480.448
4q71FADBifunctional protein PutA/0.448
1x1cSAHC-20 methyltransferase/0.447
2cmjNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.447
2rcyNAPPyrroline-5-carboxylate reductase/0.447
3ijoB4DGlutamate receptor 2/0.447
4ipw1G7Mycocyclosin synthase1.14.21.90.447
4irnFADAnaB/0.447
1h66FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.446
2il2LIXRenin3.4.23.150.446
2uxoTACHTH-type transcriptional regulator TtgR/0.446
3cid318Beta-secretase 13.4.23.460.446
3mpiFADGlutaryl-CoA dehydrogenase1.3.99.320.446
1g63FMNEpidermin decarboxylase4.1.10.445
2oapANPType II secretion system protein (GspE-2)/0.445
2rbeNDPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.445
2vbdV10Isopenicillin N synthase1.21.3.10.445
3bnkFMNFlavoredoxin/0.445
3lzs017Gag-Pol polyprotein3.4.23.160.445
3te5NAI5'-AMP-activated protein kinase subunit gamma/0.445
3vg10GTBeta-secretase 13.4.23.460.445
4gsuDWZL,D-transpeptidase 22.3.20.445
4yqfGDPSeptin-9/0.445
1f20FADNitric oxide synthase, brain1.14.13.390.444
1g1aNADdTDP-glucose 4,6-dehydratase/0.444
1p9wANPType II secretion system protein E/0.444
1tqf32PBeta-secretase 13.4.23.460.444
2dftADPShikimate kinase2.7.1.710.444
2ft0ACOdTDP-fucosamine acetyltransferase/0.444
2q1tNADPutative nucleotide sugar epimerase/ dehydratase/0.444
2vkeTACTetracycline repressor protein class D/0.444
2w3bNDPDihydrofolate reductase1.5.1.30.444
3f3sNADLambda-crystallin homolog/0.444
3gqvNAPEnoyl reductase LovC10.444
3uzwNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.444
4qxr1YEStimulator of interferon genes protein/0.444
1bim0QBRenin3.4.23.150.443
1u8vFAD4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase/0.443
1udyFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.443
1x1bSAHC-20 methyltransferase/0.443
2bb3SAHCobalamin biosynthesis precorrin-6Y methylase (CbiE)/0.443
2hydADPPutative multidrug export ATP-binding/permease protein SAV18663.6.30.443
2vigFADShort-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.10.443
2zsaADPPantothenate kinase2.7.1.330.443
3br3ETHTH-type transcriptional regulator QacR/0.443
3em0CHDFatty acid-binding protein 6, ileal (gastrotropin)/0.443
3fhxPLPPyridoxal kinase2.7.1.350.443
3in6FMNUncharacterized protein/0.443
3m2vCOMMethyl-coenzyme M reductase I subunit alpha2.8.4.10.443
3oibFDAPutative acyl-CoA dehydrogenase/0.443
3vqsJT1Genome polyprotein/0.443
1b2lNDCAlcohol dehydrogenase1.1.1.10.442
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.442
2bjfDXCCholoylglycine hydrolase3.5.1.240.442
2c29NAPDihydroflavonol 4-reductase/0.442
2iko7IGRenin3.4.23.150.442
2r7b2533-phosphoinositide-dependent protein kinase 12.7.11.10.442
3h6vNS6Glutamate receptor 2/0.442
3il1B5DGlutamate receptor 2/0.442
3toh079Gag-Pol polyprotein2.7.7.490.442
3vn2TLSPeroxisome proliferator-activated receptor gamma/0.442
4i8zG08Gag-Pol polyprotein3.4.23.160.442
1h8hATPATP synthase subunit alpha, mitochondrial/0.441
1h8hATPATP synthase subunit beta, mitochondrial3.6.3.140.441
1tehNADAlcohol dehydrogenase class-31.1.1.10.441
1xkvATPPhosphoenolpyruvate carboxykinase (ATP)/0.441
2ag5NAD3-hydroxybutyrate dehydrogenase type 2/0.441
2g247IGRenin3.4.23.150.441
2yylFAD4-hydroxyphenylacetate 3-monooxygenase oxygenase component1.14.14.90.441
3m2uCOMMethyl-coenzyme M reductase I subunit alpha2.8.4.10.441
3r83Z14Cyclin-dependent kinase 22.7.11.220.441
3v0p4GWHisto-blood group ABO system transferase/0.441
4fn4NADShort chain dehydrogenase/0.441
4h3j10WBeta-secretase 13.4.23.460.441
1kp3ATPArgininosuccinate synthase6.3.4.50.440
1sdwIYTPeptidyl-glycine alpha-amidating monooxygenase1.14.17.30.440
1siqFADGlutaryl-CoA dehydrogenase, mitochondrial1.3.8.60.440
2ahrNAPPyrroline-5-carboxylate reductase/0.440
2ewmNAD(S)-1-Phenylethanol dehydrogenase1.1.1.3110.440
2gv8NDPThiol-specific monooxygenase1.14.130.440
3zksWZVBeta-secretase 23.4.23.450.440
4g74FADRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial1.6.5.90.440
4gxs0YSGlutamate receptor 2/0.440
4i6aHMG3-hydroxy-3-methylglutaryl-coenzyme A reductase1.1.1.880.440
4wriOKAOkadaic acid binding protein 2-alpha/0.440