Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
2e15SAHDiphthine synthase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
2e15SAHDiphthine synthase/1.000
2e17SAHDiphthine synthase/0.808
2dv5SAHDiphthine synthase/0.777
2ek3SAHDiphthine synthase/0.777
2owuSAHDiphthine synthase/0.772
2hutSAHDiphthine synthase/0.764
2dsiSAHDiphthine synthase/0.761
2owkSAHDiphthine synthase/0.749
2p6iSAHDiphthine synthase/0.730
2z6rSAHDiphthine synthase/0.728
2owgSAHDiphthine synthase/0.723
2eeqSAHDiphthine synthase/0.722
2huqSAHDiphthine synthase/0.722
2e8rSAHDiphthine synthase/0.717
2p5cSAHDiphthine synthase/0.712
2ek2SAHDiphthine synthase/0.709
2p9dSAHDiphthine synthase/0.697
2dekSAHDiphthine synthase/0.695
2e07SAHDiphthine synthase/0.692
2emuSAHDiphthine synthase/0.692
2pckSAHDiphthine synthase/0.691
2dshSAHDiphthine synthase/0.690
2pb5SAHDiphthine synthase/0.687
2huvSAHDiphthine synthase/0.686
2eh2SAHDiphthine synthase/0.680
2p5fSAHDiphthine synthase/0.677
2e4nSAHDiphthine synthase/0.672
2dsgSAHDiphthine synthase/0.670
2el3SAHDiphthine synthase/0.670
2dxxSAHDiphthine synthase/0.669
2dv7SAHDiphthine synthase/0.667
2emrSAHDiphthine synthase/0.667
2eh5SAHDiphthine synthase/0.660
2ehlSAHDiphthine synthase/0.659
2eniSAHDiphthine synthase/0.657
2p6lSAHDiphthine synthase/0.657
2eh4SAHDiphthine synthase/0.656
2eldSAHDiphthine synthase/0.655
2ed5SAHDiphthine synthase/0.654
1vceSAHDiphthine synthase/0.652
2e08SAHDiphthine synthase/0.652
2e7rSAHDiphthine synthase/0.651
2e8hSAHDiphthine synthase/0.649
2egbSAHDiphthine synthase/0.641
2hr8SAHDiphthine synthase/0.639
2pcaSAHDiphthine synthase/0.639
2dv4SAHDiphthine synthase/0.638
2pb6SAHDiphthine synthase/0.634
1wngSAHDiphthine synthase/0.633
2p2xSAHDiphthine synthase/0.628
2p6dSAHDiphthine synthase/0.628
2eleSAHDiphthine synthase/0.626
2p6kSAHDiphthine synthase/0.625
2ejjSAHDiphthine synthase/0.619
2el0SAHDiphthine synthase/0.618
2ejkSAHDiphthine synthase/0.617
2owvSAHDiphthine synthase/0.616
2pciSAHDiphthine synthase/0.610
2pcgSAHDiphthine synthase/0.601
2ed3SAHDiphthine synthase/0.600
2egsSAHDiphthine synthase/0.600
2dv3SAHDiphthine synthase/0.592
2dxvSAHDiphthine synthase/0.592
2e16SAHDiphthine synthase/0.583
2pcmSAHDiphthine synthase/0.581
2ekaSAHDiphthine synthase/0.578
2ejzSAHDiphthine synthase/0.575
2pchSAHDiphthine synthase/0.575
2ek4SAHDiphthine synthase/0.572
2owfSAHDiphthine synthase/0.572
2huxSAHDiphthine synthase/0.564
2dxwSAHDiphthine synthase/0.560
2e8sSAHDiphthine synthase/0.550
2pb4SAHDiphthine synthase/0.548
2eglSAHDiphthine synthase/0.533
2e8qSAHDiphthine synthase/0.519
2ek7SAHDiphthine synthase/0.518
1xe55FEPlasmepsin-23.4.23.390.511
2gjlFMNNitronate monooxygenase1.13.12.160.507
2ifaFMNUncharacterized protein/0.495
2en5SAHDiphthine synthase/0.489
2rbeNDPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.488
3hl0NADMaleylacetate reductase/0.488
1x1cSAHC-20 methyltransferase/0.483
3dy8IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.482
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.478
2xhd7T9Glutamate receptor 2/0.478
3dylPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.477
3vqsJT1Genome polyprotein/0.477
1me6IVSPlasmepsin-23.4.23.390.476
1xddAAYIntegrin alpha-L/0.474
2hydADPPutative multidrug export ATP-binding/permease protein SAV18663.6.30.474
2ou2ACOHistone acetyltransferase KAT5/0.474
5dp2NAPCurF/0.474
3gw9VNILanosterol 14-alpha-demethylase/0.473
4pl0ANPMicrocin-J25 export ATP-binding/permease protein McjD/0.473
3te5NAI5'-AMP-activated protein kinase subunit gamma/0.472
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.472
4xguADPPutative pachytene checkpoint protein 2/0.472
1dirNADDihydropteridine reductase1.5.1.340.471
2hunNAD336aa long hypothetical dTDP-glucose 4,6-dehydratase/0.471
2iviACWIsopenicillin N synthase1.21.3.10.471
2ojtUBAGlutamate receptor ionotropic, kainate 1/0.471
4eb7PLPCysteine desulfurase IscS 2/0.470
1h69FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.469
3uozFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.469
1rneC60Renin3.4.23.150.468
2iko7IGRenin3.4.23.150.468
3ig6438Urokinase-type plasminogen activator3.4.21.730.468
3lqfNADGalactitol dehydrogenase/0.468
5c77SAHProtein arginine N-methyltransferase SFM1/0.468
1x1aSAMC-20 methyltransferase/0.467
3u33FADPutative acyl-CoA dehydrogenase AidB1.3.990.467
4g7gVFVLanosterol 14-alpha-demethylase/0.467
2ph6712Beta-secretase 13.4.23.460.466
2cgv3B3Serine/threonine-protein kinase Chk12.7.11.10.465
2wyvNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.465
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.465
4bfzZVZPantothenate kinase2.7.1.330.465
4ipw1G7Mycocyclosin synthase1.14.21.90.465
2qzlIXSBeta-secretase 13.4.23.460.464
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.464
3raiX85Cyclin-dependent kinase 22.7.11.220.464
1f8fNADBenzyl alcohol dehydrogenase/0.463
2a94AP0L-lactate dehydrogenase1.1.1.270.463
2pswCOAN-alpha-acetyltransferase 50/0.463
1x1bSAHC-20 methyltransferase/0.462
3gqvNAPEnoyl reductase LovC10.462
4f5yC2EStimulator of interferon genes protein/0.462
2ikuLIYRenin3.4.23.150.461
3d4pNADL-lactate dehydrogenase 11.1.1.270.461
1g1aNADdTDP-glucose 4,6-dehydratase/0.460
4h3f10OBeta-secretase 13.4.23.460.460
4m83ERYOleandomycin glycosyltransferase2.4.10.460
3a3gDLZLumazine protein/0.459
3dyqIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.459
3nutSAHPrecorrin-3 methylase/0.459
3orfNADDihydropteridine reductase1.5.1.340.459
1lbcCYZGlutamate receptor 2/0.458
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.458
3dylIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.458
3uylTYDProbable NDP-rhamnosyltransferase/0.458
4i6aHMG3-hydroxy-3-methylglutaryl-coenzyme A reductase1.1.1.880.458
1o0sNAINAD-dependent malic enzyme, mitochondrial1.1.1.380.457
2ahrNAPPyrroline-5-carboxylate reductase/0.457
2givACOHistone acetyltransferase KAT8/0.457
2rcyNAPPyrroline-5-carboxylate reductase/0.457
4ejmNAPPutative zinc-binding dehydrogenase/0.457
1w6hTITPlasmepsin-23.4.23.390.456
1xl5190Gag-Pol polyprotein3.4.23.160.456
2g1s4IGRenin3.4.23.150.456
2npiATPmRNA cleavage and polyadenylation factor CLP1/0.456
2wedPP6Penicillopepsin-13.4.23.200.456
3f3sNADLambda-crystallin homolog/0.456
4zirANPEnergy-coupling factor transporter ATP-binding protein EcfA23.6.30.456
4zirANPEnergy-coupling factor transporter ATP-binding protein EcfA1/0.456
1pd9CO4Dihydrofolate reductase1.5.1.30.455
2qs3UBEGlutamate receptor ionotropic, kainate 1/0.455
2yy2IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.455
2zjmF1MBeta-secretase 13.4.23.460.455
3i25MV7Beta-secretase 13.4.23.460.455
3ixj586Beta-secretase 13.4.23.460.455
3jswJARHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.455
3slkNDPPolyketide synthase extender module 2/0.455
3up5FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.455
4bc7FADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.455
5irnADPNucleotide binding oligomerization domain containing 2/0.455
1bil0IURenin3.4.23.150.454
1u8vFAD4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase/0.454
1xe65FPPlasmepsin-23.4.23.390.454
2ztvNADD(-)-3-hydroxybutyrate dehydrogenase/0.454
3h06VBPGlutamate receptor 2/0.454
3zh8C58Protein kinase C iota type2.7.11.130.454
4trnNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.454
2rhgIGPTryptophan synthase alpha chain/0.453
3d91REMRenin3.4.23.150.453
4nbtNAD3-oxoacyl-[acyl-carrier-protein] reductase/0.453
5dqrFAD7-hydroxymethyl chlorophyll a reductase, chloroplastic1.17.7.20.453
1i7pFADNADH-cytochrome b5 reductase 31.6.2.20.452
2b8l5HABeta-secretase 13.4.23.460.452
2clqSTUMitogen-activated protein kinase kinase kinase 52.7.11.250.452
3to6LYS_CMCHistone acetyltransferase ESA1/0.452
3zkyWT4Isopenicillin N synthase1.21.3.10.452
4gid0GHBeta-secretase 13.4.23.460.452
4gl4NAIAlcohol dehydrogenase class-3/0.452
4h3j10WBeta-secretase 13.4.23.460.452
1dhrNADDihydropteridine reductase1.5.1.340.451
2ebaFADPutative glutaryl-CoA dehydrogenase/0.451
2g1r3IGRenin3.4.23.150.451
2ktdPUCProstaglandin-H2 D-isomerase5.3.99.20.451
2q1sNAIPutative nucleotide sugar epimerase/ dehydratase/0.451
3phiNDPShikimate dehydrogenase (NADP(+))/0.451
4eagATP5'-AMP-activated protein kinase subunit gamma-1/0.451
5f8eSAHPossible transcriptional regulatory protein/0.451
1cydNDPCarbonyl reductase [NADPH] 21.1.1.1840.450
1dxqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.450
1gzuNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 12.7.7.10.450
1mjaCOAHistone acetyltransferase ESA1/0.450
1t2cNAIL-lactate dehydrogenase1.1.1.270.450
1udbUFGUDP-glucose 4-epimerase5.1.3.20.450
2v7qATPATP synthase subunit alpha, mitochondrial/0.450
2v7qATPATP synthase subunit beta, mitochondrial3.6.3.140.450
4g3jVNTLanosterol 14-alpha-demethylase/0.450
4hbgNDP3-oxoacyl-[acyl-carrier-protein] reductase1.1.1.1000.450
1e5qNDPSaccharopine dehydrogenase [NADP(+), L-glutamate-forming]1.5.1.100.449
1ee9NADMethylenetetrahydrofolate dehydrogenase [NAD(+)]1.5.1.150.449
1fy7COAHistone acetyltransferase ESA1/0.449
1v9aSAHUncharacterized protein/0.449
1vikBAYGag-Pol polyprotein/0.449
2c27ACOMycothiol acetyltransferase2.3.1.1890.449
2hk9NAPShikimate dehydrogenase (NADP(+))/0.449
2p3b3TLV-1 PROTEASE protein/0.449
2p3b3TLV-1 protease/0.449
2vkeTACTetracycline repressor protein class D/0.449
2x9dITCTetracycline repressor protein class D/0.449
2y60M8FIsopenicillin N synthase1.21.3.10.449
3uoyFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.449
4bb3KKAIsopenicillin N synthase1.21.3.10.449
4g74FADRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial1.6.5.90.449
4gyzD5MTyrosyl-DNA phosphodiesterase 23.1.40.449
4ig01FGGag-Pol polyprotein2.7.7.490.449
4irnFADAnaB/0.449
5b1yNDP3-oxoacyl-[acyl-carrier-protein] reductase/0.449
1f8wFADNADH peroxidase1.11.1.10.448
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.448
1ptjNAPNAD(P) transhydrogenase subunit beta1.6.1.20.448
1x1dSAHC-20 methyltransferase/0.448
2oapANPType II secretion system protein (GspE-2)/0.448
3d3wNAPL-xylulose reductase1.1.1.100.448
3gwfNAPCyclohexanone monooxygenase/0.448
3n3zIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.448
3tfuPL8Adenosylmethionine-8-amino-7-oxononanoate aminotransferase2.6.1.620.448
4ambDUDPutative glycosyl transferase/0.448
4i1iNADMalate dehydrogenase/0.448
1kkq471Peroxisome proliferator-activated receptor alpha/0.447
1mp0NADAlcohol dehydrogenase class-31.1.1.10.447
1msmJE2Gag-Pol polyprotein3.4.23.160.447
1ndhFADNADH-cytochrome b5 reductase 31.6.2.20.447
1rx0FADIsobutyryl-CoA dehydrogenase, mitochondrial1.3.990.447
1udaUFGUDP-glucose 4-epimerase5.1.3.20.447
2ft0ACOdTDP-fucosamine acetyltransferase/0.447
2wf4ZY4Beta-secretase 13.4.23.460.447
2ztmNADD(-)-3-hydroxybutyrate dehydrogenase/0.447
3kjiADPCO dehydrogenase/acetyl-CoA synthase complex, accessory protein CooC/0.447
3kjsNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.447
4jnkZHKL-lactate dehydrogenase A chain1.1.1.270.447
5af7FADAcyl-CoA dehydrogenase/0.447
1bxoPP7Penicillopepsin-13.4.23.200.446
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.446
1hdrNADDihydropteridine reductase1.5.1.340.446
1kboFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.446
1o97FADElectron transfer flavoprotein subunit alpha/0.446
1orrNADCDP-paratose 2-epimerase/0.446
2g247IGRenin3.4.23.150.446
2q5g1FAPeroxisome proliferator-activated receptor delta/0.446
2z54AB1Gag-Pol polyprotein3.4.23.160.446
2zvcSAHPrecorrin-3 C17-methyltransferase/0.446
3docNADGlyceraldehyde-3-phosphate dehydrogenase/0.446
3ik6HCZGlutamate receptor 2/0.446
3qlsNDPDihydrofolate reductase1.5.1.30.446
4dptAGSMevalonate diphosphate decarboxylase/0.446
4nbwNADShort-chain dehydrogenase/reductase SDR/0.446
4q71FADBifunctional protein PutA/0.446
4z61ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.446
1ep3FMNDihydroorotate dehydrogenase B (NAD(+)), catalytic subunit1.3.1.140.445
1fm4DXCMajor pollen allergen Bet v 1-L/0.445
2ddoATPPyridoxine/pyridoxal/pyridoxamine kinase/0.445
2gv8NDPThiol-specific monooxygenase1.14.130.445
2rlcCHDCholoylglycine hydrolase3.5.1.240.445
2y3sTIRTamL/0.445
2znnS44Peroxisome proliferator-activated receptor alpha/0.445
4dbzNDPPutative ketoacyl reductase1.3.10.445
4dd8BATDisintegrin and metalloproteinase domain-containing protein 83.4.240.445
4nd3NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.445
1cdoNADAlcohol dehydrogenase 11.1.1.10.444
1kp3ATPArgininosuccinate synthase6.3.4.50.444
1rfuADPPyridoxal kinase2.7.1.350.444
2hrcCHDFerrochelatase, mitochondrial4.99.1.10.444
2is0I03Beta-secretase 13.4.23.460.444
2omeNADC-terminal-binding protein 2/0.444
2y0mACOHistone acetyltransferase KAT8/0.444
2z7hGG3Geranylgeranyl pyrophosphate synthase/0.444
3a3bRBFLumazine protein/0.444
3cb2GDPTubulin gamma-1 chain/0.444
3dyqPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.444
3tr05GPGuanylate kinase/0.444
4ejvLCLTranscriptional regulator TcaR/0.444
4qecNAPElxO/0.444
1bwsNDPGDP-L-fucose synthase/0.443
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.443
1korANPArgininosuccinate synthase/0.443
1nuuNADNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.443
1psa0ZLPepsin A3.4.23.10.443
1tqf32PBeta-secretase 13.4.23.460.443
1wntNAPL-xylulose reductase1.1.1.100.443
2cftPLPPyridoxal phosphate phosphatase/0.443
2gmhFADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial1.5.5.10.443
2p8hMY9Beta-secretase 13.4.23.460.443
3b70NAPEnoyl reductase LovC10.443
3bhiNAPCarbonyl reductase [NADPH] 11.1.1.1840.443
3i4bZ48Glycogen synthase kinase-3 beta2.7.11.260.443
3lsiFADPyranose 2-oxidase/0.443
3mpiFADGlutaryl-CoA dehydrogenase1.3.99.320.443
3p62FMNPentaerythritol tetranitrate reductase/0.443
3pqbVGPPutative oxidoreductase/0.443
3rufNADUDP-N-acetylglucosamine 4-epimerase/0.443
4bbyFADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.443
4dc0NDPPutative ketoacyl reductase1.3.10.443
1bim0QBRenin3.4.23.150.442
1c3x8IGPurine nucleoside phosphorylase2.4.2.10.442
1tehNADAlcohol dehydrogenase class-31.1.1.10.442
1vp6CMPCyclic nucleotide-gated potassium channel mll3241/0.442
2bf4FMNNADPH--cytochrome P450 reductase/0.442
2xx91NFGlutamate receptor 2/0.442
3ggoNAIPrephenate dehydrogenase/0.442
3hyoADPPyridoxal kinase/0.442
3oqfS51Renin3.4.23.150.442
3wb2YGPUncharacterized protein MJ0488/0.442
4cukNAID-lactate dehydrogenase/0.442
4i8zG08Gag-Pol polyprotein3.4.23.160.442
5ar4SB2Receptor-interacting serine/threonine-protein kinase 22.7.11.10.442
1ma0NADAlcohol dehydrogenase class-31.1.1.10.441
1z7yAA5Cysteine synthase 12.5.1.470.441
2b4qNAPRhamnolipids biosynthesis 3-oxoacyl-[acyl-carrier-protein] reductase1.1.1.1000.441
2cmjNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.441
2r26CMCCitrate synthase2.3.3.160.441
3ohh3HHBeta-secretase 13.4.23.460.441
3tneRITCandidapepsin-13.4.23.240.441
3zhuTD8Multifunctional 2-oxoglutarate metabolism enzyme1.2.4.20.441
4du82P0Mevalonate diphosphate decarboxylase/0.441
5a88ADPRiboflavin biosynthesis protein RibF2.7.1.260.441
5eb5FAD(R)-mandelonitrile lyase 14.1.2.100.441
5fs7FADApoptosis-inducing factor 1, mitochondrial1.1.10.441
5jscFADPutative acyl-CoA dehydrogenase/0.441
1bmfANPATP synthase subunit alpha, mitochondrial/0.440
1bmfANPATP synthase subunit beta, mitochondrial3.6.3.140.440
1q5mNDPProstaglandin-E(2) 9-reductase1.1.1.1890.440
2q1tNADPutative nucleotide sugar epimerase/ dehydratase/0.440
2vkmBSDBeta-secretase 13.4.23.460.440
3e39FMNNitroreductase/0.440
3h6vNS6Glutamate receptor 2/0.440
3ijoB4DGlutamate receptor 2/0.440
3swqEPUUDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.440
3vthAP2Carbamoyltransferase/0.440
4bcaFADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.440
4emtC2EStimulator of interferon genes protein/0.440
5hwsNAP2-dehydropantoate 2-reductase/0.440