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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
3mzhCMPCRP-like cAMP-activated global transcriptional regulator

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
3mzhCMPCRP-like cAMP-activated global transcriptional regulator/1.000
3r6sCMPCRP-like cAMP-activated global transcriptional regulator/0.560
4i02CMPcAMP-activated global transcriptional regulator CRP/0.542
3i59N6RCRP-like cAMP-activated global transcriptional regulator/0.519
4i0bCMPcAMP-activated global transcriptional regulator CRP/0.508
2wo7ASVIsopenicillin N synthase1.21.3.10.494
1xkvATPPhosphoenolpyruvate carboxykinase (ATP)/0.493
3i59N6SCRP-like cAMP-activated global transcriptional regulator/0.492
1hb3SCVIsopenicillin N synthase1.21.3.10.490
2vbpVB1Isopenicillin N synthase1.21.3.10.488
4i09CMPcAMP-activated global transcriptional regulator CRP/0.488
3rypCMPcAMP-activated global transcriptional regulator CRP/0.486
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.485
4gh5NADShort-chain dehydrogenase/reductase SDR/0.485
4y8vADPAcyl-CoA synthetase (NDP forming)/0.483
1g6nCMPcAMP-activated global transcriptional regulator CRP/0.482
1gqtACPRibokinase/0.481
1i6xCMPcAMP-activated global transcriptional regulator CRP/0.480
1w06W05Isopenicillin N synthase1.21.3.10.480
2y6fM9FIsopenicillin N synthase1.21.3.10.480
3vt8YI3Vitamin D3 receptor/0.479
2iviACWIsopenicillin N synthase1.21.3.10.478
1uzwCDHIsopenicillin N synthase1.21.3.10.475
2hc4VDXVitamin D3 receptor A/0.474
5fs7FADApoptosis-inducing factor 1, mitochondrial1.1.10.474
5idwNAPShort-chain dehydrogenase/reductase SDR/0.474
1obnASVIsopenicillin N synthase1.21.3.10.472
1rx0FADIsobutyryl-CoA dehydrogenase, mitochondrial1.3.990.472
2vcmM11Isopenicillin N synthase1.21.3.10.472
3zkyWT4Isopenicillin N synthase1.21.3.10.472
4yagNAIC alpha-dehydrogenase/0.472
1vl8NAPOxidoreductase, short chain dehydrogenase/reductase family/0.471
2x0iNAIMalate dehydrogenase/0.471
3vt7VDXVitamin D3 receptor/0.471
3vt9YI4Vitamin D3 receptor/0.471
4bb3KKAIsopenicillin N synthase1.21.3.10.471
1mp0NADAlcohol dehydrogenase class-31.1.1.10.468
1w4zNAPPutative ketoacyl reductase1.3.10.468
2cmvNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.468
2ntvP1HEnoyl-[acyl-carrier-protein] reductase [NADH]/0.468
3dmeFADPutative conserved exported protein/0.468
4eakATP5'-AMP-activated protein kinase subunit gamma-1/0.468
1oc1ASVIsopenicillin N synthase1.21.3.10.467
2vbdV10Isopenicillin N synthase1.21.3.10.467
2xpwOTCTetracycline repressor protein class D/0.467
3up4FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.467
4n9iPCGCatabolite expression activator/0.467
4q73FADBifunctional protein PutA/0.467
2y60M8FIsopenicillin N synthase1.21.3.10.466
1i7lATPSynapsin-2/0.465
2gmhFADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial1.5.5.10.465
2gzwCMPcAMP-activated global transcriptional regulator CRP/0.465
1blzACVIsopenicillin N synthase1.21.3.10.464
1h74ADPHomoserine kinase2.7.1.390.464
1qjfACSIsopenicillin N synthase1.21.3.10.464
2c54NADGDP-mannose 3,5-epimerase5.1.3.180.464
3ryrCMPcAMP-activated global transcriptional regulator CRP/0.464
4ambDUDPutative glycosyl transferase/0.464
4yntFDAGlucose oxidase, putative/0.464
3zoiM2WIsopenicillin N synthase1.21.3.10.463
1z7yAA5Cysteine synthase 12.5.1.470.462
2bu9HFVIsopenicillin N synthase1.21.3.10.462
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.462
2wdzNADGalactitol dehydrogenase/0.462
2xveFADPutative flavin-containing monooxygenase/0.462
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.462
5c6cCMPcGMP-dependent protein kinase 22.7.11.120.462
5l3rGCPCell division protein FtsY homolog, chloroplastic/0.462
2xpvMIYTetracycline repressor protein class D/0.461
3qwbNDPProbable quinone oxidoreductase1.6.5.50.461
4z26FADPutative GMC-type oxidoreductase R13510.461
1naiNADUDP-glucose 4-epimerase5.1.3.20.460
1w87NAPFerredoxin--NADP reductase1.18.1.20.460
2xlrFADPutative flavin-containing monooxygenase/0.460
4lisNADUDP-glucose 4-epimerase (Eurofung)/0.460
1fxsNAPGDP-L-fucose synthase/0.459
1gg5FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.459
3iahNAPPutative oxoacyl-(Acyl carrier protein) reductase/0.459
3zc3NAPFerredoxin--NADP reductase1.18.1.20.459
4abzT1CTetracycline repressor protein class D/0.459
4auxXTCTetracycline repressor protein class D/0.459
5g53NECAdenosine receptor A2a/0.459
1nytNAPShikimate dehydrogenase (NADP(+))/0.458
1t0lNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.458
1tj0FADBifunctional protein PutA1.5.5.20.458
2oorNADNAD(P) transhydrogenase subunit alpha part 11.6.1.20.458
3he3FADUDP-galactopyranose mutase/0.458
3lpkZ76Beta-secretase 13.4.23.460.458
3to6LYS_CMCHistone acetyltransferase ESA1/0.458
5jlaNADPutative short-chain dehydrogenase/reductase/0.458
1cf3FADGlucose oxidase1.1.3.40.457
1me6IVSPlasmepsin-23.4.23.390.457
1u8vFAD4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase/0.457
2vprTDCTetracycline repressor protein class H/0.457
1dliUDXUDP-glucose 6-dehydrogenase/0.456
1mjbACOHistone acetyltransferase ESA1/0.456
1yqxNAPSinapyl alcohol dehydrogenase/0.456
2daaDCSD-alanine aminotransferase2.6.1.210.456
4bfxZVXPantothenate kinase2.7.1.330.456
4yaiNAIC alpha-dehydrogenase/0.456
1egeFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.455
1hb1OCVIsopenicillin N synthase1.21.3.10.455
1yqdNAPSinapyl alcohol dehydrogenase/0.455
2dteNAIGlucose 1-dehydrogenase related protein/0.455
4gl4NAIAlcohol dehydrogenase class-3/0.455
5iosFADFlavin-dependent thymidylate synthase2.1.1.1480.455
1bk0ACVIsopenicillin N synthase1.21.3.10.454
1fy7COAHistone acetyltransferase ESA1/0.454
1g4tFTPThiamine-phosphate synthase/0.454
1qiqACCIsopenicillin N synthase1.21.3.10.454
2tpsTPSThiamine-phosphate synthase/0.454
3cisATPUniversal stress protein Rv2623/0.454
3ovbATPCCA-adding enzyme2.7.7.720.454
2a1tFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.453
2aviBTNAvidin/0.453
2c12FADNitroalkane oxidase1.7.3.10.453
2fhnBNIAvidin-related protein 4/5/0.453
2fznFADBifunctional protein PutA1.5.5.20.453
2wsbNADGalactitol dehydrogenase/0.453
3cukFADD-amino-acid oxidase1.4.3.30.453
3slkNDPPolyketide synthase extender module 2/0.453
3w233RODihydroorotate dehydrogenase (fumarate)1.3.98.10.453
4hbnCMPPotassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4/0.453
4uyf73BBromodomain-containing protein 2/0.453
5j23A2RPutative 2-hydroxyacid dehydrogenase/0.453
1ng4FADGlycine oxidase1.4.3.190.452
1rj9GCPSignal recognition particle receptor FtsY/0.452
2jahNDPClavaldehyde dehydrogenase/0.452
2vkeTACTetracycline repressor protein class D/0.452
2x0rNADMalate dehydrogenase/0.452
2xw7NDPDihydrofolate reductase/0.452
3bazNAPHydroxyphenylpyruvate reductase1.1.1.2370.452
3lqfNADGalactitol dehydrogenase/0.452
3ohh3HHBeta-secretase 13.4.23.460.452
3ukoNADAlcohol dehydrogenase class-3/0.452
3uqdATPATP-dependent 6-phosphofructokinase isozyme 22.7.1.110.452
4dc0NDPPutative ketoacyl reductase1.3.10.452
4e2dFMNDehydrogenase/0.452
5jscFADPutative acyl-CoA dehydrogenase/0.452
1u7tNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.451
2g226IGRenin3.4.23.150.451
2q4bNAPUncharacterized protein At5g02240/0.451
3drcMTXDihydrofolate reductase1.5.1.30.451
3rucNADUDP-N-acetylglucosamine 4-epimerase/0.451
4xybNDPFormate dehydrogenase/0.451
1kvrNADUDP-glucose 4-epimerase5.1.3.20.450
1t9gFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.450
1zdwFLVPrenyltransferase/0.450
2cgpCMPcAMP-activated global transcriptional regulator CRP/0.450
2cmjNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.450
2givACOHistone acetyltransferase KAT8/0.450
2harOCCVitamin D3 receptor/0.450
2jb4A14Isopenicillin N synthase1.21.3.10.450
4d5gFADCyclohexane-1,2-dione hydrolase3.7.1.110.450
4dieC5PCytidylate kinase/0.450
4djy0KRBeta-secretase 13.4.23.460.450
4iteTEYVitamin D3 receptor/0.450
4r81FMNPredicted NADH dehydrogenase/0.450
4z64ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.450
1okkGCPSignal recognition particle protein/0.449
1okkGCPSignal recognition particle receptor FtsY/0.449
1psa0ZLPepsin A3.4.23.10.449
1qbgFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.449
1s0zEB1Vitamin D3 receptor/0.449
2ydxNAPMethionine adenosyltransferase 2 subunit beta/0.449
3ac3KSHTyrosine-protein kinase Lck2.7.10.20.449
3d8bADPFidgetin-like protein 13.6.40.449
3iidAPRCore histone macro-H2A.1/0.449
3toxNAPPutative oxidoreductase/0.449
3w0jT08Vitamin D3 receptor/0.449
4dh60KNBeta-secretase 13.4.23.460.449
4kxn6K62'-deoxynucleoside 5'-phosphate N-hydrolase 1/0.449
5a3bAPRSIR2 family protein/0.449
1h50FMNPentaerythritol tetranitrate reductase/0.448
1hw5CMPcAMP-activated global transcriptional regulator CRP/0.448
1ie9VDXVitamin D3 receptor/0.448
1lluNADAlcohol dehydrogenase/0.448
2ahrNAPPyrroline-5-carboxylate reductase/0.448
2fy4COACholine O-acetyltransferase2.3.1.60.448
2ituITQEpidermal growth factor receptor2.7.10.10.448
4b8zNAPGDP-L-fucose synthase1.1.1.2710.448
4jq3NAPAldo-keto reductase family 1 member C2/0.448
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.448
5eaiFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.448
1mjaCOAHistone acetyltransferase ESA1/0.447
1piwNAPNADP-dependent alcohol dehydrogenase 61.1.1.20.447
1q12ATPMaltose/maltodextrin import ATP-binding protein MalK/0.447
2dknNAI3-alpha-hydroxysteroid dehydrogenase/0.447
2ou2ACOHistone acetyltransferase KAT5/0.447
3lpjZ75Beta-secretase 13.4.23.460.447
3n0cFADFlavin-dependent thymidylate synthase2.1.1.1480.447
3vt5YI2Vitamin D3 receptor/0.447
4j31FADKynurenine 3-monooxygenase/0.447
4z3dNDPCarbonyl reductase [NADPH] 11.1.1.1840.447
5c88COAN-alpha-acetyltransferase/0.447
1jpaANPEphrin type-B receptor 22.7.10.10.446
2c29NAPDihydroflavonol 4-reductase/0.446
3c1y2BADNA integrity scanning protein DisA/0.446
3hv5R24Mitogen-activated protein kinase 14/0.446
3pqbVGPPutative oxidoreductase/0.446
3tqcADPPantothenate kinase/0.446
3zh8C58Protein kinase C iota type2.7.11.130.446
4dbzNDPPutative ketoacyl reductase1.3.10.446
4dvi2IWTankyrase-12.4.2.300.446
4xw4ANPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.446
5iqeGNPBifunctional AAC/APH2.3.10.446
1dljUGAUDP-glucose 6-dehydrogenase/0.445
1e3eNAIAlcohol dehydrogenase 41.1.1.10.445
1e6wNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.445
1fwkADPHomoserine kinase2.7.1.390.445
1h66FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.445
1m17AQ4Epidermal growth factor receptor2.7.10.10.445
1oaaNAPSepiapterin reductase1.1.1.1530.445
1t7i017Gag-Pol polyprotein3.4.23.160.445
2aa3AP0L-lactate dehydrogenase/0.445
2fw3BUICarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.445
2gdzNAD15-hydroxyprostaglandin dehydrogenase [NAD(+)]1.1.1.1410.445
2he5NDPAldo-keto reductase family 1 member C211.1.10.445
2ignFADPyranose 2-oxidase/0.445
2o7oDXTTetracycline repressor protein class D/0.445
2qo9ANPEphrin type-A receptor 32.7.10.10.445
2xgs44PUncharacterized protein/0.445
3etdNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.445
3hmm855TGF-beta receptor type-12.7.11.300.445
3kgcLY7Glutamate receptor 2/0.445
4fj1NAP17beta-hydroxysteroid dehydrogenase/0.445
4j36FADKynurenine 3-monooxygenase/0.445
4l4xNDPAmphI/0.445
4pytFADUDP-N-acetylenolpyruvoylglucosamine reductase/0.445
1gheACOAcetyltransferase2.3.10.444
1iy8NADLevodione reductase/0.444
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.444
2fzwNADAlcohol dehydrogenase class-31.1.1.10.444
2ntrL00Beta-secretase 13.4.23.460.444
2panFADGlyoxylate carboligase4.1.1.470.444
2tctCTCTetracycline repressor protein class D/0.444
3kjiADPCO dehydrogenase/acetyl-CoA synthase complex, accessory protein CooC/0.444
3mvqNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.444
3qrwNDPPutative ketoacyl reductase1.3.10.444
4h8aNAIUreidoglycolate dehydrogenase (NAD(+))1.1.1.3500.444
4z63ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.444
5hes032Mitogen-activated protein kinase kinase kinase 202.7.11.250.444
1bygSTUTyrosine-protein kinase CSK/0.443
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.443
1kqnNADNicotinamide/nicotinic acid mononucleotide adenylyltransferase 12.7.7.10.443
1lquNDPNADPH-ferredoxin reductase FprA1.18.1.20.443
1uu9BI33-phosphoinositide-dependent protein kinase 12.7.11.10.443
1ybmNAPUncharacterized protein At5g02240/0.443
2i4pDRHPeroxisome proliferator-activated receptor gamma/0.443
2qu6857Vascular endothelial growth factor receptor 22.7.10.10.443
2y4gTIRTamL/0.443
3d3wNAPL-xylulose reductase1.1.1.100.443
3ijrNADOxidoreductase, short chain dehydrogenase/reductase family/0.443
3nx4NAPPutative oxidoreductase/0.443
4i5eNAPAlclohol dehydrogenase/short-chain dehydrogenase/0.443
4kwhNAPReductase homolog/0.443
1dxoFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.442
1f5fDHTSex hormone-binding globulin/0.442
1nahNADUDP-glucose 4-epimerase5.1.3.20.442
2is0I03Beta-secretase 13.4.23.460.442
2o23NAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.442
2ztmNADD(-)-3-hydroxybutyrate dehydrogenase/0.442
3fpaDTBATP-dependent dethiobiotin synthetase BioD/0.442
3lu1NADUDP-N-acetylglucosamine 4-epimerase/0.442
3pgxNADUncharacterized NAD-dependent oxidoreductase MAP_4146/0.442
3r2fPB0Beta-secretase 13.4.23.460.442
4an4DUDPutative glycosyl transferase/0.442
4jqh1MFAlr2278 protein/0.442
4k9h1QUBeta-secretase 13.4.23.460.442
4nxxGDPMitochondrial dynamics protein MID51/0.442
4twrNADNAD binding site:NAD-dependent epimerase/dehydratase:UDP-glucose 4-epimerase/0.442
4z24FADPutative GMC-type oxidoreductase R13510.442
1bwlFMNNADPH dehydrogenase 11.6.99.10.441
1kr2TADNicotinamide/nicotinic acid mononucleotide adenylyltransferase 12.7.7.10.441
1mj9COAHistone acetyltransferase ESA1/0.441
1o8cNDPProbable acrylyl-CoA reductase AcuI1.3.1.840.441
1y0s331Peroxisome proliferator-activated receptor delta/0.441
2c59NADGDP-mannose 3,5-epimerase5.1.3.180.441
2p9cNAID-3-phosphoglycerate dehydrogenase1.1.1.950.441
2q2qNADBeta-D-hydroxybutyrate dehydrogenase/0.441
3cgcCOACoenzyme A disulfide reductase/0.441
3copADPGlycogen synthase2.4.1.210.441
3jv7NADSecondary alcohol dehydrogenase/0.441
3kb6NADD-lactate dehydrogenase/0.441
3phiNDPShikimate dehydrogenase (NADP(+))/0.441
3r83Z14Cyclin-dependent kinase 22.7.11.220.441
3sf6FDAGlutaryl-CoA dehydrogenase/0.441
3tz3B36Acetyl-CoA carboxylase/0.441
3w8eNAD3-hydroxybutyrate dehydrogenase/0.441
4dpi0N1Beta-secretase 13.4.23.460.441
4eo3FMNBacterioferritin comigratory protein/NADH dehydrogenase/0.441
4fhi0S4Vitamin D3 receptor A/0.441
4g2h0VQVitamin D3 receptor A/0.441
4rujVDXVitamin D3 receptor A/0.441
5dp2NAPCurF/0.441
1jq5NADGlycerol dehydrogenase1.1.1.60.440
1lf2R37Plasmepsin-23.4.23.390.440
1m6iFADApoptosis-inducing factor 1, mitochondrial1.1.10.440
1qlhNADAlcohol dehydrogenase E chain1.1.1.10.440
1svgI04cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.440
1udyFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.440
1x7gNAPPutative ketoacyl reductase1.3.10.440
2g5cNADPrephenate dehydrogenase/0.440
2hcdBIVVitamin D3 receptor A/0.440
2igoFADPyranose 2-oxidase/0.440
2q5qTPWIndole-3-pyruvate decarboxylase4.1.1.740.440
2uywBTNAvd protein/0.440
2wezZYEBeta-secretase 13.4.23.460.440
2y05NAPProstaglandin reductase 1/0.440
2ztlNADD(-)-3-hydroxybutyrate dehydrogenase/0.440
3fcjFADNitroalkane oxidase1.7.3.10.440
3o26NDPSalutaridine reductase/0.440
3q43D66M1 family aminopeptidase3.4.110.440
3q44D50M1 family aminopeptidase3.4.110.440
4jdrFADDihydrolipoyl dehydrogenase1.8.1.40.440
4l1xNAPAldo-keto reductase family 1 member C2/0.440
4rrvATP3-phosphoinositide-dependent protein kinase 12.7.11.10.440