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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
1f0yNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.35

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1f0yNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.351.000
1il0NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.622
1m76NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.602
1m75NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.598
3f3sNADLambda-crystallin homolog/0.548
1hkuNADC-terminal-binding protein 11.1.10.538
2hu2NADC-terminal binding protein 1/0.504
2ft9CHDFatty acid-binding protein 2, liver/0.492
2i7pACOPantothenate kinase 32.7.1.330.485
1drhNAPDihydrofolate reductase1.5.1.30.484
4lcjNADC-terminal-binding protein 2/0.480
3phiNDPShikimate dehydrogenase (NADP(+))/0.477
2omeNADC-terminal-binding protein 2/0.475
3lqfNADGalactitol dehydrogenase/0.474
2xb5I7TTetracycline repressor protein class D/0.472
1ykfNAPNADP-dependent isopropanol dehydrogenase1.1.1.800.470
2jkvNAP6-phosphogluconate dehydrogenase, decarboxylating1.1.1.440.470
4brdANPEctonucleoside triphosphate diphosphohydrolase I/0.469
5b1yNDP3-oxoacyl-[acyl-carrier-protein] reductase/0.469
5jlaNADPutative short-chain dehydrogenase/reductase/0.469
2g1s4IGRenin3.4.23.150.468
4briUNPEctonucleoside triphosphate diphosphohydrolase I/0.468
2gjlFMNNitronate monooxygenase1.13.12.160.467
2vkeTACTetracycline repressor protein class D/0.467
1kevNDPNADP-dependent isopropanol dehydrogenase1.1.1.800.466
2fj1CTCTetracycline repressor protein class D/0.466
2g9uG27Glycogen phosphorylase, muscle form2.4.1.10.466
3kb1ADPIron-sulfur cluster carrier protein/0.466
3bgxTMPThymidylate synthase/0.465
3w2eNADNADH-cytochrome b5 reductase 31.6.2.20.465
4nbtNAD3-oxoacyl-[acyl-carrier-protein] reductase/0.465
2iyfERYOleandomycin glycosyltransferase2.4.10.464
3p62FMNPentaerythritol tetranitrate reductase/0.464
3r83Z14Cyclin-dependent kinase 22.7.11.220.464
2ag5NAD3-hydroxybutyrate dehydrogenase type 2/0.463
2eldSAHDiphthine synthase/0.463
3qdlFMNOxygen-insensitive NADPH nitroreductase/0.463
3vthAP2Carbamoyltransferase/0.463
2oapANPType II secretion system protein (GspE-2)/0.462
2y05NAPProstaglandin reductase 1/0.462
3gqvNAPEnoyl reductase LovC10.462
4ef8FMNDihydroorotate dehydrogenase (fumarate)/0.462
2dftADPShikimate kinase2.7.1.710.461
2gjnFMNNitronate monooxygenase1.13.12.160.461
3lqsPSZD-alanine aminotransferase2.6.1.210.461
3qt62P0Mevalonate diphosphate decarboxylase/0.461
1udaUFGUDP-glucose 4-epimerase5.1.3.20.460
1w6hTITPlasmepsin-23.4.23.390.460
1xe55FEPlasmepsin-23.4.23.390.460
2he5NDPAldo-keto reductase family 1 member C211.1.10.460
2xpvMIYTetracycline repressor protein class D/0.460
3axkNDPRibulose bisphosphate carboxylase large chain4.1.1.390.460
1nytNAPShikimate dehydrogenase (NADP(+))/0.459
1xddAAYIntegrin alpha-L/0.459
2y1tDUDSPBc2 prophage-derived deoxyuridine 5'-triphosphate nucleotidohydrolase YosS3.6.1.230.459
4dfg0JVGag-Pol polyprotein3.4.23.160.459
4ktoFADPutative isovaleryl-CoA dehydrogenase protein/0.459
4q71FADBifunctional protein PutA/0.459
1yb5NAPQuinone oxidoreductase1.6.5.50.458
2v16C47Renin3.4.23.150.458
2zseACPPantothenate kinase2.7.1.330.458
3etgNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.458
3q43D66M1 family aminopeptidase3.4.110.458
4a83DXCMajor pollen allergen Bet v 1-A/0.458
4mdhNADMalate dehydrogenase, cytoplasmic1.1.1.370.458
1kqnNADNicotinamide/nicotinic acid mononucleotide adenylyltransferase 12.7.7.10.457
4oztP1AEcdysone receptor, putative/0.457
1t2cNAIL-lactate dehydrogenase1.1.1.270.456
2ch6ADPN-acetyl-D-glucosamine kinase2.7.1.590.456
2gmhFADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial1.5.5.10.456
2o1sTDP1-deoxy-D-xylulose-5-phosphate synthase2.2.1.70.456
3clsFADElectron transfer flavoprotein subunit alpha/0.456
4eu9COASuccinyl-CoA:acetate CoA-transferase/0.456
5fkoTDCTetracycline repressor protein class D/0.456
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.455
2c29NAPDihydroflavonol 4-reductase/0.455
2xrlDXTTetracycline repressor protein class D/0.455
3enkUPGUDP-glucose 4-epimerase/0.455
3iahNAPPutative oxoacyl-(Acyl carrier protein) reductase/0.455
4nd4NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.455
1kbo340NAD(P)H dehydrogenase [quinone] 11.6.5.20.454
2gv8NDPThiol-specific monooxygenase1.14.130.454
3w8qAGSDual specificity mitogen-activated protein kinase kinase 12.7.12.20.454
4gl4NAIAlcohol dehydrogenase class-3/0.454
4jloADPAdenylate kinase/0.454
4plpNADHomospermidine synthase2.5.1.440.454
4v2gITCTetracycline repressor protein class D/0.454
4wriOKAOkadaic acid binding protein 2-alpha/0.454
1u8vFAD4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase/0.453
3uylTYDProbable NDP-rhamnosyltransferase/0.453
3vydVYDRenin3.4.23.150.453
4a84DXCMajor pollen allergen Bet v 1-A/0.453
1icvFMNOxygen-insensitive NAD(P)H nitroreductase/0.452
3jqpA2PFerredoxin--NADP reductase, apicoplast/0.452
3oixFMNDihydroorotate dehydrogenase/0.452
3tr05GPGuanylate kinase/0.452
4bb3KKAIsopenicillin N synthase1.21.3.10.452
4kugNAD3-hydroxybutyryl-CoA dehydrogenase/0.452
4nd3NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.452
4opgFDAConserved Archaeal protein/0.452
1lbcCYZGlutamate receptor 2/0.451
1mjaCOAHistone acetyltransferase ESA1/0.451
2a94AP0L-lactate dehydrogenase1.1.1.270.451
2rcyNAPPyrroline-5-carboxylate reductase/0.451
2z95NDPGDP-mannose 4,6-dehydratase/0.451
3x21FMNOxygen-insensitive NAD(P)H nitroreductase/0.451
4abzT1CTetracycline repressor protein class D/0.451
5fklTDCTetracycline repressor protein class D/0.451
2npxFADNADH peroxidase1.11.1.10.450
2tctCTCTetracycline repressor protein class D/0.450
3tjzGNPADP-ribosylation factor 1/0.450
4fg8ATPCalcium/calmodulin-dependent protein kinase type 12.7.11.170.450
4hp8NAP2-deoxy-D-gluconate 3-dehydrogenase/0.450
2g1r3IGRenin3.4.23.150.449
2po7CHDFerrochelatase, mitochondrial4.99.1.10.449
3ai2NDPNADPH-sorbose reductase/0.449
3ogxH1SPeptidoglycan recognition protein 1/0.449
3qwbNDPProbable quinone oxidoreductase1.6.5.50.449
3r9uFADThioredoxin reductase/0.449
4ge90L0Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.449
4gz612VUDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit/0.449
4m6jNDPDihydrofolate reductase1.5.1.30.449
1f8wFADNADH peroxidase1.11.1.10.448
1rwbNADGlucose 1-dehydrogenase1.1.1.470.448
2o7oDXTTetracycline repressor protein class D/0.448
2y0mACOHistone acetyltransferase KAT8/0.448
2ztmNADD(-)-3-hydroxybutyrate dehydrogenase/0.448
3b70NAPEnoyl reductase LovC10.448
3qlsNDPDihydrofolate reductase1.5.1.30.448
3s87ADPRibonucleoside-diphosphate reductase large chain 11.17.4.10.448
4ca83ESAngiotensin-converting enzyme3.4.15.10.448
4djaFAD(6-4) photolyase/0.448
4xguADPPutative pachytene checkpoint protein 2/0.448
4z3dNDPCarbonyl reductase [NADPH] 11.1.1.1840.448
1e3sNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.447
1me6IVSPlasmepsin-23.4.23.390.447
1x1aSAMC-20 methyltransferase/0.447
2fn7NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.447
3uu114BAnthranilate phosphoribosyltransferase/0.447
4dc0NDPPutative ketoacyl reductase1.3.10.447
4fj2NAP17beta-hydroxysteroid dehydrogenase/0.447
4jl6ADPAdenylate kinase/0.447
4m2bUPGUDP-glucose pyrophosphorylase/0.447
1i24UPGUDP-sulfoquinovose synthase, chloroplastic3.13.1.10.446
2pk3A2RGDP-6-deoxy-D-mannose reductase/0.446
2wnsOMPUridine 5'-monophosphate synthase2.4.2.100.446
3mx5UTPNucleoprotein/0.446
3toxNAPPutative oxidoreductase/0.446
4df2FMNNADPH dehydrogenase/0.446
4j57FADThioredoxin reductase 21.8.1.90.446
4kbyC2EStimulator of interferon genes protein/0.446
4xq9NADHomospermidine synthase2.5.1.440.446
1knpFADL-aspartate oxidase1.4.3.160.445
2q1tNADPutative nucleotide sugar epimerase/ dehydratase/0.445
3ik6HCZGlutamate receptor 2/0.445
3vdqNAD3-hydroxybutyrate dehydrogenase/0.445
4du82P0Mevalonate diphosphate decarboxylase/0.445
4eakATP5'-AMP-activated protein kinase subunit gamma-1/0.445
4hmz18TdTDP-4-dehydro-6-deoxyglucose 3-epimerase5.1.3.270.445
4is3NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 21.17.98.10.445
5ftfADPTPR domain protein/0.445
1g0nNDPTetrahydroxynaphthalene reductase1.1.1.2520.444
1gzuNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 12.7.7.10.444
1i2cUPGUDP-sulfoquinovose synthase, chloroplastic3.13.1.10.444
1llzFMNFerredoxin-dependent glutamate synthase 21.4.7.10.444
2g8yNADHydroxycarboxylate dehydrogenase B/0.444
2ikuLIYRenin3.4.23.150.444
2ivnANPtRNA N6-adenosine threonylcarbamoyltransferase/0.444
2v3aFADRubredoxin-NAD(+) reductase1.18.1.10.444
2x7hPFNProstaglandin reductase 310.444
2xtnGTPGTPase IMAP family member 2/0.444
3sqzCOAPutative hydroxymethylglutaryl-CoA synthase/0.444
4k6fNAPPutative Acetoacetyl-CoA reductase/0.444
4nbwNADShort-chain dehydrogenase/reductase SDR/0.444
4opiFDAConserved Archaeal protein/0.444
4yaiNAIC alpha-dehydrogenase/0.444
1foaUD1Alpha-1,3-mannosyl-glycoprotein 2-beta-N-acetylglucosaminyltransferase2.4.1.1010.443
1kvkATPMevalonate kinase2.7.1.360.443
1vbiNADMalate/L-lactate dehydrogenase family protein/0.443
1vzaUMPThymidylate synthase/0.443
2eudGCQRibonucleoside-diphosphate reductase large chain 11.17.4.10.443
3dgaNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.443
3fpzAHZThiamine thiazole synthase/0.443
3h6vNS6Glutamate receptor 2/0.443
3lb8FADPutidaredoxin reductase1.18.1.50.443
4an4DUDPutative glycosyl transferase/0.443
4eo3FMNBacterioferritin comigratory protein/NADH dehydrogenase/0.443
1h73ANPHomoserine kinase2.7.1.390.442
1lwiNAP3-alpha-hydroxysteroid dehydrogenase1.1.1.500.442
1nhqFADNADH peroxidase1.11.1.10.442
1v9aSAHUncharacterized protein/0.442
2a92NAIL-lactate dehydrogenase/0.442
2ewmNAD(S)-1-Phenylethanol dehydrogenase1.1.1.3110.442
2freFMNNAD(P)H-flavin oxidoreductase/0.442
2gmjFADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial1.5.5.10.442
2hydADPPutative multidrug export ATP-binding/permease protein SAV18663.6.30.442
3f63GTXGlutathione transferase GST1-4/0.442
4b3aTACTetracycline repressor protein class D/0.442
4fj1NAP17beta-hydroxysteroid dehydrogenase/0.442
4fw8NAI3-oxoacyl-(Acyl-carrier-protein) reductase/0.442
1g1aNADdTDP-glucose 4,6-dehydratase/0.441
1gcoNADGlucose 1-dehydrogenase1.1.1.470.441
1ia1NDPDihydrofolate reductase1.5.1.30.441
1ky2GNPGTP-binding protein YPT7/0.441
1ma0NADAlcohol dehydrogenase class-31.1.1.10.441
2gvdFKPAdenylate cyclase type 2/0.441
2gvdFKPAdenylate cyclase type 5/0.441
2i4pDRHPeroxisome proliferator-activated receptor gamma/0.441
2nuaCOASuccinate--CoA ligase [ADP-forming] subunit alpha6.2.1.50.441
2oegUPGUDP-glucose pyrophosphorylase/0.441
2wdzNADGalactitol dehydrogenase/0.441
2xpuTDCTetracycline repressor protein class D/0.441
3iqhTYR_ASP_ILECysteine synthase2.5.1.470.441
3u9eCOALmo1369 protein/0.441
3uozFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.441
3zeiAWHO-acetylserine sulfhydrylase/0.441
4blsAPCNTPase P4/0.441
4emiNADToluene 1,2-dioxygenase system ferredoxin--NAD(+) reductase component1.18.1.30.441
4fxy0W2Neurolysin, mitochondrial3.4.24.160.441
4g7gVFVLanosterol 14-alpha-demethylase/0.441
4ipw1G7Mycocyclosin synthase1.14.21.90.441
4qxq1YEStimulator of interferon genes protein/0.441
5fs7FADApoptosis-inducing factor 1, mitochondrial1.1.10.441
1sd2MTHS-methyl-5'-thioadenosine phosphorylase/0.440
1xkvATPPhosphoenolpyruvate carboxykinase (ATP)/0.440
2iko7IGRenin3.4.23.150.440
2yy2IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440
3a6rFMNFMN-binding protein/0.440
3d2mCOAAmino-acid acetyltransferase/0.440
3hdhNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.440
3kjiADPCO dehydrogenase/acetyl-CoA synthase complex, accessory protein CooC/0.440
3o03NAPDehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase)/0.440
3ohh3HHBeta-secretase 13.4.23.460.440
3oibFDAPutative acyl-CoA dehydrogenase/0.440
3pxvFMNNitroreductase/0.440
3w8rACPUridine kinase/0.440
4dpwAGSMevalonate diphosphate decarboxylase/0.440
4iqlFMNEnoyl-(Acyl-carrier-protein) reductase II/0.440
4lj6ACPChaperone protein ClpB/0.440