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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
5e7oMD1DMSO reductase family type II enzyme, molybdopterin subunit

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
5e7oMD1DMSO reductase family type II enzyme, molybdopterin subunit/1.000
5ch7MD1DMSO reductase family type II enzyme, molybdopterin subunit/0.612
4yddMD1DMSO reductase family type II enzyme, molybdopterin subunit/0.593
4eakATP5'-AMP-activated protein kinase subunit gamma-1/0.488
2g8yNADHydroxycarboxylate dehydrogenase B/0.485
1xe65FPPlasmepsin-23.4.23.390.483
3flkNAITartrate dehydrogenase/decarboxylase1.1.1.930.483
2xtnGTPGTPase IMAP family member 2/0.482
3toxNAPPutative oxidoreductase/0.482
4ef4C2EStimulator of interferon genes protein/0.482
3uylTYDProbable NDP-rhamnosyltransferase/0.481
1fcbFMNCytochrome b2, mitochondrial1.1.2.30.480
4eb7PLPCysteine desulfurase IscS 2/0.479
2g1r3IGRenin3.4.23.150.475
4emtC2EStimulator of interferon genes protein/0.475
1xe55FEPlasmepsin-23.4.23.390.474
2q1uNADPutative nucleotide sugar epimerase/ dehydratase/0.473
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.472
4f5yC2EStimulator of interferon genes protein/0.472
1bil0IURenin3.4.23.150.471
3b6zCO7Enoyl reductase LovC10.471
3b70NAPEnoyl reductase LovC10.470
3g49NAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.470
3k5c0BIBeta-secretase 13.4.23.460.470
3tjzGNPADP-ribosylation factor 1/0.470
1ndhFADNADH-cytochrome b5 reductase 31.6.2.20.469
2e77FMNLactate oxidase/0.469
4dc0NDPPutative ketoacyl reductase1.3.10.469
4hmz18TdTDP-4-dehydro-6-deoxyglucose 3-epimerase5.1.3.270.469
2a94AP0L-lactate dehydrogenase1.1.1.270.468
2ilvC5PAlpha-2,3/2,6-sialyltransferase/sialidase/0.468
2iyfERYOleandomycin glycosyltransferase2.4.10.468
3bk2U5PRibonuclease J/0.468
3muoZPRProlyl endopeptidase/0.467
3to6LYS_CMCHistone acetyltransferase ESA1/0.467
4eywL0RCarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.467
4f9gC2EStimulator of interferon genes protein/0.467
3gy0NAPNAD(P)-dependent oxidoreductase/0.466
4uwmFMN3,6-diketocamphane 1,6 monooxygenase1.14.130.466
1h5qNAPNADP-dependent mannitol dehydrogenase1.1.1.1380.465
1icpFMN12-oxophytodienoate reductase 11.3.1.420.465
1xl8152Peroxisomal carnitine O-octanoyltransferase2.3.1.1370.465
2fw3BUICarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.465
2g1o2IGRenin3.4.23.150.465
2o1sTDP1-deoxy-D-xylulose-5-phosphate synthase2.2.1.70.465
4lol1YEStimulator of interferon genes protein/0.465
4opgFDAConserved Archaeal protein/0.465
2q1sNAIPutative nucleotide sugar epimerase/ dehydratase/0.464
2zcvNDPQuinone oxidoreductase 21.6.5.20.464
3kjiADPCO dehydrogenase/acetyl-CoA synthase complex, accessory protein CooC/0.464
3qt62P0Mevalonate diphosphate decarboxylase/0.464
2c12FADNitroalkane oxidase1.7.3.10.463
2zjmF1MBeta-secretase 13.4.23.460.463
3w8eNAD3-hydroxybutyrate dehydrogenase/0.463
5hwqCAAHydroxymethylglutaryl-CoA synthase/0.463
1udaUFGUDP-glucose 4-epimerase5.1.3.20.461
2gmhFADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial1.5.5.10.461
2x6tNAPADP-L-glycero-D-manno-heptose-6-epimerase/0.461
1u8vFAD4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase/0.460
2ex1C5PAlpha-2,3/2,6-sialyltransferase/sialidase/0.460
2iibC5PAlpha-2,3/2,6-sialyltransferase/sialidase/0.460
4ambDUDPutative glycosyl transferase/0.460
2gv8NDPThiol-specific monooxygenase1.14.130.459
3hlwCE3Beta-lactamase/0.459
3te5NAI5'-AMP-activated protein kinase subunit gamma/0.459
4eu8COASuccinyl-CoA:acetate CoA-transferase/0.459
4i5eNAPAlclohol dehydrogenase/short-chain dehydrogenase/0.459
4opiFDAConserved Archaeal protein/0.459
1d0mBLGMembrane-bound lytic murein transglycosylase B4.2.2.n10.458
1drhNAPDihydrofolate reductase1.5.1.30.458
1ju2FAD(R)-mandelonitrile lyase 24.1.2.100.458
1u2yGOXPancreatic alpha-amylase/0.458
2fznFADBifunctional protein PutA1.5.5.20.458
2hunNAD336aa long hypothetical dTDP-glucose 4,6-dehydratase/0.458
3w8fNAD3-hydroxybutyrate dehydrogenase/0.458
4a802ANMajor pollen allergen Bet v 1-A/0.458
4lcjNADC-terminal-binding protein 2/0.458
3a37ADPATPase GET3/0.457
4k6fNAPPutative Acetoacetyl-CoA reductase/0.457
1nzdUPGDNA beta-glucosyltransferase/0.456
1vl8NAPOxidoreductase, short chain dehydrogenase/reductase family/0.456
2bjfDXCCholoylglycine hydrolase3.5.1.240.456
2g1s4IGRenin3.4.23.150.456
2ztlNADD(-)-3-hydroxybutyrate dehydrogenase/0.456
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.456
3gqvNAPEnoyl reductase LovC10.456
3m2vCOMMethyl-coenzyme M reductase I subunit alpha2.8.4.10.456
3qd43Q63-phosphoinositide-dependent protein kinase 12.7.11.10.456
3w2eNADNADH-cytochrome b5 reductase 31.6.2.20.456
4dbzNDPPutative ketoacyl reductase1.3.10.456
1e3sNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.455
1f8fNADBenzyl alcohol dehydrogenase/0.455
1h63FMNPentaerythritol tetranitrate reductase/0.455
3clsFADElectron transfer flavoprotein subunit alpha/0.455
3cosNADAlcohol dehydrogenase 41.1.1.10.455
4eagATP5'-AMP-activated protein kinase subunit gamma-1/0.455
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.455
4i1iNADMalate dehydrogenase/0.455
2ahrNAPPyrroline-5-carboxylate reductase/0.454
2gjlFMNNitronate monooxygenase1.13.12.160.454
2zz0FADThioredoxin reductase 1, cytoplasmic1.8.1.90.454
4nbtNAD3-oxoacyl-[acyl-carrier-protein] reductase/0.454
1vbiNADMalate/L-lactate dehydrogenase family protein/0.453
2b4tAESGlyceraldehyde-3-phosphate dehydrogenase/0.453
2g1n1IGRenin3.4.23.150.453
2hdhNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.453
3iaaTYDCalG2/0.453
3tr05GPGuanylate kinase/0.453
3u9y09LTankyrase-22.4.2.300.453
4bfxZVXPantothenate kinase2.7.1.330.453
1g1aNADdTDP-glucose 4,6-dehydratase/0.452
1ib0NADNADH-cytochrome b5 reductase 31.6.2.20.452
1vcfFMNIsopentenyl-diphosphate delta-isomerase/0.452
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.452
2eklNADD-3-phosphoglycerate dehydrogenase/0.452
4loi1YCStimulator of interferon genes protein/0.452
5hwoHMGHydroxymethylglutaryl-CoA synthase/0.452
1ur5NADMalate dehydrogenase/0.451
2fxv5GPXanthine phosphoribosyltransferase2.4.2.220.451
2g226IGRenin3.4.23.150.451
2q85973UDP-N-acetylenolpyruvoylglucosamine reductase1.3.1.980.451
3c1y2BADNA integrity scanning protein DisA/0.451
3hl0NADMaleylacetate reductase/0.451
3in6FMNUncharacterized protein/0.451
3kpbSAMUncharacterized protein MJ0100/0.451
3phiNDPShikimate dehydrogenase (NADP(+))/0.451
4a862ANMajor pollen allergen Bet v 1-A/0.451
4hbgNDP3-oxoacyl-[acyl-carrier-protein] reductase1.1.1.1000.451
4hp8NAP2-deoxy-D-gluconate 3-dehydrogenase/0.451
4qxp1YEStimulator of interferon genes protein/0.451
1rwbNADGlucose 1-dehydrogenase1.1.1.470.450
1w6hTITPlasmepsin-23.4.23.390.450
2c1zU2FAnthocyanidin 3-O-glucosyltransferase 22.4.1.1150.450
2geuCOKPantothenate kinase2.7.1.330.450
2ifaFMNUncharacterized protein/0.450
3gfbNADL-threonine 3-dehydrogenase/0.450
4an4DUDPutative glycosyl transferase/0.450
4blrUTPNTPase P4/0.450
4h8nNDPNADPH-dependent conjugated polyketone reductase C2/0.450
4jnkNAIL-lactate dehydrogenase A chain1.1.1.270.450
5cflC2EStimulator of interferon genes protein/0.450
5hwrCOAHydroxymethylglutaryl-CoA synthase/0.450
1tqf32PBeta-secretase 13.4.23.460.449
1xkvATPPhosphoenolpyruvate carboxykinase (ATP)/0.449
2a92NAIL-lactate dehydrogenase/0.449
2g247IGRenin3.4.23.150.449
2il2LIXRenin3.4.23.150.449
3up4FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.449
4dptAGSMevalonate diphosphate decarboxylase/0.449
4ke11R6Beta-secretase 13.4.23.460.449
5fs7FADApoptosis-inducing factor 1, mitochondrial1.1.10.449
1cdoNADAlcohol dehydrogenase 11.1.1.10.448
1h2bNAJNAD-dependent alcohol dehydrogenase/0.448
1n77ATPGlutamate--tRNA ligase6.1.1.170.448
1psa0ZLPepsin A3.4.23.10.448
1qx4FADNADH-cytochrome b5 reductase 31.6.2.20.448
2omeNADC-terminal-binding protein 2/0.448
2ztmNADD(-)-3-hydroxybutyrate dehydrogenase/0.448
2zvcSAHPrecorrin-3 C17-methyltransferase/0.448
3lqsPSZD-alanine aminotransferase2.6.1.210.448
3nxxNDPDihydrofolate reductase1.5.1.30.448
4jnkZHKL-lactate dehydrogenase A chain1.1.1.270.448
1d0lBLGMembrane-bound lytic murein transglycosylase B4.2.2.n10.447
1g0nNDPTetrahydroxynaphthalene reductase1.1.1.2520.447
1lbcCYZGlutamate receptor 2/0.447
1piwNAPNADP-dependent alcohol dehydrogenase 61.1.1.20.447
2c20NADUDP-glucose 4-epimerase/0.447
2d1yNADOxidoreductase, short-chain dehydrogenase/reductase family/0.447
2dc1NADProbable L-aspartate dehydrogenase/0.447
2ignFADPyranose 2-oxidase/0.447
2z7hGG3Geranylgeranyl pyrophosphate synthase/0.447
3a3gDLZLumazine protein/0.447
3dy8IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.447
3jzdNADMaleylacetate reductase/0.447
4a6rTA8Probable aminotransferase/0.447
4d89BXDBeta-secretase 13.4.23.460.447
4h8aNAIUreidoglycolate dehydrogenase (NAD(+))1.1.1.3500.447
4y3jHICEndothiapepsin3.4.23.220.447
5a3bAPRSIR2 family protein/0.447
5cfpC2EStimulator of interferon genes protein/0.447
1n2sNAIdTDP-4-dehydrorhamnose reductase1.1.1.1330.446
1t2cNAIL-lactate dehydrogenase1.1.1.270.446
2fn7NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.446
2i7pACOPantothenate kinase 32.7.1.330.446
2rbeNDPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.446
3clrFADElectron transfer flavoprotein subunit alpha/0.446
3f3sNADLambda-crystallin homolog/0.446
3ijrNADOxidoreductase, short chain dehydrogenase/reductase family/0.446
3nsh957Beta-secretase 13.4.23.460.446
3uzwNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.446
3v2uATPProtein GAL3/0.446
3vx4ATPPutative ABC transporter, ATP-binding protein ComA/0.446
4b63NAPL-ornithine N(5)-monooxygenase/0.446
4bfvZVVPantothenate kinase2.7.1.330.446
4djaFAD(6-4) photolyase/0.446
4eueNAITrans-2-enoyl-CoA reductase [NADH]/0.446
4i0i957Beta-secretase 13.4.23.460.446
1a9zUPGUDP-glucose 4-epimerase5.1.3.20.445
1ykfNAPNADP-dependent isopropanol dehydrogenase1.1.1.800.445
2gdzNAD15-hydroxyprostaglandin dehydrogenase [NAD(+)]1.1.1.1410.445
2h3wHC5Carnitine O-acetyltransferase2.3.1.70.445
2jahNDPClavaldehyde dehydrogenase/0.445
3d3wNAPL-xylulose reductase1.1.1.100.445
3vsxR32Renin3.4.23.150.445
4bftZVTPantothenate kinase2.7.1.330.445
4briUNPEctonucleoside triphosphate diphosphohydrolase I/0.445
4ef8FMNDihydroorotate dehydrogenase (fumarate)/0.445
4ge70K5Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.445
4gz612VUDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit/0.445
5c2tFADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial/0.445
5dw50T1Succinyl-CoA:acetate CoA-transferase/0.445
1me6IVSPlasmepsin-23.4.23.390.444
1tehNADAlcohol dehydrogenase class-31.1.1.10.444
2q2qNADBeta-D-hydroxybutyrate dehydrogenase/0.444
3atrFDAConserved Archaeal protein/0.444
3f63GTXGlutathione transferase GST1-4/0.444
3k4cFADPyranose 2-oxidase/0.444
3kb1ADPIron-sulfur cluster carrier protein/0.444
3r96ACOMccE protein/0.444
3rueNADUDP-N-acetylglucosamine 4-epimerase/0.444
3vdqNAD3-hydroxybutyrate dehydrogenase/0.444
4bcaFADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.444
4cvmANPUDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase/0.444
4hwkNAPSepiapterin reductase1.1.1.1530.444
4q71FADBifunctional protein PutA/0.444
5eb5FAD(R)-mandelonitrile lyase 14.1.2.100.444
1beuIPLTryptophan synthase alpha chain/0.443
1i7pFADNADH-cytochrome b5 reductase 31.6.2.20.443
1ipeNDPTropinone reductase 21.1.1.2360.443
1kbjFMNCytochrome b2, mitochondrial1.1.2.30.443
1szfFMNCytochrome b2, mitochondrial1.1.2.30.443
2pk3A2RGDP-6-deoxy-D-mannose reductase/0.443
2rcyNAPPyrroline-5-carboxylate reductase/0.443
3ieuGDPGTPase Era/0.443
3iqhTYR_ASP_ILECysteine synthase2.5.1.470.443
3iqiASN_GLU_ASN_ILECysteine synthase2.5.1.470.443
3ixp834Ecdysone receptor/0.443
4a8v2ANMajor pollen allergen Bet v 1-J/0.443
4dd8BATDisintegrin and metalloproteinase domain-containing protein 83.4.240.443
4df2FMNNADPH dehydrogenase/0.443
4eb5PLPCysteine desulfurase IscS 2/0.443
4i4b1CV3-hydroxy-3-methylglutaryl-coenzyme A reductase1.1.1.880.443
5dw60T1Succinyl-CoA:acetate CoA-transferase/0.443
5einNAP[LysW]-L-2-aminoadipate 6-phosphate reductase/0.443
5jscFADPutative acyl-CoA dehydrogenase/0.443
1dr2TAPDihydrofolate reductase1.5.1.30.442
1ia1NDPDihydrofolate reductase1.5.1.30.442
1kbiFMNCytochrome b2, mitochondrial1.1.2.30.442
1mjaCOAHistone acetyltransferase ESA1/0.442
1naiNADUDP-glucose 4-epimerase5.1.3.20.442
1oxoIK2Aspartate aminotransferase, mitochondrial2.6.1.10.442
2a1hGBNBranched-chain-amino-acid aminotransferase, mitochondrial2.6.1.420.442
2ejvNADL-threonine 3-dehydrogenase/0.442
2fy4COACholine O-acetyltransferase2.3.1.60.442
2hm1LIQBeta-secretase 13.4.23.460.442
3jv7NADSecondary alcohol dehydrogenase/0.442
3lqfNADGalactitol dehydrogenase/0.442
3lzxFADFerredoxin--NADP reductase 21.18.1.20.442
3ms421NGlycogen phosphorylase, muscle form2.4.1.10.442
3qlsNDPDihydrofolate reductase1.5.1.30.442
3uoyFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.442
4bkqNAIEnoyl-[acyl-carrier-protein] reductase [NADH]/0.442
4brgGNPEctonucleoside triphosphate diphosphohydrolase I/0.442
4ddhMS0Pantothenate synthetase6.3.2.10.442
4q0kGA3Phytohormone-binding protein/0.442
4w5kPLPAspartate aminotransferase, mitochondrial/0.442
4wda2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.442
1cs4FOKAdenylate cyclase type 2/0.441
1cs4FOKAdenylate cyclase type 5/0.441
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.441
1h60STRPentaerythritol tetranitrate reductase/0.441
2a5hSAML-lysine 2,3-aminomutase5.4.3.20.441
2dxiATPGlutamate--tRNA ligase6.1.1.170.441
2g21L1BRenin3.4.23.150.441
2ojtUBAGlutamate receptor ionotropic, kainate 1/0.441
2q1tNADPutative nucleotide sugar epimerase/ dehydratase/0.441
2q1wNADPutative nucleotide sugar epimerase/ dehydratase/0.441
2q2vNADBeta-D-hydroxybutyrate dehydrogenase/0.441
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.441
3o03NAPDehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase)/0.441
3r83Z14Cyclin-dependent kinase 22.7.11.220.441
3rucNADUDP-N-acetylglucosamine 4-epimerase/0.441
3vswR31Renin3.4.23.150.441
4bc7FADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.441
4tqgNDPPutative dTDP-d-glucose 4 6-dehydratase/0.441
4yagNAIC alpha-dehydrogenase/0.441
4yr9NADL-threonine 3-dehydrogenase, mitochondrial1.1.1.1030.441
5a8aADPRiboflavin biosynthesis protein RibF2.7.1.260.441
5b1yNDP3-oxoacyl-[acyl-carrier-protein] reductase/0.441
5irnADPNucleotide binding oligomerization domain containing 2/0.441
1e6wNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.440
1gcoNADGlucose 1-dehydrogenase1.1.1.470.440
1gsnFADGlutathione reductase, mitochondrial1.8.1.70.440
1i24UPGUDP-sulfoquinovose synthase, chloroplastic3.13.1.10.440
1kr2TADNicotinamide/nicotinic acid mononucleotide adenylyltransferase 12.7.7.10.440
1kt8ILPBranched-chain-amino-acid aminotransferase, mitochondrial2.6.1.420.440
2c29NAPDihydroflavonol 4-reductase/0.440
2z54AB1Gag-Pol polyprotein3.4.23.160.440
3ai2NDPNADPH-sorbose reductase/0.440
3jswJARHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440
3lpjZ75Beta-secretase 13.4.23.460.440
4b68NAPL-ornithine N(5)-monooxygenase/0.440
4dc1NDPPutative ketoacyl reductase1.3.10.440
4fj0NAP17beta-hydroxysteroid dehydrogenase/0.440
4l4xNDPAmphI/0.440
4m6jNDPDihydrofolate reductase1.5.1.30.440
4nd2A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.440
4xguADPPutative pachytene checkpoint protein 2/0.440