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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
4e5mNAPPhosphonate dehydrogenase1.20.1.1

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
4e5mNAPPhosphonate dehydrogenase1.20.1.11.000
4nu5NADPhosphonate dehydrogenase1.20.1.10.646
4e5kNADPhosphonate dehydrogenase1.20.1.10.590
4e5nNADPhosphonate dehydrogenase1.20.1.10.579
4nu6NADPhosphonate dehydrogenase1.20.1.10.555
4weqNAPNAD-dependent dehydrogenase/0.513
2w2lNADD-mandelate dehydrogenase/0.512
2dbzNAPGlyoxylate reductase1.1.1.260.509
5bqfNAPProbable hydroxyacid dehydrogenase protein/0.508
2g5cNADPrephenate dehydrogenase/0.505
2dbqNAPGlyoxylate reductase1.1.1.260.501
2hu2NADC-terminal binding protein 1/0.500
3kb6NADD-lactate dehydrogenase/0.500
4z0pNDPNAD-dependent dehydrogenase/0.500
2g76NADD-3-phosphoglycerate dehydrogenase1.1.1.950.499
1g4tFTPThiamine-phosphate synthase/0.498
3frqERYErythromycin resistance repressor protein/0.493
3iaeD7KBenzaldehyde lyase/0.492
3bazNAPHydroxyphenylpyruvate reductase1.1.1.2370.491
1dxyNADD-2-hydroxyisocaproate dehydrogenase1.1.10.484
3flwFLWMitogen-activated protein kinase 14/0.482
2gmhFADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial1.5.5.10.481
5kjcNAJAlcohol dehydrogenase E chain1.1.1.10.481
1hkuNADC-terminal-binding protein 11.1.10.480
1osvCHCBile acid receptor/0.479
4ipw1G7Mycocyclosin synthase1.14.21.90.479
1g67TZPThiamine-phosphate synthase/0.478
2wsbNADGalactitol dehydrogenase/0.477
3d7kD7KBenzaldehyde lyase/0.474
3oq6NAJAlcohol dehydrogenase E chain1.1.1.10.474
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.474
5kj6NAJAlcohol dehydrogenase E chain1.1.1.10.474
2ignFADPyranose 2-oxidase/0.473
5fs7FADApoptosis-inducing factor 1, mitochondrial1.1.10.473
3s55NADPutative short-chain dehydrogenase/reductase/0.472
3vspEK8Peroxisome proliferator-activated receptor gamma/0.472
4fc7NAPPeroxisomal 2,4-dienoyl-CoA reductase1.3.1.340.472
4lcjNADC-terminal-binding protein 2/0.471
1x7hNDPPutative ketoacyl reductase1.3.10.470
2ft9CHDFatty acid-binding protein 2, liver/0.470
2i4zDRHPeroxisome proliferator-activated receptor gamma/0.470
4dxhNAJAlcohol dehydrogenase E chain1.1.1.10.470
5kcpNAJAlcohol dehydrogenase E chain1.1.1.10.470
5kjeNAJAlcohol dehydrogenase E chain1.1.1.10.470
4xd2NAIAlcohol dehydrogenase E chain1.1.1.10.469
4fw8NAI3-oxoacyl-(Acyl-carrier-protein) reductase/0.468
4uwmFMN3,6-diketocamphane 1,6 monooxygenase1.14.130.468
4dbzNDPPutative ketoacyl reductase1.3.10.467
4ips1G4Mycocyclosin synthase1.14.21.90.466
4nfsNAJAlcohol dehydrogenase E chain1.1.1.10.466
1zemNADXylitol dehydrogenase/0.465
3a783EVVitamin D3 receptor/0.465
3vt8YI3Vitamin D3 receptor/0.465
1wwkNAD307aa long hypothetical phosphoglycerate dehydrogenase/0.464
2ii4COALipoamide acyltransferase component of branched-chain alpha-keto acid dehydrogenase complex, mitochondrial2.3.1.1680.464
3lpiZ74Beta-secretase 13.4.23.460.464
4rlsNAIL-lactate dehydrogenase A chain1.1.1.270.464
5idwNAPShort-chain dehydrogenase/reductase SDR/0.464
2c29NAPDihydroflavonol 4-reductase/0.463
2i4jDRJPeroxisome proliferator-activated receptor gamma/0.463
2x7hPFNProstaglandin reductase 310.463
3d8bADPFidgetin-like protein 13.6.40.463
3q43D66M1 family aminopeptidase3.4.110.463
4wa9AXITyrosine-protein kinase ABL12.7.10.20.463
2rbeNDPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.462
4qi5FADCellobiose dehydrogenase/0.462
2i3gNAPN-acetyl-gamma-glutamyl-phosphate reductase1.2.1.380.461
3uqdATPATP-dependent 6-phosphofructokinase isozyme 22.7.1.110.461
4q73FADBifunctional protein PutA/0.461
4xldBRLPeroxisome proliferator-activated receptor gamma/0.461
2gcgNDPGlyoxylate reductase/hydroxypyruvate reductase1.1.1.790.460
2tpsTPSThiamine-phosphate synthase/0.460
3g49NAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.460
4l8u9AZSerum albumin/0.460
4qi4FADCellobiose dehydrogenase/0.460
2wdzNADGalactitol dehydrogenase/0.459
3r95ACOMccE protein/0.459
3v9y24LPeroxisome proliferator-activated receptor gamma/0.459
4dc0NDPPutative ketoacyl reductase1.3.10.459
4gz612VUDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit/0.459
5jlaNADPutative short-chain dehydrogenase/reductase/0.459
5kjfNAJAlcohol dehydrogenase E chain1.1.1.10.459
1lsjNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.458
1pr9NAPL-xylulose reductase1.1.1.100.458
1xq6NAPUncharacterized protein At5g02240/0.458
2cmjNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.458
3kjsNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.458
1culFOKAdenylate cyclase type 2/0.457
1culFOKAdenylate cyclase type 5/0.457
3gy0NAPNAD(P)-dependent oxidoreductase/0.457
3vt9YI4Vitamin D3 receptor/0.457
3w8wFADPutative FAD-dependent oxygenase EncM/0.457
4d89BXDBeta-secretase 13.4.23.460.457
4njoNADD-3-phosphoglycerate dehydrogenase, putative/0.457
5j23A2RPutative 2-hydroxyacid dehydrogenase/0.457
2pk3A2RGDP-6-deoxy-D-mannose reductase/0.456
3b6zCO7Enoyl reductase LovC10.456
3cukFADD-amino-acid oxidase1.4.3.30.456
3sz0FADSulfide-quinone reductase/0.456
4g1z0VPVitamin D3 receptor A/0.456
4q72FADBifunctional protein PutA/0.456
1dhrNADDihydropteridine reductase1.5.1.340.455
2nrySTUInterleukin-1 receptor-associated kinase 42.7.11.10.455
1qorNDPQuinone oxidoreductase 1/0.454
2dteNAIGlucose 1-dehydrogenase related protein/0.454
2gjlFMNNitronate monooxygenase1.13.12.160.454
2hdhNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.454
2nnlNAPDihydroflavonol 4-reductase1.1.1.2190.454
2npaMMBPeroxisome proliferator-activated receptor alpha/0.454
2pa3NAID-3-phosphoglycerate dehydrogenase1.1.1.950.454
3dheANDEstradiol 17-beta-dehydrogenase 11.1.1.620.454
3gyuDL7Nuclear hormone receptor of the steroid/thyroid hormone receptors superfamily/0.454
3rj5NADAlcohol dehydrogenase1.1.1.10.454
3uylTYDProbable NDP-rhamnosyltransferase/0.454
4nmdFDABifunctional protein PutA/0.454
4q71FADBifunctional protein PutA/0.454
4z44FADFlavin-dependent tryptophan halogenase PrnA1.14.19.90.454
2bd0NAPSepiapterin reductase/0.453
3lpjZ75Beta-secretase 13.4.23.460.453
3lqfNADGalactitol dehydrogenase/0.453
1nboNADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic1.2.1.130.452
1psdNADD-3-phosphoglycerate dehydrogenase1.1.1.950.452
1szmBI4cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.452
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.452
2givACOHistone acetyltransferase KAT8/0.452
2pmdGNPTranslation initiation factor 2 subunit gamma/0.452
3iahNAPPutative oxoacyl-(Acyl carrier protein) reductase/0.452
4jdrFADDihydrolipoyl dehydrogenase1.8.1.40.452
5ez7FADProbable FAD-dependent oxidoreductase PA4991/0.452
1hetNADAlcohol dehydrogenase E chain1.1.1.10.451
1x7gNAPPutative ketoacyl reductase1.3.10.451
2jkvNAP6-phosphogluconate dehydrogenase, decarboxylating1.1.1.440.451
2q4bNAPUncharacterized protein At5g02240/0.451
3kybFADUDP-galactopyranose mutase5.4.99.90.451
3qrwNDPPutative ketoacyl reductase1.3.10.451
4fjz4FJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.451
4rupH97Vitamin D3 receptor A/0.451
1h66FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.450
1heuNADAlcohol dehydrogenase E chain1.1.1.10.450
1ie8KH1Vitamin D3 receptor/0.450
1qvnFRIInterleukin-2/0.450
1s19MC9Vitamin D3 receptor/0.450
2zb3NDPProstaglandin reductase 21.3.1.480.450
3nxxNDPDihydrofolate reductase1.5.1.30.450
3uqdADPATP-dependent 6-phosphofructokinase isozyme 22.7.1.110.450
4i6gFADCryptochrome-2/0.450
4lisNADUDP-glucose 4-epimerase (Eurofung)/0.450
4wjiNAPPutative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase/0.450
5af7FADAcyl-CoA dehydrogenase/0.450
5dbgNADIridoid synthase1.3.1.990.450
1rx1NAPDihydrofolate reductase1.5.1.30.449
2aa3AP0L-lactate dehydrogenase/0.449
2bfqAR6[Protein ADP-ribosylglutamate] hydrolase AF_15213.2.20.449
2ch6ADPN-acetyl-D-glucosamine kinase2.7.1.590.449
2igoFADPyranose 2-oxidase/0.449
2qo9ANPEphrin type-A receptor 32.7.10.10.449
2zatNAPDehydrogenase/reductase SDR family member 41.1.1.1840.449
3dm6757Beta-secretase 13.4.23.460.449
4hp8NAP2-deoxy-D-gluconate 3-dehydrogenase/0.449
5kj1NAJAlcohol dehydrogenase E chain1.1.1.10.449
1geeNADGlucose 1-dehydrogenase1.1.1.470.448
1h69FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.448
2fdpFRPBeta-secretase 13.4.23.460.448
2om9AJAPeroxisome proliferator-activated receptor gamma/0.448
3a1l2CCCytochrome P450/0.448
3abiNADUncharacterized protein/0.448
3gyiFADCholesterol oxidase1.1.3.60.448
3lpkZ76Beta-secretase 13.4.23.460.448
3p2eSAH16S rRNA (adenine(1408)-N(1))-methyltransferase2.1.1.1800.448
4bcrWY1Peroxisome proliferator-activated receptor alpha/0.448
4h8004TAldehyde dehydrogenase, dimeric NADP-preferring/0.448
1g1aNADdTDP-glucose 4,6-dehydratase/0.447
1jmhUMPThymidylate synthase/0.447
1rjkVDZVitamin D3 receptor/0.447
2b4yAPRNAD-dependent protein deacylase sirtuin-5, mitochondrial/0.447
2bpoNAPNADPH--cytochrome P450 reductase/0.447
2ev9NAPShikimate dehydrogenase (NADP(+))/0.447
2g1s4IGRenin3.4.23.150.447
2pr2DG1Enoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.447
2rkvZBATrichothecene 3-O-acetyltransferase/0.447
2vprTDCTetracycline repressor protein class H/0.447
2yy7NADL-threonine dehydrogenase/0.447
3da1FADGlycerol-3-phosphate dehydrogenase/0.447
3ggoNAIPrephenate dehydrogenase/0.447
3sx2NADUncharacterized protein/0.447
3toxNAPPutative oxidoreductase/0.447
4aa5NQBMitogen-activated protein kinase 14/0.447
4ftkH9KSerine/threonine-protein kinase Chk12.7.11.10.447
4mihFADPyranose 2-oxidase1.1.3.100.447
4qi7FADCellobiose dehydrogenase/0.447
5cdgNAJAlcohol dehydrogenase E chain1.1.1.10.447
5dcyNAPIridoid synthase1.3.1.990.447
1b15NAEAlcohol dehydrogenase1.1.1.10.446
1fdtESTEstradiol 17-beta-dehydrogenase 11.1.1.620.446
1g69TZPThiamine-phosphate synthase/0.446
1j4jACOAcetyltransferase2.3.10.446
1qlhNADAlcohol dehydrogenase E chain1.1.1.10.446
2ekpNAD2-deoxy-D-gluconate 3-dehydrogenase/0.446
2g8aUMPThymidylate synthase/0.446
2hcdBIVVitamin D3 receptor A/0.446
2iviACWIsopenicillin N synthase1.21.3.10.446
2xhd7T9Glutamate receptor 2/0.446
2y0mACOHistone acetyltransferase KAT8/0.446
2ylxFADPhenylacetone monooxygenase1.14.13.920.446
3mpjFADGlutaryl-CoA dehydrogenase1.3.99.320.446
3qbhQBHBeta-secretase 13.4.23.460.446
3rj9NADAlcohol dehydrogenase1.1.1.10.446
3ruhNADUDP-N-acetylglucosamine 4-epimerase/0.446
3t14FADSulfide-quinone reductase/0.446
1b14NADAlcohol dehydrogenase1.1.1.10.445
1ipeNDPTropinone reductase 21.1.1.2360.445
1mg5NAIAlcohol dehydrogenase1.1.1.10.445
2w06FRVCyclin-dependent kinase 22.7.11.220.445
3invNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.445
3stv3HOMethylketone synthase I/0.445
3vrwYS5Vitamin D3 receptor/0.445
3vt7VDXVitamin D3 receptor/0.445
3w0gW07Vitamin D3 receptor/0.445
4enhFVXCholesterol 24-hydroxylase/0.445
4xnw2IDP2Y purinoceptor 1/0.445
1f4fTP3Thymidylate synthase/0.444
1i3lNADUDP-glucose 4-epimerase/0.444
1ia1NDPDihydrofolate reductase1.5.1.30.444
1jq5NADGlycerol dehydrogenase1.1.1.60.444
1w4zNAPPutative ketoacyl reductase1.3.10.444
2cduFADNADH oxidase/0.444
2gdzNAD15-hydroxyprostaglandin dehydrogenase [NAD(+)]1.1.1.1410.444
3cid318Beta-secretase 13.4.23.460.444
3nga3NGCasein kinase II subunit alpha2.7.11.10.444
3o26NDPSalutaridine reductase/0.444
3oibFDAPutative acyl-CoA dehydrogenase/0.444
3q71AR6Poly [ADP-ribose] polymerase 142.4.2.300.444
3qlsNDPDihydrofolate reductase1.5.1.30.444
3qwbNDPProbable quinone oxidoreductase1.6.5.50.444
4kwhNAPReductase homolog/0.444
4ure1PSCyclohexanol dehydrogenase/0.444
5b1yNDP3-oxoacyl-[acyl-carrier-protein] reductase/0.444
5emhNAPIridoid synthase1.3.1.990.444
5eoxADPType 4 fimbrial biogenesis protein PilM/0.444
1dgmADNAdenosine kinase2.7.1.200.443
1nahNADUDP-glucose 4-epimerase5.1.3.20.443
1nzfUPGDNA beta-glucosyltransferase/0.443
2x0iNAIMalate dehydrogenase/0.443
3hz5Z64Heat shock protein HSP 90-alpha/0.443
3lsiFADPyranose 2-oxidase/0.443
3mzhCMPCRP-like cAMP-activated global transcriptional regulator/0.443
3nmpPYVAbscisic acid receptor PYL2/0.443
1bw9NADPhenylalanine dehydrogenase/0.442
1dnpFADDeoxyribodipyrimidine photo-lyase4.1.99.30.442
1jioDEB6-deoxyerythronolide B hydroxylase/0.442
1qrpHH0Pepsin A-43.4.23.10.442
1reqDCAMethylmalonyl-CoA mutase large subunit5.4.99.20.442
1vl8NAPOxidoreductase, short chain dehydrogenase/reductase family/0.442
1w48APCNTPase P4/0.442
1xddAAYIntegrin alpha-L/0.442
2bfrADP[Protein ADP-ribosylglutamate] hydrolase AF_15213.2.20.442
2c54NADGDP-mannose 3,5-epimerase5.1.3.180.442
2wyvNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.442
3p62FMNPentaerythritol tetranitrate reductase/0.442
3w0hW12Vitamin D3 receptor/0.442
4anuEM7Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
4ewn0VRImidazole glycerol phosphate synthase subunit HisF4.1.30.442
4fd2ADPChaperone protein ClpB/0.442
4jbiNDPAlcohol dehydrogenase (Zinc)/0.442
4oxyNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.442
4tuvCPZCytochrome P450 1191.140.442
5c8wPCGcGMP-dependent protein kinase 22.7.11.120.442
1dxoFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.441
1e3eNAIAlcohol dehydrogenase 41.1.1.10.441
1g0nNDPTetrahydroxynaphthalene reductase1.1.1.2520.441
1hb1OCVIsopenicillin N synthase1.21.3.10.441
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.441
1owmFADDeoxyribodipyrimidine photo-lyase4.1.99.30.441
1t2cNAIL-lactate dehydrogenase1.1.1.270.441
2c1bCQPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.441
2ou2ACOHistone acetyltransferase KAT5/0.441
3cz7ACOHistone acetyltransferase RTT1092.3.1.480.441
3uxyNADShort-chain dehydrogenase/reductase SDR/0.441
4a83DXCMajor pollen allergen Bet v 1-A/0.441
4bcaFADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.441
4bfyZVYPantothenate kinase2.7.1.330.441
4fsqHK3Serine/threonine-protein kinase Chk12.7.11.10.441
4hwkNAPSepiapterin reductase1.1.1.1530.441
4kqrVPPPeptidoglycan D,D-transpeptidase FtsI/0.441
1mj9COAHistone acetyltransferase ESA1/0.440
1mp0NADAlcohol dehydrogenase class-31.1.1.10.440
1yb5NAPQuinone oxidoreductase1.6.5.50.440
2bu9HFVIsopenicillin N synthase1.21.3.10.440
2favAPRNonstructural polyprotein pp1a/0.440
2jn3JN3Fatty acid-binding protein, liver/0.440
2p4j23IBeta-secretase 13.4.23.460.440
3dj4UD1Bifunctional protein GlmU/0.440
3kjrNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.440
4iqgNAPShort-chain dehydrogenase/reductase SDR/0.440
4rrvATP3-phosphoinositide-dependent protein kinase 12.7.11.10.440
3sn6P0GBeta-2 adrenergic receptor/0.440