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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
4autFADDecaprenylphosphoryl-beta-D-ribose oxidase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4autFADDecaprenylphosphoryl-beta-D-ribose oxidase/1.000
4fdpFADDecaprenylphosphoryl-beta-D-ribose oxidase/0.528
4fehFADDecaprenylphosphoryl-beta-D-ribose oxidase/0.511
2x0rNADMalate dehydrogenase/0.500
1i24UPGUDP-sulfoquinovose synthase, chloroplastic3.13.1.10.491
1nvsUCMSerine/threonine-protein kinase Chk12.7.11.10.486
1ei1ANPDNA gyrase subunit B/0.480
1daaPLPD-alanine aminotransferase2.6.1.210.479
4gyy12VUDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit/0.478
3e39FMNNitroreductase/0.477
1rx1NAPDihydrofolate reductase1.5.1.30.475
2xveFADPutative flavin-containing monooxygenase/0.472
4n9iPCGCatabolite expression activator/0.471
3copADPGlycogen synthase2.4.1.210.470
1qrrUPGUDP-sulfoquinovose synthase, chloroplastic3.13.1.10.468
2a94AP0L-lactate dehydrogenase1.1.1.270.465
1icuFMNOxygen-insensitive NAD(P)H nitroreductase/0.463
3bi6396Wee1-like protein kinase2.7.10.20.463
3t8vBTJM1 family aminopeptidase3.4.110.463
4wh2ADPN-acetylhexosamine 1-kinase2.7.1.1620.463
4dieC5PCytidylate kinase/0.462
3owj1ELCasein kinase II subunit alpha2.7.11.10.461
1m78NDPDihydrofolate reductase1.5.1.30.460
2ch6ADPN-acetyl-D-glucosamine kinase2.7.1.590.460
2hunNAD336aa long hypothetical dTDP-glucose 4,6-dehydratase/0.460
2p5cSAHDiphthine synthase/0.460
4i02CMPcAMP-activated global transcriptional regulator CRP/0.460
2gjnFMNNitronate monooxygenase1.13.12.160.459
2nniMTKCytochrome P450 2C8/0.459
3nszANPCasein kinase II subunit alpha2.7.11.10.459
4jqlVJ6Heat shock protein HSP 90-alpha/0.459
1uaeUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.458
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.458
2ed5SAHDiphthine synthase/0.458
3swqEPUUDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.458
4xgxADPFAD:protein FMN transferase/0.458
1a2nTETUDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.457
1j39UPGDNA beta-glucosyltransferase/0.457
2vprTDCTetracycline repressor protein class H/0.457
2ylrNAPPhenylacetone monooxygenase1.14.13.920.457
2zseACPPantothenate kinase2.7.1.330.457
3lsiFADPyranose 2-oxidase/0.457
3phiNDPShikimate dehydrogenase (NADP(+))/0.457
3t2sAGSHeat shock protein HSP 90-alpha/0.457
4ef8FMNDihydroorotate dehydrogenase (fumarate)/0.457
4egh0OYHeat shock protein HSP 90-alpha/0.457
4qzuRTLRetinol-binding protein 2/0.457
1jedADPSulfate adenylyltransferase/0.456
3mjhGTPRas-related protein Rab-5A/0.456
3p62FMNPentaerythritol tetranitrate reductase/0.456
4duhRLIDNA gyrase subunit B/0.456
5fkoTDCTetracycline repressor protein class D/0.456
1fmjRTLRetinol dehydratase/0.455
1nzfUPGDNA beta-glucosyltransferase/0.455
2ooyATP5'-AMP-activated protein kinase subunit gamma/0.455
2p9gNAID-3-phosphoglycerate dehydrogenase1.1.1.950.455
2vkvTDCTetracycline repressor protein class D/0.455
3mpiFADGlutaryl-CoA dehydrogenase1.3.99.320.455
3o0qADNVitamin B12-dependent ribonucleotide reductase/0.455
3tkiS25Serine/threonine-protein kinase Chk12.7.11.10.455
4d03NAPPhenylacetone monooxygenase1.14.13.920.455
1h6cNDPGlucose--fructose oxidoreductase1.1.99.280.454
1h6dNDPGlucose--fructose oxidoreductase1.1.99.280.454
4wudANPDNA gyrase subunit B/0.454
4y9lFADAcyl-CoA dehydrogenase family member 11/0.454
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.454
1i2cUPGUDP-sulfoquinovose synthase, chloroplastic3.13.1.10.453
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.453
2e8hSAHDiphthine synthase/0.453
2ejkSAHDiphthine synthase/0.453
2r2nKYNKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.453
2v1aFMNNPH1-1/0.453
3fr8NDPKetol-acid reductoisomerase, chloroplastic1.1.1.860.453
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.453
2g8yNADHydroxycarboxylate dehydrogenase B/0.452
2v59LZKBiotin carboxylase6.3.4.140.452
2xgs44PUncharacterized protein/0.452
2yvwEPUUDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.452
3upkUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.452
4e07ACPPlasmid partitioning protein ParF/0.452
4h2nFAD2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase/0.452
4wh3ATPN-acetylhexosamine 1-kinase2.7.1.1620.452
5ccyTMPPolymerase acidic protein/0.452
5kgpACOPredicted acetyltransferase/0.452
1t9gFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.451
2gtnLIEMitogen-activated protein kinase 14/0.451
2w9hTOPDihydrofolate reductase1.5.1.30.451
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.451
3h06VBPGlutamate receptor 2/0.451
4bfxZVXPantothenate kinase2.7.1.330.451
4prxADPDNA gyrase subunit B/0.451
4ycpFMNtRNA-dihydrouridine(16) synthase/0.451
5uviZMAAdenosine receptor A2a/0.451
1kc1NDPdTDP-4-dehydrorhamnose reductase1.1.1.1330.450
2dv5SAHDiphthine synthase/0.450
2eglSAHDiphthine synthase/0.450
3hx4ANPCalmodulin-domain protein kinase 1/0.450
2e08SAHDiphthine synthase/0.449
2e8qSAHDiphthine synthase/0.449
2gjlFMNNitronate monooxygenase1.13.12.160.449
2qujTYMTryptophan--tRNA ligase, cytoplasmic6.1.1.20.449
2z6cFMNPhototropin-12.7.11.10.449
4s26SAHPhosphomethylpyrimidine synthase, chloroplastic4.1.99.170.449
4xyeNADFormate dehydrogenase/0.449
5c6cCMPcGMP-dependent protein kinase 22.7.11.120.449
5k2aZMAAdenosine receptor A2a/0.449
2abbFMNPentaerythritol tetranitrate reductase/0.448
2qo4CHDFatty acid-binding protein 10-A, liver basic/0.448
2wu4HBPAcetylcholinesterase3.1.1.70.448
3i0pNADMalate dehydrogenase, putative/0.448
3kjsNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.448
3sufSUEPolyprotein/0.448
1drhNAPDihydrofolate reductase1.5.1.30.447
1fyfSSAThreonine--tRNA ligase6.1.1.30.447
2d29FADAcyl-CoA dehydrogenase/0.447
3clsFADElectron transfer flavoprotein subunit alpha/0.447
3o0o5ADVitamin B12-dependent ribonucleotide reductase/0.447
3oibFDAPutative acyl-CoA dehydrogenase/0.447
4f5yC2EStimulator of interferon genes protein/0.447
4h8nNDPNADPH-dependent conjugated polyketone reductase C2/0.447
4i0s1B5Tyrosine-protein kinase SYK2.7.10.20.447
1i59ANPChemotaxis protein CheA2.7.13.30.446
1nvrSTUSerine/threonine-protein kinase Chk12.7.11.10.446
2ejjSAHDiphthine synthase/0.446
2vbdV10Isopenicillin N synthase1.21.3.10.446
3rqqBA3ADP-dependent (S)-NAD(P)H-hydrate dehydratase/0.446
1bk0ACVIsopenicillin N synthase1.21.3.10.445
1r6uTYMTryptophan--tRNA ligase, cytoplasmic6.1.1.20.445
2d4vNADIsocitrate dehydrogenase [NADP]/0.445
2iviACWIsopenicillin N synthase1.21.3.10.445
2p8uCOAHydroxymethylglutaryl-CoA synthase, cytoplasmic2.3.3.100.445
2z4sADPChromosomal replication initiator protein DnaA/0.445
3pxyJWSCyclin-dependent kinase 22.7.11.220.445
3qlrNDPDihydrofolate reductase1.5.1.30.445
3uylTYDProbable NDP-rhamnosyltransferase/0.445
5k2bZMAAdenosine receptor A2a/0.445
1goxFMNPeroxisomal (S)-2-hydroxy-acid oxidase1.1.3.150.444
1gzuNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 12.7.7.10.444
1mezGDPAdenylosuccinate synthetase isozyme 1/0.444
1thnADPAnti-sigma F factor/0.444
2ej2PPEBranched-chain amino acid aminotransferase (IlvE)/0.444
2jn3JN3Fatty acid-binding protein, liver/0.444
2oorNADNAD(P) transhydrogenase subunit alpha part 11.6.1.20.444
2p6kSAHDiphthine synthase/0.444
2x7hPFNProstaglandin reductase 310.444
3invNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.444
3jv7NADSecondary alcohol dehydrogenase/0.444
3uicNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.444
4g0k0VSGlutathionyl-hydroquinone reductase YqjG1.80.444
5c1mCLRMu-type opioid receptor/0.444
1a9zUPGUDP-glucose 4-epimerase5.1.3.20.443
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.443
1g4tFTPThiamine-phosphate synthase/0.443
2i5bADPPyridoxine kinase/0.443
2ix5FADAcyl-coenzyme A oxidase 4, peroxisomal1.3.3.60.443
2owuSAHDiphthine synthase/0.443
2pb4SAHDiphthine synthase/0.443
2qo9ANPEphrin type-A receptor 32.7.10.10.443
2x8iX8ISerine/threonine-protein kinase Chk12.7.11.10.443
2zshGA3Gibberellin receptor GID1A30.443
3ecg065Gag-Pol polyprotein3.4.23.470.443
3sf6FDAGlutaryl-CoA dehydrogenase/0.443
4c3f7KWTyrosine-protein kinase Lck2.7.10.20.443
4dbzNDPPutative ketoacyl reductase1.3.10.443
4df2FMNNADPH dehydrogenase/0.443
4feu537Aminoglycoside 3'-phosphotransferase AphA1-IAB/0.443
4gz612VUDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit/0.443
4nesUD1UDP-N-acetylglucosamine 2-epimerase5.1.3.140.443
4rr6A3SProbable threonine--tRNA ligase 26.1.1.30.443
1dorFMNDihydroorotate dehydrogenase A (fumarate)1.3.98.10.442
1gqtACPRibokinase/0.442
2bsmBSMHeat shock protein HSP 90-alpha/0.442
2ehlSAHDiphthine synthase/0.442
2gmjFADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial1.5.5.10.442
2huxSAHDiphthine synthase/0.442
2j3jHC4NADPH-dependent oxidoreductase 2-alkenal reductase1.3.1.740.442
1y0s331Peroxisome proliferator-activated receptor delta/0.441
1zrzBI1Protein kinase C iota type2.7.11.130.441
2py7ATPPhosphoenolpyruvate carboxykinase (ATP)/0.441
2qo7ANPEphrin type-A receptor 32.7.10.10.441
2zdyADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.441
3kjrNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.441
4is3NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 21.17.98.10.441
4u0oMTALipoyl synthase 2/0.441
1lf3EH5Plasmepsin-23.4.23.390.440
1nvqUCNSerine/threonine-protein kinase Chk12.7.11.10.440
2c9bPUG6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.440
2dxvSAHDiphthine synthase/0.440
2e0aANP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.440
2fznFADBifunctional protein PutA1.5.5.20.440
2hckQUETyrosine-protein kinase HCK2.7.10.20.440
2xlsFADPutative flavin-containing monooxygenase/0.440
2yneYNEGlycylpeptide N-tetradecanoyltransferase/0.440
2yy2IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440
2zkjADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.440
3d4pNADL-lactate dehydrogenase 11.1.1.270.440
3djjFADGlutathione reductase, mitochondrial1.8.1.70.440
3dylPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440
3f3sNADLambda-crystallin homolog/0.440
3otwCOAPhosphopantetheine adenylyltransferase/0.440
4j5j478Gag-Pol polyprotein3.4.23.160.440
4k28NADShikimate dehydrogenase family protein/0.440
5k2cZMAAdenosine receptor A2a/0.440