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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
4kovKOVUncharacterized protein

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4kovKOVUncharacterized protein/1.000
4kotCE3Uncharacterized protein/0.736
4koxCLSUncharacterized protein/0.713
4koyCSCUncharacterized protein/0.703
4kos4KOUncharacterized protein/0.665
4kowCFXUncharacterized protein/0.629
4kouC04Uncharacterized protein/0.584
4klvKLVUncharacterized protein/0.533
3zbrNAP2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.503
3up4FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.494
2vbdV10Isopenicillin N synthase1.21.3.10.488
4bfvZVVPantothenate kinase2.7.1.330.480
4ge70K5Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.480
4ap3FADSteroid monooxygenase/0.476
1obnASVIsopenicillin N synthase1.21.3.10.475
2rgoFADAlpha-Glycerophosphate Oxidase/0.475
3qwbNDPProbable quinone oxidoreductase1.6.5.50.475
4ktoFADPutative isovaleryl-CoA dehydrogenase protein/0.475
2jb4A14Isopenicillin N synthase1.21.3.10.474
4bfzZVZPantothenate kinase2.7.1.330.474
4wda2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.474
3q43D66M1 family aminopeptidase3.4.110.473
4geb0LDKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.473
1ot7IU5Bile acid receptor/0.472
1pqc444Oxysterols receptor LXR-beta/0.472
1dr2TAPDihydrofolate reductase1.5.1.30.471
4ge90L0Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.471
1ma0NADAlcohol dehydrogenase class-31.1.1.10.470
1piwNAPNADP-dependent alcohol dehydrogenase 61.1.1.20.469
1hb1OCVIsopenicillin N synthase1.21.3.10.468
3gqvNAPEnoyl reductase LovC10.468
4ambDUDPutative glycosyl transferase/0.468
4dc0NDPPutative ketoacyl reductase1.3.10.468
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.468
2a4nCOAAac(6')-Ii protein/0.467
2jkvNAP6-phosphogluconate dehydrogenase, decarboxylating1.1.1.440.467
3af1GDPPantothenate kinase2.7.1.330.467
4b79NADProbable short-chain dehydrogenase/0.467
4ipw1G7Mycocyclosin synthase1.14.21.90.467
1ndhFADNADH-cytochrome b5 reductase 31.6.2.20.466
4opgFDAConserved Archaeal protein/0.466
4kbyC2EStimulator of interferon genes protein/0.465
4a81DXCMajor pollen allergen Bet v 1-A/0.464
1w6hTITPlasmepsin-23.4.23.390.463
2wp9CBESuccinate dehydrogenase iron-sulfur subunit1.3.5.10.463
2wp9CBESuccinate dehydrogenase cytochrome b556 subunit/0.463
3zoiM2WIsopenicillin N synthase1.21.3.10.463
1osvCHCBile acid receptor/0.462
1x1aSAMC-20 methyltransferase/0.462
4dxhNAJAlcohol dehydrogenase E chain1.1.1.10.462
4kcfAKMFAD-dependent oxidoreductase/0.462
5ahsFADAcyl-CoA dehydrogenase/0.462
1qorNDPQuinone oxidoreductase 1/0.461
2q1sNAIPutative nucleotide sugar epimerase/ dehydratase/0.461
4kc4WS3Histo-blood group ABO system transferase/0.461
4nbtNAD3-oxoacyl-[acyl-carrier-protein] reductase/0.461
1n95HFPProtein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha/0.460
1n95HFPProtein farnesyltransferase subunit beta2.5.1.580.460
3f63GTXGlutathione transferase GST1-4/0.460
5jscFADPutative acyl-CoA dehydrogenase/0.460
1ve3SAMUncharacterized protein/0.459
2b37NADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.459
2ed4NAD4-hydroxyphenylacetate 3-monooxygenase reductase component1.5.1.360.459
4i421HA1,4-dihydroxy-2-naphthoyl-CoA synthase/0.459
5jjrSAHGenome polyprotein/0.459
1i7pFADNADH-cytochrome b5 reductase 31.6.2.20.458
2iviACWIsopenicillin N synthase1.21.3.10.458
2w3bNDPDihydrofolate reductase1.5.1.30.458
4ctjSAMGenome polyprotein/0.458
4ri1ACOUDP-4-amino-4,6-dideoxy-N-acetyl-beta-L-altrosamine N-acetyltransferase2.3.1.2020.458
2y60M8FIsopenicillin N synthase1.21.3.10.457
3gwfNAPCyclohexanone monooxygenase/0.457
4hp8NAP2-deoxy-D-gluconate 3-dehydrogenase/0.457
4wdgA2P2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.457
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.456
3b70NAPEnoyl reductase LovC10.456
3eksCY9Actin-5C/0.456
5irnADPNucleotide binding oligomerization domain containing 2/0.456
1nbiSAMGlycine N-methyltransferase2.1.1.200.455
3te5NAI5'-AMP-activated protein kinase subunit gamma/0.455
5hwqCAAHydroxymethylglutaryl-CoA synthase/0.455
1rx1NAPDihydrofolate reductase1.5.1.30.454
1u1gBBBUridine phosphorylase2.4.2.30.454
2fn7NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.454
2ii4COALipoamide acyltransferase component of branched-chain alpha-keto acid dehydrogenase complex, mitochondrial2.3.1.1680.454
3x2fNAIAdenosylhomocysteinase/0.454
3zw9NADPeroxisomal bifunctional enzyme1.1.1.350.454
5e5h0T1Succinyl-CoA:acetate CoA-transferase/0.454
1adfTADAlcohol dehydrogenase E chain1.1.1.10.453
1rx0FADIsobutyryl-CoA dehydrogenase, mitochondrial1.3.990.453
3dheANDEstradiol 17-beta-dehydrogenase 11.1.1.620.453
3uoyFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.453
4bftZVTPantothenate kinase2.7.1.330.453
1gthFADDihydropyrimidine dehydrogenase [NADP(+)]1.3.1.20.452
1hb3SCVIsopenicillin N synthase1.21.3.10.452
1t2aNDPGDP-mannose 4,6 dehydratase4.2.1.470.452
2f7x4EAcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.452
3atzFMNProstaglandin F2a synthase/0.452
3phiNDPShikimate dehydrogenase (NADP(+))/0.452
3uovFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.452
4b4dFADFerredoxin-NADP reductase/0.452
4fk8FADFerredoxin--NADP reductase/0.452
4i4z2NE1,4-dihydroxy-2-naphthoyl-CoA synthase/0.452
4zjuNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.452
1guyNADMalate dehydrogenase/0.451
1rd4L08Integrin alpha-L/0.451
2bgiFADNADPH:ferredoxin reductase/0.451
2bgjFADNADPH:ferredoxin reductase/0.451
2fj1CTCTetracycline repressor protein class D/0.451
2vbpVB1Isopenicillin N synthase1.21.3.10.451
3lqsPSZD-alanine aminotransferase2.6.1.210.451
4yswFADXanthine dehydrogenase/oxidase/0.451
1a4rGNHCell division control protein 42 homolog/0.450
1qiqACCIsopenicillin N synthase1.21.3.10.450
1xddAAYIntegrin alpha-L/0.450
1xl8152Peroxisomal carnitine O-octanoyltransferase2.3.1.1370.450
1xseNDPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.450
2hu2NADC-terminal binding protein 1/0.450
2y8lADP5'-AMP-activated protein kinase subunit gamma-1/0.450
3lqfNADGalactitol dehydrogenase/0.450
3u9fCLMChloramphenicol acetyltransferase2.3.1.280.450
4gl4NAIAlcohol dehydrogenase class-3/0.450
4m55NADUDP-glucuronic acid decarboxylase 14.1.1.350.450
4nbwNADShort-chain dehydrogenase/reductase SDR/0.450
1hdcCBO3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.449
1hetNADAlcohol dehydrogenase E chain1.1.1.10.449
1kp3ATPArgininosuccinate synthase6.3.4.50.449
1n83CLRNuclear receptor ROR-alpha/0.449
1yreCOAUncharacterized protein/0.449
2x8gFADThioredoxin glutathione reductase/0.449
3em0CHDFatty acid-binding protein 6, ileal (gastrotropin)/0.449
3iocA5DPantothenate synthetase6.3.2.10.449
3m6pBB2Peptide deformylase 1B, chloroplastic/mitochondrial3.5.1.880.449
4a83DXCMajor pollen allergen Bet v 1-A/0.449
4eu5COASuccinyl-CoA:acetate CoA-transferase/0.449
4ntdFADThioredoxin reductase/0.449
1h63FMNPentaerythritol tetranitrate reductase/0.448
1szgFNSCytochrome b2, mitochondrial1.1.2.30.448
2gv8NDPThiol-specific monooxygenase1.14.130.448
2qjoNADBifunctional NMN adenylyltransferase/Nudix hydrolase2.7.7.10.448
3p62FMNPentaerythritol tetranitrate reductase/0.448
3t88S0N1,4-dihydroxy-2-naphthoyl-CoA synthase/0.448
4bb3KKAIsopenicillin N synthase1.21.3.10.448
4opiFDAConserved Archaeal protein/0.448
4zlaBESCytosol aminopeptidase3.4.11.10.448
1h61PDNPentaerythritol tetranitrate reductase/0.447
1kbiFMNCytochrome b2, mitochondrial1.1.2.30.447
1xs7MMIBeta-secretase 13.4.23.460.447
2aclL05Oxysterols receptor LXR-alpha/0.447
2bu9HFVIsopenicillin N synthase1.21.3.10.447
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.447
2g8yNADHydroxycarboxylate dehydrogenase B/0.447
3d84NDPDihydrofolate reductase1.5.1.30.447
3tqcADPPantothenate kinase/0.447
4g67SAHUncharacterized ACR, COG1565 superfamily/0.447
4oztP1AEcdysone receptor, putative/0.447
5kjcNAJAlcohol dehydrogenase E chain1.1.1.10.447
1nahNADUDP-glucose 4-epimerase5.1.3.20.446
1tehNADAlcohol dehydrogenase class-31.1.1.10.446
1uxkNADMalate dehydrogenase/0.446
2y6fM9FIsopenicillin N synthase1.21.3.10.446
2ym1FADPhenylacetone monooxygenase1.14.13.920.446
4frkDWDBeta-secretase 13.4.23.460.446
4jxrACOAcetyltransferase/0.446
1h50FMNPentaerythritol tetranitrate reductase/0.445
1vkgCRIHistone deacetylase 83.5.1.980.445
2xlsFADPutative flavin-containing monooxygenase/0.445
3kjrNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.445
4fryNADPutative signal-transduction protein with CBS domains/0.445
1mjaCOAHistone acetyltransferase ESA1/0.444
1xu7CPSCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.444
2gnhH52cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.444
3f03FMNPentaerythritol tetranitrate reductase/0.444
3pm9FADPutative oxidoreductase/0.444
3qlsNDPDihydrofolate reductase1.5.1.30.444
4m9aFDAAcyl-CoA dehydrogenase/0.444
4q71FADBifunctional protein PutA/0.444
1a8pFADFerredoxin--NADP reductase/0.443
1dr3TAPDihydrofolate reductase1.5.1.30.443
1h51FMNPentaerythritol tetranitrate reductase/0.443
1i5cADPChemotaxis protein CheA2.7.13.30.443
1z7yAA5Cysteine synthase 12.5.1.470.443
2x8hFADThioredoxin glutathione reductase/0.443
2xlpFADPutative flavin-containing monooxygenase/0.443
2yphQQY2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.443
4bfxZVXPantothenate kinase2.7.1.330.443
4ejmNAPPutative zinc-binding dehydrogenase/0.443
4glx0XSDNA ligase6.5.1.20.443
4h8aNAIUreidoglycolate dehydrogenase (NAD(+))1.1.1.3500.443
4kxjP34Nucleoprotein/0.443
4lol1YEStimulator of interferon genes protein/0.443
4lzwTHMUridine phosphorylase/0.443
4opuFDAConserved Archaeal protein/0.443
4y8wSTRSteroid 21-hydroxylase/0.443
1c9k5GPBifunctional adenosylcobalamin biosynthesis protein CobU/0.442
1cqp803Integrin alpha-L/0.442
1f8fNADBenzyl alcohol dehydrogenase/0.442
1h5qNAPNADP-dependent mannitol dehydrogenase1.1.1.1380.442
1ia1NDPDihydrofolate reductase1.5.1.30.442
1k4mNADNicotinate-nucleotide adenylyltransferase2.7.7.180.442
2b4tAESGlyceraldehyde-3-phosphate dehydrogenase/0.442
2b58COADiamine acetyltransferase 1/0.442
2fw3BUICarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.442
2g263LGRenin3.4.23.150.442
2i7pACOPantothenate kinase 32.7.1.330.442
2ohxNADAlcohol dehydrogenase E chain1.1.1.10.442
3bj7COADiamine acetyltransferase 1/0.442
3p8z36AGenome polyprotein2.1.1.560.442
3q8hAO92-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase/0.442
3qe2FMNNADPH--cytochrome P450 reductase/0.442
3r6sCMPCRP-like cAMP-activated global transcriptional regulator/0.442
3u9y09LTankyrase-22.4.2.300.442
3w8wFADPutative FAD-dependent oxygenase EncM/0.442
4bcaFADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.442
4eueNAITrans-2-enoyl-CoA reductase [NADH]/0.442
4uwmFMN3,6-diketocamphane 1,6 monooxygenase1.14.130.442
4xqcNADHomospermidine synthase2.5.1.440.442
5ch7MD1DMSO reductase family type II enzyme, molybdopterin subunit/0.442
1eiiRTLRetinol-binding protein 2/0.441
1kbo340NAD(P)H dehydrogenase [quinone] 11.6.5.20.441
1opmIYGPeptidyl-glycine alpha-amidating monooxygenase1.14.17.30.441
2ejzSAHDiphthine synthase/0.441
2i4jDRJPeroxisome proliferator-activated receptor gamma/0.441
2jdcCAOProbable acetyltransferase/0.441
3d3wNAPL-xylulose reductase1.1.1.100.441
3fhxPXLPyridoxal kinase2.7.1.350.441
3jzdNADMaleylacetate reductase/0.441
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.441
3koyZ97D-ornithine 4,5-aminomutase subunit beta/0.441
3nxxNDPDihydrofolate reductase1.5.1.30.441
3r83Z14Cyclin-dependent kinase 22.7.11.220.441
3up3XCAaceDAF-12/0.441
3v0p4GWHisto-blood group ABO system transferase/0.441
4bfwZVWPantothenate kinase2.7.1.330.441
4iji99TGlutathione S-transferase-like protein YibF/0.441
5kjfNAJAlcohol dehydrogenase E chain1.1.1.10.441
1i24UPGUDP-sulfoquinovose synthase, chloroplastic3.13.1.10.440
1sd2MTHS-methyl-5'-thioadenosine phosphorylase/0.440
2cmjNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.440
2fznFADBifunctional protein PutA1.5.5.20.440
3hl0NADMaleylacetate reductase/0.440
3ihgVAKAklavinone 12-hydroxylase RdmE/0.440
3r1kCOAN-acetyltransferase Eis/0.440
4blrUTPNTPase P4/0.440
4dbzNDPPutative ketoacyl reductase1.3.10.440
4dd8BATDisintegrin and metalloproteinase domain-containing protein 83.4.240.440
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440
4ejvLCLTranscriptional regulator TcaR/0.440
4loi1YCStimulator of interferon genes protein/0.440
4v2gITCTetracycline repressor protein class D/0.440
5jjsSAHGenome polyprotein/0.440