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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
1mq0BRDCytidine deaminase3.5.4.5

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1mq0BRDCytidine deaminase3.5.4.51.000
2yac937Serine/threonine-protein kinase PLK12.7.11.210.526
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.515
2owb626Serine/threonine-protein kinase PLK12.7.11.210.509
2ejzSAHDiphthine synthase/0.508
2emuSAHDiphthine synthase/0.496
4a4o664Serine/threonine-protein kinase PLK12.7.11.210.496
2owfSAHDiphthine synthase/0.492
2pb6SAHDiphthine synthase/0.492
2e08SAHDiphthine synthase/0.485
2egbSAHDiphthine synthase/0.484
2eh5SAHDiphthine synthase/0.484
2emrSAHDiphthine synthase/0.482
2ojg19AMitogen-activated protein kinase 12.7.11.240.482
2owuSAHDiphthine synthase/0.482
2pb4SAHDiphthine synthase/0.482
2e8sSAHDiphthine synthase/0.481
3dy8IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.481
4cdmFO1Deoxyribodipyrimidine photolyase/0.478
2h447CAcGMP-specific 3',5'-cyclic phosphodiesterase/0.477
1vceSAHDiphthine synthase/0.474
2a5hSAML-lysine 2,3-aminomutase5.4.3.20.474
3qv1NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic1.2.1.130.474
4a322CDGlycylpeptide N-tetradecanoyltransferase/0.474
4gv4MEJPoly [ADP-ribose] polymerase 32.4.2.300.473
2dv3SAHDiphthine synthase/0.472
3ox34X4Ribosyldihydronicotinamide dehydrogenase [quinone]/0.472
1u2rSO1Elongation factor 2/0.471
2ejkSAHDiphthine synthase/0.471
2oliIOPBasic phospholipase A2 VRV-PL-VIIIa3.1.1.40.471
4n9qFMNFMN-dependent NADH-azoreductase 1/0.471
2dv4SAHDiphthine synthase/0.470
2ed3SAHDiphthine synthase/0.470
2eeqSAHDiphthine synthase/0.470
2huxSAHDiphthine synthase/0.470
2fhjH4ZFormylmethanofuran--tetrahydromethanopterin formyltransferase2.3.1.1010.469
4g2l0WLHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.469
2dsgSAHDiphthine synthase/0.468
2rehFADNitroalkane oxidase1.7.3.10.468
2ehlSAHDiphthine synthase/0.467
3fhxPLPPyridoxal kinase2.7.1.350.467
3m6pBB2Peptide deformylase 1B, chloroplastic/mitochondrial3.5.1.880.466
4b4w9L9Bifunctional protein FolD/0.466
2dekSAHDiphthine synthase/0.465
2ek7SAHDiphthine synthase/0.465
2eldSAHDiphthine synthase/0.465
2v0uFMNNPH1-1/0.465
2z6rSAHDiphthine synthase/0.465
3bv7NAP3-oxo-5-beta-steroid 4-dehydrogenase/0.465
1k7fIAVTryptophan synthase alpha chain/0.464
2huvSAHDiphthine synthase/0.464
2pchSAHDiphthine synthase/0.464
2pcmSAHDiphthine synthase/0.464
3ihgVAKAklavinone 12-hydroxylase RdmE/0.464
3phjDHKShikimate dehydrogenase (NADP(+))/0.464
3pqbVGPPutative oxidoreductase/0.464
3uayADNPurine nucleoside phosphorylase DeoD-type/0.464
3zkyWT4Isopenicillin N synthase1.21.3.10.464
4eerFMNPhototropin-22.7.11.10.464
2dv7SAHDiphthine synthase/0.463
2e4nSAHDiphthine synthase/0.463
3ue6FMNAureochrome1/0.463
4b6l9ZPSerine/threonine-protein kinase PLK32.7.11.210.463
1q12ATPMaltose/maltodextrin import ATP-binding protein MalK/0.462
2dsiSAHDiphthine synthase/0.462
3sqxANPATP-dependent RNA helicase MSS116, mitochondrial3.6.4.130.462
3zmg6Z0Beta-secretase 13.4.23.460.462
5dp2NAPCurF/0.462
1jqdSAHHistamine N-methyltransferase2.1.1.80.461
1kmsLIHDihydrofolate reductase1.5.1.30.461
2eniSAHDiphthine synthase/0.461
2pcgSAHDiphthine synthase/0.461
2wnbC5PCMP-N-acetylneuraminate-beta-galactosamide-alpha-2,3-sialyltransferase 12.4.99.40.461
1lbbKAIGlutamate receptor 2/0.460
2el0SAHDiphthine synthase/0.460
3bloQEIQueuine tRNA-ribosyltransferase2.4.2.290.460
3o73O73Ribosyldihydronicotinamide dehydrogenase [quinone]/0.460
4b2gV1NUncharacterized protein/0.460
1ja1FMNNADPH--cytochrome P450 reductase/0.459
1sojIBMcGMP-inhibited 3',5'-cyclic phosphodiesterase B3.1.4.170.459
2ek4SAHDiphthine synthase/0.459
2owgSAHDiphthine synthase/0.459
3lfeZ84Mitogen-activated protein kinase 14/0.459
4j521J3Serine/threonine-protein kinase PLK12.7.11.210.459
2e8qSAHDiphthine synthase/0.458
2rkuR78Serine/threonine-protein kinase PLK12.7.11.210.458
2xvhFADPutative flavin-containing monooxygenase/0.458
3nh8DC2N-acyl-aromatic-L-amino acid amidohydrolase (carboxylate-forming)3.5.1.1140.458
3tifADPUncharacterized ABC transporter ATP-binding protein MJ0796/0.458
1hfqMOTDihydrofolate reductase1.5.1.30.457
3egvSAHRibosomal protein L11 methyltransferase2.1.10.457
3l9lL9LcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.457
3rupADPBiotin carboxylase6.3.4.140.457
4a2aATPCell division protein FtsA/0.457
4bmpFMNProtein NrdI/0.457
2e07SAHDiphthine synthase/0.456
2f6rACOBifunctional coenzyme A synthase/0.456
2pcaSAHDiphthine synthase/0.456
2v1aFMNNPH1-1/0.456
3d5wADPSerine/threonine-protein kinase PLK/0.456
3u2lFADFAD-linked sulfhydryl oxidase ALR1.8.3.20.456
4gr9372Ribosyldihydronicotinamide dehydrogenase [quinone]/0.456
1kquBR4Phospholipase A2, membrane associated/0.455
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.455
2eleSAHDiphthine synthase/0.455
3arvSAUChitinase A/0.455
4xq9NADHomospermidine synthase2.5.1.440.455
1dr3HBIDihydrofolate reductase1.5.1.30.454
1g28FMNPHY3/0.454
1odjGMPPurine nucleoside phosphorylase/0.454
1yqzCOACoenzyme A disulfide reductase/0.454
2e8hSAHDiphthine synthase/0.454
4a4l939Serine/threonine-protein kinase PLK12.7.11.210.454
4a86H35Major pollen allergen Bet v 1-A/0.454
4b13X25Glycylpeptide N-tetradecanoyltransferase/0.454
4b4vL34Bifunctional protein FolD/0.454
4bfxZVXPantothenate kinase2.7.1.330.454
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.454
4tnzTTPDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.454
1fdsESTEstradiol 17-beta-dehydrogenase 11.1.1.620.453
1ps9MDE2,4-dienoyl-CoA reductase1.3.1.340.453
1yc2NADNAD-dependent protein deacylase 2/0.453
2v19FMNDodecin/0.453
3qe2FMNNADPH--cytochrome P450 reductase/0.453
4j1k1HGBeta-secretase 13.4.23.460.453
1ay0TPPTransketolase 12.2.1.10.452
2eglSAHDiphthine synthase/0.452
2on6IMHPurine nucleoside phosphorylase2.4.2.10.452
2p6lSAHDiphthine synthase/0.452
3fpkFADFerredoxin-NADP reductase/0.452
4a30QMIGlycylpeptide N-tetradecanoyltransferase/0.452
4cukNAID-lactate dehydrogenase/0.452
4jlm1NNDeoxycytidine kinase2.7.1.740.452
5aajHSCPeroxisomal bifunctional enzyme1.1.1.350.452
2dxvSAHDiphthine synthase/0.451
2dxwSAHDiphthine synthase/0.451
2pciSAHDiphthine synthase/0.451
4lc71WPBeta-secretase 13.4.23.460.451
4wctFADFructosyl amine:oxygen oxidoreductase/0.451
2huqSAHDiphthine synthase/0.450
3cgtBCDCyclomaltodextrin glucanotransferase2.4.1.190.450
3p0fBAUUridine phosphorylase 22.4.2.30.450
3u57DH8Raucaffricine-O-beta-D-glucosidase3.2.1.1250.450
3wquATPCell division protein FtsA/0.450
4c43FADFerredoxin--NADP reductase1.18.1.20.450
4eepFMNPhototropin-22.7.11.10.450
1f8gNADNAD(P) transhydrogenase subunit alpha part 11.6.1.20.449
1jumBERHTH-type transcriptional regulator QacR/0.449
1obnASVIsopenicillin N synthase1.21.3.10.449
1wngSAHDiphthine synthase/0.449
1xh7R96cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.449
2hr8SAHDiphthine synthase/0.449
2p6dSAHDiphthine synthase/0.449
3dylIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.449
3ntdFADFAD-dependent pyridine nucleotide-disulphide oxidoreductase/0.449
3qgtCP6Bifunctional dihydrofolate reductase-thymidylate synthase/0.449
4a312CBGlycylpeptide N-tetradecanoyltransferase/0.449
4b7754MBeta-secretase 13.4.23.460.449
4bznUGXSerine/threonine-protein kinase pim-12.7.11.10.449
5efwFMNNPH1-1/0.449
1b2lNDCAlcohol dehydrogenase1.1.1.10.448
1kkq471Peroxisome proliferator-activated receptor alpha/0.448
1zeoC01Peroxisome proliferator-activated receptor gamma/0.448
2e16SAHDiphthine synthase/0.448
2ek2SAHDiphthine synthase/0.448
2en5SAHDiphthine synthase/0.448
3cquCQURAC-alpha serine/threonine-protein kinase2.7.11.10.448
3d4bDZDNAD-dependent protein deacetylase/0.448
3h1vTK1Glucokinase2.7.1.20.448
3h3t16HCollagen type IV alpha-3-binding protein/0.448
3lfcZ86Mitogen-activated protein kinase 14/0.448
4h3g10QBeta-secretase 13.4.23.460.448
4n65FMNFMN-dependent NADH-azoreductase 1/0.448
1qvuPRLHTH-type transcriptional regulator QacR/0.447
1uhoVDNcGMP-specific 3',5'-cyclic phosphodiesterase/0.447
1vcfFMNIsopentenyl-diphosphate delta-isomerase/0.447
2aq7TL53-oxoacyl-[acyl-carrier-protein] synthase 12.3.1.410.447
2g1n1IGRenin3.4.23.150.447
2owvSAHDiphthine synthase/0.447
2x06NADL-sulfolactate dehydrogenase/0.447
2xk3XK3Serine/threonine-protein kinase Nek22.7.11.10.447
3gcq1BUMitogen-activated protein kinase 14/0.447
4g2j0WFHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.447
4i6f1C7Serine/threonine-protein kinase PLK22.7.11.210.447
5p2pDHGPhospholipase A2, major isoenzyme3.1.1.40.447
1p0pBCHCholinesterase3.1.1.80.446
1r2jFADFkbI/0.446
1yw8A75Methionine aminopeptidase 2/0.446
2b5oFADFerredoxin--NADP reductase1.18.1.20.446
2p6iSAHDiphthine synthase/0.446
2v18FMNDodecin/0.446
3a3yOBNSodium/potassium-transporting ATPase subunit alpha/0.446
3dynPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.446
3dyqIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.446
3fvqATPFe(3+) ions import ATP-binding protein FbpC/0.446
3hv3R49Mitogen-activated protein kinase 14/0.446
3n3zIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.446
3zoiM2WIsopenicillin N synthase1.21.3.10.446
4cax646Glycylpeptide N-tetradecanoyltransferase2.3.1.970.446
4fs4H24Beta-secretase 13.4.23.460.446
4g34924Eukaryotic translation initiation factor 2-alpha kinase 32.7.11.10.446
4q71FADBifunctional protein PutA/0.446
1e79ATPATP synthase subunit alpha, mitochondrial/0.445
1e79ATPATP synthase subunit beta, mitochondrial3.6.3.140.445
1f20FADNitric oxide synthase, brain1.14.13.390.445
1fxfMJIPhospholipase A2, major isoenzyme3.1.1.40.445
1gebCAMCamphor 5-monooxygenase1.14.15.10.445
1gt5BZQOdorant-binding protein/0.445
1qgyFADFerredoxin--NADP reductase1.18.1.20.445
2dr3ADPUPF0273 protein PH0284/0.445
2ed5SAHDiphthine synthase/0.445
2egsSAHDiphthine synthase/0.445
2ph5NADHomospermidine synthase/0.445
2x7hPFNProstaglandin reductase 310.445
2y6qI7TTetX family tetracycline inactivation enzyme/0.445
2zruFMNIsopentenyl-diphosphate delta-isomerase/0.445
3biz61EWee1-like protein kinase2.7.10.20.445
3vspEK8Peroxisome proliferator-activated receptor gamma/0.445
4dymIYZActivin receptor type-12.7.11.300.445
4h3j10WBeta-secretase 13.4.23.460.445
4qemHC4Phospholipase A2 VRV-PL-VIIIa/0.445
1i59ANPChemotaxis protein CheA2.7.13.30.444
1m4iCOAAminoglycoside 2'-N-acetyltransferase2.3.10.444
1y2bDEEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.444
2eh2SAHDiphthine synthase/0.444
2zf051UProthrombin3.4.21.50.444
3bldPRFQueuine tRNA-ribosyltransferase2.4.2.290.444
3ggs2FDPurine nucleoside phosphorylase2.4.2.10.444
3jswJARHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.444
3l9mL9McAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.444
3nhrRZWRibosyldihydronicotinamide dehydrogenase [quinone]/0.444
4boeCLRJapanin/0.444
4dpdDHFBifunctional dihydrofolate reductase-thymidylate synthase/0.444
4g1nNZTPyruvate kinase PKM2.7.1.400.444
4k39SAMAnaerobic sulfatase-maturating enzyme1.8.980.444
4qtnNNRNicotinamide riboside transporter PnuC/0.444
5ej7TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase/0.444
1nuuNADNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.443
1puaCOAHAT A1/0.443
2a2xNA9Prothrombin3.4.21.50.443
2cjfRP43-dehydroquinate dehydratase4.2.1.100.443
2cndFADNitrate reductase [NADH]1.7.1.10.443
2e7rSAHDiphthine synthase/0.443
2zrzFNRIsopentenyl-diphosphate delta-isomerase/0.443
3be2RAJVascular endothelial growth factor receptor 22.7.10.10.443
3dylPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.443
3nhkVAPRibosyldihydronicotinamide dehydrogenase [quinone]/0.443
3nj0PYVAbscisic acid receptor PYL2/0.443
3qeoLLTDeoxycytidine kinase2.7.1.740.443
4i6h1C8Serine/threonine-protein kinase PLK22.7.11.210.443
4kp71UQ1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic1.1.1.2670.443
5fm7ADPRuvB-like helicase/0.443
2ycxP32Beta-1 adrenergic receptor/0.443
1c3x8IGPurine nucleoside phosphorylase2.4.2.10.442
1mvtDTMDihydrofolate reductase1.5.1.30.442
1rpwDIDHTH-type transcriptional regulator QacR/0.442
2eh4SAHDiphthine synthase/0.442
2el3SAHDiphthine synthase/0.442
2hutSAHDiphthine synthase/0.442
2nr4FMNConserved protein/0.442
2p9dSAHDiphthine synthase/0.442
2q1sNAIPutative nucleotide sugar epimerase/ dehydratase/0.442
3br3ETHTH-type transcriptional regulator QacR/0.442
3fnfJPMEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.442
3q9bB3NAcetylpolyamine amidohydrolase/0.442
4dan2FAPurine nucleoside phosphorylase DeoD-type2.4.2.10.442
4ise1FWGlucokinase2.7.1.20.442
4kz01UJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
1fm7DFVChalcone--flavonone isomerase 15.5.1.60.441
1fx9MJIPhospholipase A2, major isoenzyme3.1.1.40.441
1ndzFR5Adenosine deaminase3.5.4.40.441
1tl7ONMAdenylate cyclase type 2/0.441
1tl7ONMAdenylate cyclase type 5/0.441
2cleF6FTryptophan synthase alpha chain/0.441
2ek3SAHDiphthine synthase/0.441
2hunNAD336aa long hypothetical dTDP-glucose 4,6-dehydratase/0.441
2p2xSAHDiphthine synthase/0.441
2xlrFADPutative flavin-containing monooxygenase/0.441
2xnpWCXSerine/threonine-protein kinase Nek22.7.11.10.441
3dqrJI2Nitric oxide synthase, brain1.14.13.390.441
3l8sBFFMitogen-activated protein kinase 14/0.441
3ssnMVIMycinamicin VI 2''-O-methyltransferase/0.441
4a2zVIQGlycylpeptide N-tetradecanoyltransferase/0.441
4b66NAPL-ornithine N(5)-monooxygenase/0.441
4eqrCOACoenzyme A disulfide reductase/0.441
4h3f10OBeta-secretase 13.4.23.460.441
4l4bCAMCamphor 5-monooxygenase1.14.15.10.441
4qfzTTPDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.441
1e8zSTUPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.440
1fw0KAIGlutamate receptor 2/0.440
1sd2MTHS-methyl-5'-thioadenosine phosphorylase/0.440
1siqFADGlutaryl-CoA dehydrogenase, mitochondrial1.3.8.60.440
1x1bSAHC-20 methyltransferase/0.440
1xddAAYIntegrin alpha-L/0.440
2vbpVB1Isopenicillin N synthase1.21.3.10.440
3i7vB4PAP4A hydrolase/0.440
3irn1CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.440
3nhjA2ZRibosyldihydronicotinamide dehydrogenase [quinone]/0.440
3pce3HPProtocatechuate 3,4-dioxygenase alpha chain1.13.11.30.440
3pce3HPProtocatechuate 3,4-dioxygenase beta chain1.13.11.30.440
4bbxLKFcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.440
4c1iEH9cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.440
4hfp15UProthrombin3.4.21.50.440
4rlh0WEEnoyl-[acyl-carrier-protein] reductase [NADH]/0.440
5irnADPNucleotide binding oligomerization domain containing 2/0.440