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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
2zbvADNUncharacterized protein

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
2zbvADNUncharacterized protein/1.000
2v7tSAH5'-fluoro-5'-deoxy-adenosine synthase/0.529
4b13X25Glycylpeptide N-tetradecanoyltransferase/0.517
2yneYNEGlycylpeptide N-tetradecanoyltransferase/0.516
4b12C23Glycylpeptide N-tetradecanoyltransferase/0.504
2aovC2MHistamine N-methyltransferase2.1.1.80.497
4bbhYBNGlycylpeptide N-tetradecanoyltransferase/0.497
2ha6SCKAcetylcholinesterase3.1.1.70.496
4b144XBGlycylpeptide N-tetradecanoyltransferase/0.496
4ax8SAMO-antigen chain terminator bifunctional methyltransferase/kinase WbdD/0.489
4cax646Glycylpeptide N-tetradecanoyltransferase2.3.1.970.489
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.489
4x3uSVRChromobox protein homolog 7/0.488
5a4vQUEGlutathione S-transferase F22.5.1.180.488
2xiq5ADMethylmalonyl-CoA mutase, mitochondrial/0.486
1nquRDL6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.485
2xupTZ5Acetylcholinesterase3.1.1.70.484
2a58RBF6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.482
1q0zAKAAclacinomycin methylesterase RdmC3.1.1.950.479
2ipiAKYAclacinomycin-N/aclacinomycin-A oxidase/0.479
2j3qTFLAcetylcholinesterase3.1.1.70.478
3uzzASD3-oxo-5-beta-steroid 4-dehydrogenase/0.478
2cbqTH2Neocarzinostatin/0.477
5fd8A5APutative carboxypeptidase yocD/0.477
2aotSAHHistamine N-methyltransferase2.1.1.80.476
3e34ED1Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha/0.476
3e34ED1Protein farnesyltransferase subunit beta2.5.1.580.476
3gx9TXDMorphinone reductase/0.476
4b7zQ4QAcetylcholinesterase3.1.1.70.476
2xuiTZ5Acetylcholinesterase3.1.1.70.475
2y1w849Histone-arginine methyltransferase CARM1/0.475
1swgBTNStreptavidin/0.473
4a322CDGlycylpeptide N-tetradecanoyltransferase/0.473
4n9qFMNFMN-dependent NADH-azoreductase 1/0.472
3iu9T07Methionine aminopeptidase 2/0.471
2xuoTZ4Acetylcholinesterase3.1.1.70.470
4a30QMIGlycylpeptide N-tetradecanoyltransferase/0.470
4b117I1Glycylpeptide N-tetradecanoyltransferase/0.470
4to2DGTDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.470
1bx1FADFerredoxin--NADP reductase, chloroplastic1.18.1.20.469
1jqdSAHHistamine N-methyltransferase2.1.1.80.469
1o6qR17Squalene--hopene cyclase4.2.1.1290.469
1kyyINI6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.468
2g5w8PG12-oxophytodienoate reductase 31.3.1.420.468
1uhoVDNcGMP-specific 3',5'-cyclic phosphodiesterase/0.467
2iuzD1HEndochitinase B13.2.1.140.467
3qeoLLTDeoxycytidine kinase2.7.1.740.467
4araC56Acetylcholinesterase3.1.1.70.467
4c2z646Glycylpeptide N-tetradecanoyltransferase 1/0.467
1m9hNAD2,5-diketo-D-gluconic acid reductase A1.1.1.3460.465
2q153MRBeta-secretase 13.4.23.460.465
3n3zIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.465
1w6rGNTAcetylcholinesterase3.1.1.70.464
1x1bSAHC-20 methyltransferase/0.464
2a59LMZ6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.464
2pb1NFGGlucan 1,3-beta-glucosidase/0.464
3irhDTPHD domain protein/0.464
3uzxAOM3-oxo-5-beta-steroid 4-dehydrogenase/0.464
4ey6GNTAcetylcholinesterase3.1.1.70.464
1icqOPD12-oxophytodienoate reductase 11.3.1.420.463
3prfFP3Serine/threonine-protein kinase B-raf2.7.11.10.463
4nv14TGFormyl transferase/0.463
5d4vYGPUncharacterized protein MJ0489/0.463
1dx6GNTAcetylcholinesterase3.1.1.70.462
2aot2PMHistamine N-methyltransferase2.1.1.80.462
2ohhFMNType A flavoprotein FprA10.462
2w6cBM4Acetylcholinesterase3.1.1.70.462
3c3xNAPEugenol synthase 11.1.1.3180.462
5a4wQCTGlutathione S-transferase F22.5.1.180.462
1h22E10Acetylcholinesterase3.1.1.70.461
1pj6FOLDimethylglycine oxidase1.5.3.100.461
1v3q2DIPurine nucleoside phosphorylase2.4.2.10.461
2y1x845Histone-arginine methyltransferase CARM1/0.461
4a959MTGlycylpeptide N-tetradecanoyltransferase/0.461
1qtiGNTAcetylcholinesterase3.1.1.70.460
1u65CP0Acetylcholinesterase3.1.1.70.460
2on6IMHPurine nucleoside phosphorylase2.4.2.10.460
3r8gIZPAldo-keto reductase family 1 member C3/0.460
4o6fSAHN-lysine methyltransferase SMYD2/0.460
4zzi1NSNAD-dependent protein deacetylase sirtuin-13.5.10.460
5fljQUEQuercetinase QueD/0.460
1ekoI84Aldose reductase1.1.1.210.459
1gg5E09NAD(P)H dehydrogenase [quinone] 11.6.5.20.459
1kyxCRM6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.459
2wzySQXSoluble acetylcholine receptor/0.459
4jq1NPSAldo-keto reductase family 1 member C2/0.459
4jt91NSNAD-dependent protein deacetylase sirtuin-3, mitochondrial3.5.10.459
1u1d181Uridine phosphorylase2.4.2.30.458
3e4aQIXInsulin-degrading enzyme3.4.24.560.458
4azwSAMO-antigen chain terminator bifunctional methyltransferase/kinase WbdD/0.458
4dlcUMPDeoxyuridine triphosphatase, putative/0.458
1eveE20Acetylcholinesterase3.1.1.70.457
1rpwDIDHTH-type transcriptional regulator QacR/0.457
1zgcA2EAcetylcholinesterase3.1.1.70.457
2fzbTOLAldose reductase1.1.1.210.457
2gyuHI6Acetylcholinesterase3.1.1.70.457
3dr7GPDGDP-perosamine synthase/0.457
3hxeBD8Geranylgeranyl transferase type-2 subunit beta2.5.1.600.457
3r8hZOMAldo-keto reductase family 1 member C3/0.457
1fkjFK5Peptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.456
1mvtDTMDihydrofolate reductase1.5.1.30.456
1ut6A8NAcetylcholinesterase3.1.1.70.456
3ugrIMNAldo-keto reductase family 1 member C3/0.456
4ixt1H1Halohydrin dehalogenase/0.456
4m0e1YLAcetylcholinesterase3.1.1.70.456
1e1fPSG4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase 1, chloroplastic3.2.1.1820.455
1q0rAKTAclacinomycin methylesterase RdmC3.1.1.950.455
2qc8ADPGlutamine synthetase6.3.1.20.455
3ou6SAMSAM-dependent methyltransferase/0.455
3qpg3QPAspartate aminotransferase2.6.1.10.455
3tfjTHGDimethylsulfonioproprionate demethylase DmdA2.1.1.2690.455
4b68NAPL-ornithine N(5)-monooxygenase/0.455
1kf6HQOFumarate reductase iron-sulfur subunit1.3.5.10.454
1kf6HQOFumarate reductase subunit C/0.454
1kf6HQOFumarate reductase subunit D/0.454
2cekN8TAcetylcholinesterase3.1.1.70.454
2fzdTOLAldose reductase1.1.1.210.454
2pd9FIDAldose reductase1.1.1.210.454
2q94A04Methionine aminopeptidase/0.454
3g5eQ74Aldose reductase1.1.1.210.454
3ou2SAHSAM-dependent methyltransferase/0.454
4ey7E20Acetylcholinesterase3.1.1.70.454
4j3mAJ8Tankyrase-22.4.2.300.454
4mm729JNa(+):neurotransmitter symporter (Snf family)/0.454
1dlsMTXDihydrofolate reductase1.5.1.30.453
1fnbFADFerredoxin--NADP reductase, chloroplastic1.18.1.20.453
1yhjR6CPyridoxal kinase2.7.1.350.453
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.453
3v0o4GWHisto-blood group ABO system transferase/0.453
4e2xTYDMethyltransferase/0.453
1i5rHYCEstradiol 17-beta-dehydrogenase 11.1.1.620.452
1q84TZ4Acetylcholinesterase3.1.1.70.452
2gg8U15Methionine aminopeptidase/0.452
2ggbU17Methionine aminopeptidase/0.452
2vf3GVS4-diphosphocytidyl-2-C-methyl-D-erythritol kinase/0.452
3dz2A8MS-adenosylmethionine decarboxylase proenzyme4.1.1.500.452
3geyP34Poly [ADP-ribose] polymerase 152.4.2.300.452
4es5MGTPolymerase basic protein 2/0.452
4nqgCZHMitrocomin/0.452
4qdkSAHMagnesium-protoporphyrin O-methyltransferase2.1.1.110.452
1d3dBZTProthrombin3.4.21.50.451
1rkwPNTHTH-type transcriptional regulator QacR/0.451
1rxjBNIStreptavidin/0.451
3b3fSAHHistone-arginine methyltransferase CARM1/0.451
3c72CX1Geranylgeranyl transferase type-2 subunit beta2.5.1.600.451
3cotSTR3-oxo-5-beta-steroid 4-dehydrogenase/0.451
3jsxCC2NAD(P)H dehydrogenase [quinone] 11.6.5.20.451
4a3uFMNNADH:flavin oxidoreductase/NADH oxidase/0.451
4arbC57Acetylcholinesterase3.1.1.70.451
4v0s2HN3-dehydroquinate dehydratase4.2.1.100.451
1crbRTLRetinol-binding protein 1/0.450
1nm6L86Prothrombin3.4.21.50.450
1odcA8BAcetylcholinesterase3.1.1.70.450
2mm3CHOGastrotropin/0.450
2wjoQUDBeta-secretase 13.4.23.460.450
3v35NTIAldose reductase1.1.1.210.450
4b5nFMNNAD(P)H:flavin oxidoreductase Sye4/0.450
4i101BSBeta-secretase 13.4.23.460.450
4jq2SUZAldo-keto reductase family 1 member C2/0.450
4n65FMNFMN-dependent NADH-azoreductase 1/0.450
1k4mNADNicotinate-nucleotide adenylyltransferase2.7.7.180.449
3wqmB29Diterpene synthase3.1.7.80.449
4kn2LYAFolate receptor beta/0.449
1qv1CZHObelin/0.448
1qvuPRLHTH-type transcriptional regulator QacR/0.448
1w19T1P6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.448
1w6jR71Lanosterol synthase5.4.99.70.448
2e8uIPEGeranylgeranyl pyrophosphate synthase/0.448
2pdwFIDAldose reductase1.1.1.210.448
2rc6FADFerredoxin--NADP reductase/0.448
3arvSAUChitinase A/0.448
3cuiX4SExoglucanase/xylanase3.2.1.910.448
3dz6M8ES-adenosylmethionine decarboxylase proenzyme4.1.1.500.448
3k4s0MOcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.448
3vf60H6Glucokinase2.7.1.20.448
3zj7C1KStrictosidine-O-beta-D-glucosidase3.2.1.1050.448
4a2zVIQGlycylpeptide N-tetradecanoyltransferase/0.448
4bfuZVUPantothenate kinase2.7.1.330.448
4drn0MCPeptidyl-prolyl cis-trans isomerase FKBP55.2.1.80.448
4jt81NRNAD-dependent protein deacetylase sirtuin-3, mitochondrial3.5.10.448
4kq6DLZ6,7-dimethyl-8-ribityllumazine synthase/0.448
4utlFNRXenobiotic reductase/0.448
1gky5GPGuanylate kinase2.7.4.80.447
1w19T5P6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.447
2ct8MSPMethionine--tRNA ligase6.1.1.100.447
2duxZSTAldose reductase1.1.1.210.447
2inzOHPAldose reductase1.1.1.210.447
2jgbMGTEukaryotic translation initiation factor 4E type 2/0.447
4fl0PLPAminotransferase ALD1, chloroplastic2.6.10.447
4jsr1NQNAD-dependent protein deacetylase sirtuin-3, mitochondrial3.5.10.447
4kebFOLDihydrofolate reductase1.5.1.30.447
4s1iPLPPyridoxal kinase, putative/0.447
4u163C0Muscarinic acetylcholine receptor M3/0.447
1zgbA1EAcetylcholinesterase3.1.1.70.446
2ckmAA7Acetylcholinesterase3.1.1.70.446
2rdn1PL1-deoxypentalenic acid 11-beta-hydroxylase1.14.11.350.446
3pz3PZ3Geranylgeranyl transferase type-2 subunit beta2.5.1.600.446
4bfxZVXPantothenate kinase2.7.1.330.446
4bfyZVYPantothenate kinase2.7.1.330.446
4g090VDHistidinol dehydrogenase/0.446
1akaPLPAspartate aminotransferase, mitochondrial2.6.1.10.445
1kyvRBF6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.445
2h447CAcGMP-specific 3',5'-cyclic phosphodiesterase/0.445
2pnjCHDFerrochelatase, mitochondrial4.99.1.10.445
3af4GCPPantothenate kinase2.7.1.330.445
4lcnGNGCytidine and deoxycytidylate deaminase zinc-binding region/0.445
4qa0SHHHistone deacetylase 83.5.1.980.445
1ahgTYR_PLPAspartate aminotransferase2.6.1.10.444
1zq5E04Aldo-keto reductase family 1 member C3/0.444
2a0xDIHPurine nucleoside phosphorylase2.4.2.10.444
2evcFC3Methionine aminopeptidase/0.444
2nvcITAAldose reductase1.1.1.210.444
2qcxPF1Aminopyrimidine aminohydrolase/0.444
2zrzFNRIsopentenyl-diphosphate delta-isomerase/0.444
3hbfMYCFlavonoid 3-O-glucosyltransferase2.4.10.444
4lrhFOLFolate receptor alpha/0.444
4m0f1YKAcetylcholinesterase3.1.1.70.444
4qt3RAPPeptidylprolyl isomerase/0.444
1d3pBT3Prothrombin3.4.21.50.443
1e66HUXAcetylcholinesterase3.1.1.70.443
2nnlERDDihydroflavonol 4-reductase1.1.1.2190.443
2nq7HM5Methionine aminopeptidase 1/0.443
2v7uSAM5'-fluoro-5'-deoxy-adenosine synthase/0.443
2xjeU5PCytosolic purine 5'-nucleotidase3.1.3.50.443
3ei8PL5LL-diaminopimelate aminotransferase, chloroplastic/0.443
3hggCHDCmeR/0.443
3klbFMNUncharacterized protein/0.443
3nfrEWQRibosyldihydronicotinamide dehydrogenase [quinone]/0.443
3ufl508Beta-secretase 13.4.23.460.443
3voiRCBGlucanase/0.443
4qzuRTLRetinol-binding protein 2/0.443
4rv9SAHD-mycarose 3-C-methyltransferase/0.443
1b2lNDCAlcohol dehydrogenase1.1.1.10.442
1rsgFADPolyamine oxidase FMS1/0.442
2xujTZ5Acetylcholinesterase3.1.1.70.442
3aivHBO4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase, chloroplastic3.2.1.1820.442
3b78NADExotoxin A2.4.2.360.442
3rl45GPMetallophosphoesterase MPPED23.10.442
3tfuPL8Adenosylmethionine-8-amino-7-oxononanoate aminotransferase2.6.1.620.442
3vilSA0Beta-glucosidase/0.442
4llkMEWcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.442
4stdBFSScytalone dehydratase4.2.1.940.442
5c1gGDUHisto-blood group ABO system transferase/0.442
5d4uSAMUncharacterized protein MJ0489/0.442
5fliQUEQuercetinase QueD/0.442
5je3SAHMethyl transferase/0.442
1ah0SBIAldose reductase1.1.1.210.441
1w76GNTAcetylcholinesterase3.1.1.70.441
1zknIBMcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.441
2a57CRM6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.441
2f3815MAldo-keto reductase family 1 member C3/0.441
2gg9U16Methionine aminopeptidase/0.441
2xysSY9Soluble acetylcholine receptor/0.441
3ihgVAKAklavinone 12-hydroxylase RdmE/0.441
3uzxAOX3-oxo-5-beta-steroid 4-dehydrogenase/0.441
4c49HCYCorticosteroid-binding globulin/0.441
4kdrSAHUbiquinone biosynthesis O-methyltransferase/0.441
4xba5GPAprataxin-like protein30.441
5cxv0HKMuscarinic acetylcholine receptor M1/0.441
1acjTHAAcetylcholinesterase3.1.1.70.440
1gt5BZQOdorant-binding protein/0.440
1lnmDTXBilin-binding protein/0.440
1ogjFADFerredoxin--NADP reductase1.18.1.20.440
1q83TZ5Acetylcholinesterase3.1.1.70.440
1txtCAAHMG-CoA synthase/0.440
1udtVIAcGMP-specific 3',5'-cyclic phosphodiesterase/0.440
2cmfF11Acetylcholinesterase3.1.1.70.440
2f2kTGGAldose reductase1.1.1.210.440
2f99AKVAklanonic acid methyl ester cyclase AcmA5.5.1.230.440
2g6pHM2Methionine aminopeptidase 1/0.440
2i65NADADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 13.2.2.60.440
2jf6S55Strictosidine-O-beta-D-glucosidase3.2.1.1050.440
2qx7NAPEugenol synthase 11.1.1.3180.440
2xugTZ4Acetylcholinesterase3.1.1.70.440
3elePLPAminotransferase/0.440
3f3y4OABile salt sulfotransferase2.8.2.140.440
3gsiTHGDimethylglycine oxidase1.5.3.100.440
3nt5NAIInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase1.1.1.180.440
3owxXRARibosyldihydronicotinamide dehydrogenase [quinone]/0.440
3q7jFBOTricorn protease-interacting factor F33.4.110.440
3u5ySCGRaucaffricine-O-beta-D-glucosidase3.2.1.1250.440
3v0p4GWHisto-blood group ABO system transferase/0.440
4a312CBGlycylpeptide N-tetradecanoyltransferase/0.440
4hcy0YNTransketolase/0.440