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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
4um109PAcetylcholine-binding protein

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
4um109PAcetylcholine-binding protein/1.000
2cv2GSUGlutamate--tRNA ligase6.1.1.170.521
1bil0IURenin3.4.23.150.511
1r5gAO1Methionine aminopeptidase 2/0.509
4afhL0BAchbp/0.503
2g247IGRenin3.4.23.150.502
2g1r3IGRenin3.4.23.150.501
2g1s4IGRenin3.4.23.150.497
2il2LIXRenin3.4.23.150.496
3lqfNADGalactitol dehydrogenase/0.496
2fw3BUICarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.494
2ikuLIYRenin3.4.23.150.494
2xugTZ4Acetylcholinesterase3.1.1.70.492
1psa0ZLPepsin A3.4.23.10.488
4dc0NDPPutative ketoacyl reductase1.3.10.488
2g226IGRenin3.4.23.150.486
1qzyTDEMethionine aminopeptidase 2/0.484
2g1o2IGRenin3.4.23.150.484
2xuiTZ5Acetylcholinesterase3.1.1.70.484
2xukTZ5Acetylcholinesterase3.1.1.70.483
2iko7IGRenin3.4.23.150.482
3gqvNAPEnoyl reductase LovC10.482
1bim0QBRenin3.4.23.150.481
2g1n1IGRenin3.4.23.150.481
3hl0NADMaleylacetate reductase/0.481
4b5dSW4Achbp/0.481
1q84TZ4Acetylcholinesterase3.1.1.70.479
2gvdFKPAdenylate cyclase type 2/0.478
2gvdFKPAdenylate cyclase type 5/0.478
3pkaY02Methionine aminopeptidase 2/0.478
3uzwNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.478
4eagATP5'-AMP-activated protein kinase subunit gamma-1/0.477
2qimZEAClass 10 plant pathogenesis-related protein/0.476
2xufTZ4Acetylcholinesterase3.1.1.70.476
3bk2U5PRibonuclease J/0.475
4mrm2BYGamma-aminobutyric acid type B receptor subunit 1/0.475
1rneC60Renin3.4.23.150.474
3u8n09SAcetylcholine-binding protein/0.473
1xl8152Peroxisomal carnitine O-octanoyltransferase2.3.1.1370.472
4a862ANMajor pollen allergen Bet v 1-A/0.472
1odcA8BAcetylcholinesterase3.1.1.70.471
2g21L1BRenin3.4.23.150.471
2i4qUA4Renin3.4.23.150.471
2w3bNDPDihydrofolate reductase1.5.1.30.471
1w6hTITPlasmepsin-23.4.23.390.470
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.470
1r5hAO2Methionine aminopeptidase 2/0.469
1xe65FPPlasmepsin-23.4.23.390.469
3wagTYDGlycosyltransferase/0.469
4bfzZVZPantothenate kinase2.7.1.330.469
4psbGA3Cytokinin-specific binding protein/0.469
1eveE20Acetylcholinesterase3.1.1.70.468
1zgbA1EAcetylcholinesterase3.1.1.70.467
2gv8NDPThiol-specific monooxygenase1.14.130.467
2xupTZ5Acetylcholinesterase3.1.1.70.467
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.466
3f63GTXGlutathione transferase GST1-4/0.466
3jswJARHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.466
4eph0RKCarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.466
4ey6GNTAcetylcholinesterase3.1.1.70.466
4eywL0RCarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.466
2whqHI6Acetylcholinesterase3.1.1.70.465
2yq92AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.465
3h3t16HCollagen type IV alpha-3-binding protein/0.465
4a8v2ANMajor pollen allergen Bet v 1-J/0.465
4nbtNAD3-oxoacyl-[acyl-carrier-protein] reductase/0.465
2bjfDXCCholoylglycine hydrolase3.5.1.240.464
2cbrA80Cellular retinoic acid-binding protein 1/0.464
2rqfJH3Hemolymph juvenile hormone binding protein/0.464
3qe2FMNNADPH--cytochrome P450 reductase/0.464
4araC56Acetylcholinesterase3.1.1.70.464
4m0f1YKAcetylcholinesterase3.1.1.70.464
4xsvC5PEthanolamine-phosphate cytidylyltransferase2.7.7.140.464
1rx0FADIsobutyryl-CoA dehydrogenase, mitochondrial1.3.990.463
3vsxR32Renin3.4.23.150.463
5irnADPNucleotide binding oligomerization domain containing 2/0.463
2g20L1ARenin3.4.23.150.462
2vbdV10Isopenicillin N synthase1.21.3.10.462
3b6zCO7Enoyl reductase LovC10.462
3dylPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.462
1pq944BOxysterols receptor LXR-beta/0.460
1q23FUAChloramphenicol acetyltransferase2.3.1.280.460
1q5mNDPProstaglandin-E(2) 9-reductase1.1.1.1890.460
3fpdSAHHistone-lysine N-methyltransferase EHMT1/0.460
3u57DH8Raucaffricine-O-beta-D-glucosidase3.2.1.1250.460
3vswR31Renin3.4.23.150.460
4afgQMRAchbp/0.460
4j4nD44Peptidylprolyl isomerase/0.460
1gg5E09NAD(P)H dehydrogenase [quinone] 11.6.5.20.459
1u65CP0Acetylcholinesterase3.1.1.70.459
2a58RBF6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.459
2o1sTDP1-deoxy-D-xylulose-5-phosphate synthase2.2.1.70.459
3fapARDPeptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.459
3fapARDSerine/threonine-protein kinase mTOR2.7.11.10.459
3phiNDPShikimate dehydrogenase (NADP(+))/0.459
3vyfVYFRenin3.4.23.150.459
4fxy0W2Neurolysin, mitochondrial3.4.24.160.459
4r81FMNPredicted NADH dehydrogenase/0.459
4y17LAETranscriptional regulator of ftsQAZ gene cluster/0.459
1xe55FEPlasmepsin-23.4.23.390.458
3bv7NAP3-oxo-5-beta-steroid 4-dehydrogenase/0.458
3u8l09QAcetylcholine-binding protein/0.458
3vqsJT1Genome polyprotein/0.458
3vydVYDRenin3.4.23.150.458
1cjtFOKAdenylate cyclase type 2/0.457
1cjtFOKAdenylate cyclase type 5/0.457
1pl1ABYGlutathione S-transferase A12.5.1.180.457
1siqFADGlutaryl-CoA dehydrogenase, mitochondrial1.3.8.60.457
2v16C47Renin3.4.23.150.457
2x06NADL-sulfolactate dehydrogenase/0.457
2xujTZ5Acetylcholinesterase3.1.1.70.457
2z9dFMNFMN-dependent NADH-azoreductase/0.457
3d91REMRenin3.4.23.150.457
4b65FADL-ornithine N(5)-monooxygenase/0.457
1i5rHYCEstradiol 17-beta-dehydrogenase 11.1.1.620.456
2f7x4EAcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.456
2g5w8PG12-oxophytodienoate reductase 31.3.1.420.456
2xyd3ESAngiotensin-converting enzyme3.2.10.456
3qizQI2Botulinum neurotoxin type A3.4.24.690.456
4a81DXCMajor pollen allergen Bet v 1-A/0.456
4ead0NPThymidine phosphorylase2.4.2.40.456
1k4mNADNicotinate-nucleotide adenylyltransferase2.7.7.180.455
2ed4NAD4-hydroxyphenylacetate 3-monooxygenase reductase component1.5.1.360.455
2nnlNAPDihydroflavonol 4-reductase1.1.1.2190.455
2rlcCHDCholoylglycine hydrolase3.5.1.240.455
3buvNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.455
3duyAFJBeta-secretase 13.4.23.460.455
3jusBCDLanosterol 14-alpha demethylase1.14.13.700.455
4bb3KKAIsopenicillin N synthase1.21.3.10.455
4j0v1H7Beta-secretase 13.4.23.460.455
4jicFMNGTN Reductase/0.455
1me6IVSPlasmepsin-23.4.23.390.454
3pkdY10Methionine aminopeptidase 2/0.454
4f5yC2EStimulator of interferon genes protein/0.454
2cnsACORibosomal-protein-alanine acetyltransferase/0.453
2xuhTZ4Acetylcholinesterase3.1.1.70.453
3g0gRUMDipeptidyl peptidase 4/0.453
3pkeY10Methionine aminopeptidase 2/0.453
3w8eNAD3-hydroxybutyrate dehydrogenase/0.453
4hp8NAP2-deoxy-D-gluconate 3-dehydrogenase/0.453
4mlp2CXCryptochrome-2/0.453
1fapRAPPeptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.452
1fapRAPSerine/threonine-protein kinase mTOR2.7.11.10.452
1n77ATPGlutamate--tRNA ligase6.1.1.170.452
1n95HFPProtein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha/0.452
1n95HFPProtein farnesyltransferase subunit beta2.5.1.580.452
2a0wDIHPurine nucleoside phosphorylase2.4.2.10.452
2yd0BESEndoplasmic reticulum aminopeptidase 13.4.110.452
3af1GDPPantothenate kinase2.7.1.330.452
3sfh1DIHistone deacetylase 83.5.1.980.452
3zeiAWHO-acetylserine sulfhydrylase/0.452
4ambDUDPutative glycosyl transferase/0.452
4gdcNDPUDP-galactopyranose mutase/0.452
4rquNADAlcohol dehydrogenase class-P/0.452
1x7hNDPPutative ketoacyl reductase1.3.10.451
2cekN8TAcetylcholinesterase3.1.1.70.451
2rfiSAHHistone-lysine N-methyltransferase EHMT1/0.451
2wp9CBESuccinate dehydrogenase iron-sulfur subunit1.3.5.10.451
2wp9CBESuccinate dehydrogenase cytochrome b556 subunit/0.451
4a83DXCMajor pollen allergen Bet v 1-A/0.451
1zgcA2EAcetylcholinesterase3.1.1.70.450
2b3dFADModulator of drug activity B/0.450
2b4tAESGlyceraldehyde-3-phosphate dehydrogenase/0.450
2g1y5IGRenin3.4.23.150.450
2iviACWIsopenicillin N synthase1.21.3.10.450
2ktdPUCProstaglandin-H2 D-isomerase5.3.99.20.450
2q2vNADBeta-D-hydroxybutyrate dehydrogenase/0.450
3lpjZ75Beta-secretase 13.4.23.460.450
3mj4URMUDP-galactopyranose mutase/0.450
3n3zIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.450
3oagLPQRenin3.4.23.150.450
1e3eNAIAlcohol dehydrogenase 41.1.1.10.449
1f8fNADBenzyl alcohol dehydrogenase/0.449
1g63FMNEpidermin decarboxylase4.1.10.449
2c1zU2FAnthocyanidin 3-O-glucosyltransferase 22.4.1.1150.449
2wu4HBPAcetylcholinesterase3.1.1.70.449
2xuqTZ4Acetylcholinesterase3.1.1.70.449
2yimMC4Probable alpha-methylacyl-CoA racemase Mcr (2-methylacyl-CoA racemase) (2-arylpropionyl-CoA epimerase )/0.449
2zbaZBATrichothecene 3-O-acetyltransferase/0.449
3e34ED1Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha/0.449
3e34ED1Protein farnesyltransferase subunit beta2.5.1.580.449
3kxw1ZZSaframycin Mx1 synthetase B/0.449
4lxk1YTBeta-secretase 13.4.23.460.449
4z61ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.449
4mqt2CUMuscarinic acetylcholine receptor M2/0.449
1c7oPPGHemolysin/0.448
1h61PDNPentaerythritol tetranitrate reductase/0.448
2p8hMY9Beta-secretase 13.4.23.460.448
3b70NAPEnoyl reductase LovC10.448
3dgaNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.448
3g1rFIT3-oxo-5-beta-steroid 4-dehydrogenase/0.448
3h3sH15Collagen type IV alpha-3-binding protein/0.448
4b64FADL-ornithine N(5)-monooxygenase/0.448
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.448
4gg1TZDBenzoylformate decarboxylase4.1.1.70.448
2c31TZDOxalyl-CoA decarboxylase4.1.1.80.447
2ha6SCKAcetylcholinesterase3.1.1.70.447
2lfoGCHFatty acid-binding protein, liver/0.447
3h3qH13Collagen type IV alpha-3-binding protein/0.447
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.447
3qfrFMNNADPH--cytochrome P450 reductase/0.447
4a312CBGlycylpeptide N-tetradecanoyltransferase/0.447
4gl4NAIAlcohol dehydrogenase class-3/0.447
1c9wNAPAldose reductase-related protein 2/0.446
1kqbFMNOxygen-insensitive NAD(P)H nitroreductase/0.446
2fxuBIDActin, alpha skeletal muscle/0.446
2yoj8Y6Genome polyprotein2.7.7.480.446
3af3GCPPantothenate kinase2.7.1.330.446
3qwbNDPProbable quinone oxidoreductase1.6.5.50.446
3w8fNAD3-hydroxybutyrate dehydrogenase/0.446
4gz612VUDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit/0.446
4kbyC2EStimulator of interferon genes protein/0.446
1ma0NADAlcohol dehydrogenase class-31.1.1.10.445
2a0xDIHPurine nucleoside phosphorylase2.4.2.10.445
2fznFADBifunctional protein PutA1.5.5.20.445
2rirNAPDipicolinate synthase subunit A/0.445
2v13C40Renin3.4.23.150.445
2z3nPHE_ARG_TYR_LEU_GLYLeucyl/phenylalanyl-tRNA--protein transferase2.3.2.60.445
3c3eGDP2-phospho-L-lactate transferase/0.445
3dys5GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.445
3eu5GBOProtein farnesyltransferase subunit beta2.5.1.580.445
3hy9098A disintegrin and metalloproteinase with thrombospondin motifs 53.4.240.445
3p62FMNPentaerythritol tetranitrate reductase/0.445
4b1c1B1Beta-secretase 13.4.23.460.445
4b68FADL-ornithine N(5)-monooxygenase/0.445
4drjRAPSerine/threonine-protein kinase mTOR2.7.11.10.445
4drjRAPPeptidyl-prolyl cis-trans isomerase FKBP45.2.1.80.445
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.445
4jt91NSNAD-dependent protein deacetylase sirtuin-3, mitochondrial3.5.10.445
4krs1SXTankyrase-12.4.2.300.445
4rvnCOAPhenylacetate-coenzyme A ligase/0.445
4trnNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.445
1bk0ACVIsopenicillin N synthase1.21.3.10.444
1h22E10Acetylcholinesterase3.1.1.70.444
2gywOBIAcetylcholinesterase3.1.1.70.444
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.444
3ekuCY9Actin-5C/0.444
3f1kNAPUncharacterized oxidoreductase YciK10.444
3jsxCC2NAD(P)H dehydrogenase [quinone] 11.6.5.20.444
4ke11R6Beta-secretase 13.4.23.460.444
4uymVOR14-alpha sterol demethylase Cyp51B/0.444
1qtiGNTAcetylcholinesterase3.1.1.70.443
1udyFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.443
2igqSAHHistone-lysine N-methyltransferase EHMT1/0.443
2vyqFADFerredoxin--NADP reductase1.18.1.20.443
2y60M8FIsopenicillin N synthase1.21.3.10.443
2ztmNADD(-)-3-hydroxybutyrate dehydrogenase/0.443
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.443
3dy8IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.443
3gwfNAPCyclohexanone monooxygenase/0.443
3h7rNAPAldo-keto reductase family 4 member C8/0.443
3wieDN4Glucose 1-dehydrogenase/0.443
3wv7ADPHmd co-occurring protein HcgE/0.443
4g2j0WFHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.443
4g67SAHUncharacterized ACR, COG1565 superfamily/0.443
4i1iNADMalate dehydrogenase/0.443
4x7uZM3Mycinamicin III 3''-O-methyltransferase2.1.1.2370.443
4xwtU5PRibonuclease J/0.443
1tl7FOKAdenylate cyclase type 2/0.442
1tl7FOKAdenylate cyclase type 5/0.442
2ea2F77Methionine aminopeptidase 2/0.442
2g25TDKPyruvate dehydrogenase E1 component1.2.4.10.442
2h3wHC5Carnitine O-acetyltransferase2.3.1.70.442
2ifaFMNUncharacterized protein/0.442
2po7CHDFerrochelatase, mitochondrial4.99.1.10.442
3em0CHDFatty acid-binding protein 6, ileal (gastrotropin)/0.442
3kmtSAHHistone H3K27 methylase/0.442
3oadLPORenin3.4.23.150.442
4b79NADProbable short-chain dehydrogenase/0.442
4cf6CBDNAD(P)H dehydrogenase [quinone] 11.6.5.20.442
4lxb7R9Prothrombin3.4.21.50.442
5a0112VO-glycosyltransferase/0.442
1o5gCR9Prothrombin3.4.21.50.441
1tqf32PBeta-secretase 13.4.23.460.441
2iibC5PAlpha-2,3/2,6-sialyltransferase/sialidase/0.441
2j3qTFLAcetylcholinesterase3.1.1.70.441
2wzySQXSoluble acetylcholine receptor/0.441
3mo0SAHHistone-lysine N-methyltransferase EHMT1/0.441
3u8k09PAcetylcholine-binding protein/0.441
3v2uATPProtein GAL3/0.441
3zvmADPBifunctional polynucleotide phosphatase/kinase2.7.1.780.441
4b63FADL-ornithine N(5)-monooxygenase/0.441
4bc7FADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.441
4eu8COASuccinyl-CoA:acetate CoA-transferase/0.441
4m6jNDPDihydrofolate reductase1.5.1.30.441
4rvfTYDD-mycarose 3-C-methyltransferase/0.441
1gj4132Prothrombin3.4.21.50.440
1gvhFADFlavohemoprotein/0.440
1lf2R37Plasmepsin-23.4.23.390.440
1tcoFK5Peptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.440
1tcoFK5Serine/threonine-protein phosphatase 2B catalytic subunit alpha isoform3.1.3.160.440
2gesCOKPantothenate kinase2.7.1.330.440
2o8jSAHHistone-lysine N-methyltransferase EHMT2/0.440
2xc3RT8Steroid C26-monooxygenase1.14.13.1410.440
3intFDAUDP-galactopyranose mutase5.4.99.90.440
3own3OXRenin3.4.23.150.440
3pftFMNFlavin reductase/0.440
4a802ANMajor pollen allergen Bet v 1-A/0.440
4eb7PLPCysteine desulfurase IscS 2/0.440
4epq0RRPoly(ADP-ribose) glycohydrolase/0.440
4hmz18TdTDP-4-dehydro-6-deoxyglucose 3-epimerase5.1.3.270.440
4xguADPPutative pachytene checkpoint protein 2/0.440
5c77SAHProtein arginine N-methyltransferase SFM1/0.440
3ny9JSZBeta-2 adrenergic receptor/0.440