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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
1i7mCGS-adenosylmethionine decarboxylase proenzyme4.1.1.50

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
1i7mCGS-adenosylmethionine decarboxylase proenzyme4.1.1.501.000
3dz7O8MS-adenosylmethionine decarboxylase proenzyme4.1.1.500.621
3dz4C8MS-adenosylmethionine decarboxylase proenzyme4.1.1.500.608
1i7cMGBS-adenosylmethionine decarboxylase proenzyme4.1.1.500.605
3dz2A8MS-adenosylmethionine decarboxylase proenzyme4.1.1.500.593
3h0wN8MS-adenosylmethionine decarboxylase proenzyme4.1.1.500.576
3dz6M8ES-adenosylmethionine decarboxylase proenzyme4.1.1.500.566
3h0vM2TS-adenosylmethionine decarboxylase proenzyme4.1.1.500.516
3rsv3RSBeta-secretase 13.4.23.460.514
1u65CP0Acetylcholinesterase3.1.1.70.511
1eveE20Acetylcholinesterase3.1.1.70.510
3zc3FADFerredoxin--NADP reductase1.18.1.20.507
2w6cBM4Acetylcholinesterase3.1.1.70.504
2j3qTFLAcetylcholinesterase3.1.1.70.500
4a312CBGlycylpeptide N-tetradecanoyltransferase/0.499
1h22E10Acetylcholinesterase3.1.1.70.495
1h60STRPentaerythritol tetranitrate reductase/0.495
1g63FMNEpidermin decarboxylase4.1.10.494
1w4lGL8Acetylcholinesterase3.1.1.70.492
2xuqTZ4Acetylcholinesterase3.1.1.70.492
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.490
1vbiNADMalate/L-lactate dehydrogenase family protein/0.489
2gyuHI6Acetylcholinesterase3.1.1.70.489
2xuiTZ5Acetylcholinesterase3.1.1.70.487
4arbC57Acetylcholinesterase3.1.1.70.487
5d6lCAUBeta-2 adrenergic receptor/0.487
3dyqIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.485
3qgf46FGenome polyprotein2.7.7.480.483
2ejzSAHDiphthine synthase/0.482
4b13X25Glycylpeptide N-tetradecanoyltransferase/0.482
4b7zQ4QAcetylcholinesterase3.1.1.70.482
2xupTZ5Acetylcholinesterase3.1.1.70.481
4a322CDGlycylpeptide N-tetradecanoyltransferase/0.481
4e32DWNMethyltransferase/0.481
4b144XBGlycylpeptide N-tetradecanoyltransferase/0.479
3irhDTPHD domain protein/0.478
3s5wFADL-ornithine N(5)-monooxygenase/0.478
4b7754MBeta-secretase 13.4.23.460.478
2bn4FMNNADPH--cytochrome P450 reductase/0.476
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.476
3n3zIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.476
1amoFMNNADPH--cytochrome P450 reductase/0.473
3n71SFGHistone-lysine N-methyltransferase Smyd1/0.473
4r5wXAVPoly [ADP-ribose] polymerase 12.4.2.300.472
2xlpNAPPutative flavin-containing monooxygenase/0.471
4b12C23Glycylpeptide N-tetradecanoyltransferase/0.471
4c2z646Glycylpeptide N-tetradecanoyltransferase 1/0.471
5dsyUHBPoly [ADP-ribose] polymerase 22.4.2.300.471
1qtiGNTAcetylcholinesterase3.1.1.70.470
2ha6SCKAcetylcholinesterase3.1.1.70.470
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.470
4b2gV1NUncharacterized protein/0.470
4n82FMNRibonucleotide reductase (NrdI family protein), putative/0.470
1nm6L86Prothrombin3.4.21.50.469
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.469
1ut6A8NAcetylcholinesterase3.1.1.70.469
1z71L17Prothrombin3.4.21.50.469
3nubUD0UDP-2-acetamido-2-deoxy-3-oxo-D-glucuronate aminotransferase2.6.1.980.469
2nmtMIMGlycylpeptide N-tetradecanoyltransferase2.3.1.970.468
2uuk897Prothrombin3.4.21.50.468
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.468
4nzhFADL-ornithine N(5)-monooxygenase/0.468
1tcoFK5Peptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.467
1tcoFK5Serine/threonine-protein phosphatase 2B catalytic subunit alpha isoform3.1.3.160.467
3b9oFMNAlkane monoxygenase/0.467
3dy8IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.467
3hl0NADMaleylacetate reductase/0.467
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.467
4gv25MEPoly [ADP-ribose] polymerase 32.4.2.300.467
4tvj09LPoly [ADP-ribose] polymerase 22.4.2.300.467
2rd2QSIGlutamine--tRNA ligase6.1.1.180.466
3qe2FMNNADPH--cytochrome P450 reductase/0.466
4drjRAPSerine/threonine-protein kinase mTOR2.7.11.10.466
4drjRAPPeptidyl-prolyl cis-trans isomerase FKBP45.2.1.80.466
2bf4FMNNADPH--cytochrome P450 reductase/0.465
3e4aQIXInsulin-degrading enzyme3.4.24.560.465
3i7vB4PAP4A hydrolase/0.465
2g28TDKPyruvate dehydrogenase E1 component1.2.4.10.464
2g8yNADHydroxycarboxylate dehydrogenase B/0.464
2xukTZ5Acetylcholinesterase3.1.1.70.464
3l3mA92Poly [ADP-ribose] polymerase 12.4.2.300.464
4b66NAPL-ornithine N(5)-monooxygenase/0.464
4drhRAPSerine/threonine-protein kinase mTOR2.7.11.10.464
4drhRAPPeptidyl-prolyl cis-trans isomerase FKBP55.2.1.80.464
4dyn0MRNucleoprotein/0.464
4m0f1YKAcetylcholinesterase3.1.1.70.464
1ja0FMNNADPH--cytochrome P450 reductase/0.463
2qmyFADRibosyldihydronicotinamide dehydrogenase [quinone]/0.463
3dylPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.463
5d5aCAUBeta-2 adrenergic receptor/0.462
1hi0GTPRNA-directed RNA polymerase2.7.7.480.461
2cekN8TAcetylcholinesterase3.1.1.70.461
2wsa646Glycylpeptide N-tetradecanoyltransferase/0.461
4araC56Acetylcholinesterase3.1.1.70.461
4e2zJHZMethyltransferase/0.461
4g2j0WFHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.461
4gv4MEJPoly [ADP-ribose] polymerase 32.4.2.300.461
4pl0ANPMicrocin-J25 export ATP-binding/permease protein McjD/0.461
2pbwDOQGlutamate receptor ionotropic, kainate 1/0.460
2zdv37UProthrombin3.4.21.50.460
3jswJARHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.460
3mhpFADFerredoxin--NADP reductase, leaf isozyme, chloroplastic1.18.1.20.460
4qoeFADRibosyldihydronicotinamide dehydrogenase [quinone]/0.460
5jqhCAUBeta-2 adrenergic receptor/0.460
1fapRAPPeptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.459
1fapRAPSerine/threonine-protein kinase mTOR2.7.11.10.459
2j83BATUlilysin3.4.240.459
1q0zAKAAclacinomycin methylesterase RdmC3.1.1.950.458
2zfr46UProthrombin3.4.21.50.458
3uayADNPurine nucleoside phosphorylase DeoD-type/0.458
4bb3KKAIsopenicillin N synthase1.21.3.10.458
5d4vYGPUncharacterized protein MJ0489/0.458
1fmlRTLRetinol dehydratase/0.457
1r6uTYMTryptophan--tRNA ligase, cytoplasmic6.1.1.20.457
1txtCAAHMG-CoA synthase/0.457
2cnsACORibosomal-protein-alanine acetyltransferase/0.457
2h21SAMRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic2.1.1.1270.457
2ipiAKYAclacinomycin-N/aclacinomycin-A oxidase/0.457
2xiq5ADMethylmalonyl-CoA mutase, mitochondrial/0.457
3c49KU8Poly [ADP-ribose] polymerase 32.4.2.300.457
4bfvZVVPantothenate kinase2.7.1.330.457
4e2yJHZMethyltransferase/0.457
1yplRA8Prothrombin3.4.21.50.456
1zgbA1EAcetylcholinesterase3.1.1.70.456
2geuCOKPantothenate kinase2.7.1.330.456
3dgeADPSensor histidine kinase/0.456
4hb9FADUncharacterized protein/0.456
1c4yIH3Prothrombin3.4.21.50.455
1h66RH1NAD(P)H dehydrogenase [quinone] 11.6.5.20.455
1kruIPTGalactoside O-acetyltransferase2.3.1.180.455
2b5oFADFerredoxin--NADP reductase1.18.1.20.455
4a30QMIGlycylpeptide N-tetradecanoyltransferase/0.455
4ey7E20Acetylcholinesterase3.1.1.70.455
4hh4SAHCcbJ/0.455
1d3dBZTProthrombin3.4.21.50.454
1yhjR6CPyridoxal kinase2.7.1.350.454
2e0nSAHPrecorrin-2 C20-methyltransferase/0.454
2g226IGRenin3.4.23.150.454
2pj4414Carboxypeptidase B/0.454
2xysSY9Soluble acetylcholine receptor/0.454
3hiiPNTAmiloride-sensitive amine oxidase [copper-containing]/0.454
5dp2NAPCurF/0.454
1h61PDNPentaerythritol tetranitrate reductase/0.453
1r6tTYMTryptophan--tRNA ligase, cytoplasmic6.1.1.20.453
2mokFMNFlavodoxin 1/0.453
2qf2GDPPhosphoenolpyruvate carboxykinase, cytosolic [GTP]4.1.1.320.453
2qg4UGAUDP-glucose 6-dehydrogenase1.1.1.220.453
3c1oNAPEugenol synthase/0.453
3hdqGDUUDP-galactopyranose mutase/0.453
3sqzCOAPutative hydroxymethylglutaryl-CoA synthase/0.453
4bcaFADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.453
5jhnSAMHistone-lysine N-methyltransferase EHMT2/0.453
1ld7U66Protein farnesyltransferase subunit beta2.5.1.580.452
1n95HFPProtein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha/0.452
1n95HFPProtein farnesyltransferase subunit beta2.5.1.580.452
1uxyEPUUDP-N-acetylenolpyruvoylglucosamine reductase1.3.1.980.452
1x1cSAHC-20 methyltransferase/0.452
2q7oIMHPurine nucleoside phosphorylase2.4.2.10.452
2rdn1PL1-deoxypentalenic acid 11-beta-hydroxylase1.14.11.350.452
2xq0BESLeukotriene A-4 hydrolase homolog3.3.2.60.452
3aivHBO4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase, chloroplastic3.2.1.1820.452
3jsxCC2NAD(P)H dehydrogenase [quinone] 11.6.5.20.452
3l3lL3LPoly [ADP-ribose] polymerase 12.4.2.300.452
3ou6SAMSAM-dependent methyltransferase/0.452
3ppkFNISerine/threonine-protein kinase B-raf2.7.11.10.452
4af7FADFerredoxin--NADP reductase, leaf isozyme, chloroplastic1.18.1.20.452
4b117I1Glycylpeptide N-tetradecanoyltransferase/0.452
4bprFADFerredoxin--NADP reductase1.18.1.20.452
4c5oFADPutative monooxygenase/0.452
4tnzTTPDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.452
1odcA8BAcetylcholinesterase3.1.1.70.451
1q0rAKTAclacinomycin methylesterase RdmC3.1.1.950.451
1x1bSAHC-20 methyltransferase/0.451
2iwhANPElongation factor 3A/0.451
2xuoTZ4Acetylcholinesterase3.1.1.70.451
3wqmB29Diterpene synthase3.1.7.80.451
4bvnP32Beta-1 adrenergic receptor/0.451
5d5bCAUBeta-2 adrenergic receptor/0.451
1kbo340NAD(P)H dehydrogenase [quinone] 11.6.5.20.450
1s63778Protein farnesyltransferase subunit beta2.5.1.580.450
2jgbMGTEukaryotic translation initiation factor 4E type 2/0.450
4amjCVDBeta-1 adrenergic receptor/0.450
4dan2FAPurine nucleoside phosphorylase DeoD-type2.4.2.10.450
4lcnGNGCytidine and deoxycytidylate deaminase zinc-binding region/0.450
5c1gGDUHisto-blood group ABO system transferase/0.450
1c9wNAPAldose reductase-related protein 2/0.449
1kyxCRM6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.449
2a3bCFFEndochitinase B13.2.1.140.449
2xufTZ4Acetylcholinesterase3.1.1.70.449
2y1w849Histone-arginine methyltransferase CARM1/0.449
3gjwGJWPoly [ADP-ribose] polymerase 12.4.2.300.449
3ukoNADAlcohol dehydrogenase class-3/0.449
4i0h1BLBeta-secretase 13.4.23.460.449
4j7hTRHPCZA361.3/0.449
4oe4NADDelta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial1.2.1.880.449
4qtuSAM18S rRNA (guanine(1575)-N(7))-methyltransferase/0.449
4to5DCPDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.449
4xvySAHMycinamicin III 3''-O-methyltransferase2.1.1.2370.449
5cfn2BAStimulator of interferon genes protein/0.449
1gzuNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 12.7.7.10.448
1o1s1NHProtein farnesyltransferase subunit beta2.5.1.580.448
2dxiATPGlutamate--tRNA ligase6.1.1.170.448
2g1n1IGRenin3.4.23.150.448
2ok8FADFerredoxin--NADP reductase, apicoplast/0.448
3d5wADPSerine/threonine-protein kinase PLK/0.448
3jsiWTCHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.448
3ojwFMNNADPH--cytochrome P450 reductase/0.448
3w5hFADNADH-cytochrome b5 reductase 31.6.2.20.448
4ips1G4Mycocyclosin synthase1.14.21.90.448
1h42FADFerredoxin--NADP reductase1.18.1.20.447
1lceTMFThymidylate synthase/0.447
2gpjFADSiderophore-interacting protein/0.447
2ql6TIZNicotinamide riboside kinase 1/0.447
3ou7SAMSAM-dependent methyltransferase/0.447
3uzzTES3-oxo-5-beta-steroid 4-dehydrogenase/0.447
1fnbFADFerredoxin--NADP reductase, chloroplastic1.18.1.20.446
1ja1FMNNADPH--cytochrome P450 reductase/0.446
1ld8U49Protein farnesyltransferase subunit beta2.5.1.580.446
1x8lOXRRetinol dehydratase/0.446
2j9lATPH(+)/Cl(-) exchange transporter 5/0.446
2y1x845Histone-arginine methyltransferase CARM1/0.446
2zhe13UProthrombin3.4.21.50.446
3ig6438Urokinase-type plasminogen activator3.4.21.730.446
4acuQN7Beta-secretase 13.4.23.460.446
4glx0XSDNA ligase6.5.1.20.446
4gv08MEPoly [ADP-ribose] polymerase 32.4.2.300.446
4kfqKFQGlutamate receptor ionotropic, NMDA 1/0.446
4rlh0WEEnoyl-[acyl-carrier-protein] reductase [NADH]/0.446
1ozpACOMycothiol acetyltransferase2.3.1.1890.445
1w35FADFerredoxin--NADP reductase1.18.1.20.445
2bdyUNBProthrombin3.4.21.50.445
2e9aB28Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.445
3nljH4BNitric oxide synthase, brain1.14.13.390.445
3nw3MU2Peptidoglycan recognition protein 1/0.445
3pkdY10Methionine aminopeptidase 2/0.445
3rthRTHBeta-secretase 13.4.23.460.445
3s7bNH5N-lysine methyltransferase SMYD2/0.445
4f5dC2EStimulator of interferon genes protein/0.445
4j7gTRHPCZA361.3/0.445
1gj5130Prothrombin3.4.21.50.444
1jdzFMBPurine nucleoside phosphorylase/0.444
1q84TZ4Acetylcholinesterase3.1.1.70.444
1ypeUIPProthrombin3.4.21.50.444
2a57CRM6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.444
2y6fM9FIsopenicillin N synthase1.21.3.10.444
2z7hGG3Geranylgeranyl pyrophosphate synthase/0.444
2zevIPEGeranylgeranyl pyrophosphate synthase/0.444
3bi6396Wee1-like protein kinase2.7.10.20.444
3fpdSAHHistone-lysine N-methyltransferase EHMT1/0.444
3intGDUUDP-galactopyranose mutase5.4.99.90.444
3iocA5DPantothenate synthetase6.3.2.10.444
4a3uFMNNADH:flavin oxidoreductase/NADH oxidase/0.444
4b63NAPL-ornithine N(5)-monooxygenase/0.444
4bbhYBNGlycylpeptide N-tetradecanoyltransferase/0.444
4fizCUE17beta-hydroxysteroid dehydrogenase/0.444
4xwtU5PRibonuclease J/0.444
1a9p9DIPurine nucleoside phosphorylase2.4.2.10.443
1qrsATPGlutamine--tRNA ligase6.1.1.180.443
1rszDIHPurine nucleoside phosphorylase2.4.2.10.443
1uk0FRMPoly [ADP-ribose] polymerase 12.4.2.300.443
1xs7MMIBeta-secretase 13.4.23.460.443
2vf3GVS4-diphosphocytidyl-2-C-methyl-D-erythritol kinase/0.443
3br3ETHTH-type transcriptional regulator QacR/0.443
3fktSIIBeta-secretase 13.4.23.460.443
3gn73GNPoly [ADP-ribose] polymerase 12.4.2.300.443
3prfFP3Serine/threonine-protein kinase B-raf2.7.11.10.443
4ax9N5NProthrombin3.4.21.50.443
4h3j10WBeta-secretase 13.4.23.460.443
4l6s1WQPoly [ADP-ribose] polymerase 12.4.2.300.443
4lutDCSAlanine racemase/0.443
1w6rGNTAcetylcholinesterase3.1.1.70.442
1ygjRMCPyridoxal kinase2.7.1.350.442
2futH1SHeparin and heparin-sulfate lyase/0.442
2xugTZ4Acetylcholinesterase3.1.1.70.442
2xuhTZ4Acetylcholinesterase3.1.1.70.442
2zda32UProthrombin3.4.21.50.442
3cr0809Wee1-like protein kinase2.7.10.20.442
3rtnRTNBeta-secretase 13.4.23.460.442
3voiRCBGlucanase/0.442
4b68NAPL-ornithine N(5)-monooxygenase/0.442
4da7AC2Purine nucleoside phosphorylase DeoD-type2.4.2.10.442
5d7qAR6NAD-dependent protein deacetylase sirtuin-23.5.10.442
1bx0FADFerredoxin--NADP reductase, chloroplastic1.18.1.20.441
1x1dSAHC-20 methyltransferase/0.441
2gesCOKPantothenate kinase2.7.1.330.441
3g72A6TRenin3.4.23.150.441
3tfuPL8Adenosylmethionine-8-amino-7-oxononanoate aminotransferase2.6.1.620.441
4z64ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.441
5a4vQUEGlutathione S-transferase F22.5.1.180.441
5ds309LPoly [ADP-ribose] polymerase 12.4.2.300.441
4u140HKMuscarinic acetylcholine receptor M3/0.441
1c3x8IGPurine nucleoside phosphorylase2.4.2.10.440
1hb3SCVIsopenicillin N synthase1.21.3.10.440
1k4mNADNicotinate-nucleotide adenylyltransferase2.7.7.180.440
1mkdZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.440
1s3uTQDDihydrofolate reductase1.5.1.30.440
1zgcA2EAcetylcholinesterase3.1.1.70.440
2cbqTH2Neocarzinostatin/0.440
2e8uIPEGeranylgeranyl pyrophosphate synthase/0.440
2gv8NDPThiol-specific monooxygenase1.14.130.440
2o6hINI6,7-dimethyl-8-ribityllumazine synthase 12.5.1.780.440
2vq7NAPPutative flavin-containing monooxygenase/0.440
3buvNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.440
3dylIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440
3ksqZ96Protein farnesyltransferase subunit beta2.5.1.580.440
3ndjJHZMethyltransferase/0.440
3zkyWT4Isopenicillin N synthase1.21.3.10.440
4a86H35Major pollen allergen Bet v 1-A/0.440
4j0v1H7Beta-secretase 13.4.23.460.440
4kq6DLZ6,7-dimethyl-8-ribityllumazine synthase/0.440
5czySAMEukaryotic huntingtin interacting protein B/0.440
2ycxP32Beta-1 adrenergic receptor/0.440