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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
4da50H7Choline kinase alpha2.7.1.32

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
4da50H7Choline kinase alpha2.7.1.321.000
4br3U85Choline kinase alpha2.7.1.320.593
3zm9QMQCholine kinase alpha2.7.1.320.564
4cg8G8SCholine kinase alpha2.7.1.320.517
1e1fPSG4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase 1, chloroplastic3.2.1.1820.514
1odcA8BAcetylcholinesterase3.1.1.70.509
1tcoFK5Peptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.508
1tcoFK5Serine/threonine-protein phosphatase 2B catalytic subunit alpha isoform3.1.3.160.508
1votHUPAcetylcholinesterase3.1.1.70.497
1e66HUXAcetylcholinesterase3.1.1.70.495
2gg9U16Methionine aminopeptidase/0.495
4gv08MEPoly [ADP-ribose] polymerase 32.4.2.300.495
4gv4MEJPoly [ADP-ribose] polymerase 32.4.2.300.495
1w6rGNTAcetylcholinesterase3.1.1.70.494
2ea4F79Methionine aminopeptidase 2/0.490
3ai0PNWBeta-glucosidase/0.490
3zj6VM2Raucaffricine-O-beta-D-glucosidase3.2.1.1250.490
2whqHI6Acetylcholinesterase3.1.1.70.488
2xuoTZ4Acetylcholinesterase3.1.1.70.488
4mr72BVGamma-aminobutyric acid type B receptor subunit 1/0.486
2evmFC2Methionine aminopeptidase/0.485
4xt8TMQPossible bifunctional enzyme riboflavin biosynthesis protein RibD: diaminohydroxyphosphoribosylaminopyrimidine deaminase (Riboflavin-specific deaminase) + 5-amino-6-(5-phosphoribosylamino)uracil reduc/0.484
2gg8U15Methionine aminopeptidase/0.483
1ja1FMNNADPH--cytochrome P450 reductase/0.482
2ipjFFAAldo-keto reductase family 1 member C2/0.482
4psbGA3Cytokinin-specific binding protein/0.482
3i0oSMISpectinomycin phosphotransferase/0.480
1gpnHUBAcetylcholinesterase3.1.1.70.478
4drjRAPSerine/threonine-protein kinase mTOR2.7.11.10.476
4drjRAPPeptidyl-prolyl cis-trans isomerase FKBP45.2.1.80.476
1xidASCXylose isomerase5.3.1.50.474
3hr4FMNNitric oxide synthase, inducible1.14.13.390.474
2xufTZ4Acetylcholinesterase3.1.1.70.471
3fi8OPECholine kinase/0.471
4j0t6T9Beta-secretase 13.4.23.460.471
2a58RBF6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.470
2a59LMZ6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.470
4gv25MEPoly [ADP-ribose] polymerase 32.4.2.300.470
4mrm2BYGamma-aminobutyric acid type B receptor subunit 1/0.469
1v08NTZ4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase 1, chloroplastic3.2.1.1820.468
3fhxPXLPyridoxal kinase2.7.1.350.468
3hiiPNTAmiloride-sensitive amine oxidase [copper-containing]/0.468
2x91LPRAngiotensin-converting enzyme3.4.15.10.467
2xjeU5PCytosolic purine 5'-nucleotidase3.1.3.50.467
3ojxFMNNADPH--cytochrome P450 reductase/0.467
4j0v1H7Beta-secretase 13.4.23.460.466
4j4nD44Peptidylprolyl isomerase/0.466
5cxv0HKMuscarinic acetylcholine receptor M1/0.466
2gyuHI6Acetylcholinesterase3.1.1.70.465
1qtiGNTAcetylcholinesterase3.1.1.70.464
1y2c3DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.464
2aj4ANPGalactokinase2.7.1.60.464
3h3qH13Collagen type IV alpha-3-binding protein/0.464
3w2eFADNADH-cytochrome b5 reductase 31.6.2.20.464
3zj7C1KStrictosidine-O-beta-D-glucosidase3.2.1.1050.464
4a7yNHFAldos-2-ulose dehydratase/0.464
1j36LPRAngiotensin-converting enzyme3.4.15.10.463
1qw514WNitric oxide synthase, inducible1.14.13.390.463
3gf4U5PUDP-galactopyranose mutase5.4.99.90.463
4a30QMIGlycylpeptide N-tetradecanoyltransferase/0.463
4bfuZVUPantothenate kinase2.7.1.330.463
4tvj09LPoly [ADP-ribose] polymerase 22.4.2.300.463
1k4mNADNicotinate-nucleotide adenylyltransferase2.7.7.180.462
1p0pBCHCholinesterase3.1.1.80.462
2ha6SCKAcetylcholinesterase3.1.1.70.462
2xiq5ADMethylmalonyl-CoA mutase, mitochondrial/0.462
3g1rNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.462
3l3lL3LPoly [ADP-ribose] polymerase 12.4.2.300.462
4a959MTGlycylpeptide N-tetradecanoyltransferase/0.462
4ey6GNTAcetylcholinesterase3.1.1.70.462
2cdaNAPGlucose 1-dehydrogenase/0.461
3hl0NADMaleylacetate reductase/0.461
2ckmAA7Acetylcholinesterase3.1.1.70.460
2rcwAAIPoly [ADP-ribose] polymerase 12.4.2.300.460
2rd678PPoly [ADP-ribose] polymerase 12.4.2.300.460
3v0p4GWHisto-blood group ABO system transferase/0.460
4qfxDGTDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.460
5ao1DG3Deoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.460
1kyxCRM6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.459
1u65CP0Acetylcholinesterase3.1.1.70.459
2fhjH4ZFormylmethanofuran--tetrahydromethanopterin formyltransferase2.3.1.1010.459
2i65NADADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 13.2.2.60.459
3gjwGJWPoly [ADP-ribose] polymerase 12.4.2.300.459
4to4DCPDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.459
2b82ADNClass B acid phosphatase3.1.3.20.458
2ga2A19Methionine aminopeptidase 2/0.458
4i101BSBeta-secretase 13.4.23.460.458
1x2hLPALipoate-protein ligase A6.3.1.200.457
1xorZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.457
2aj8SC3Dipeptidyl peptidase 4/0.457
2q94A04Methionine aminopeptidase/0.457
2weaPP6Penicillopepsin-13.4.23.200.457
2yneYNEGlycylpeptide N-tetradecanoyltransferase/0.457
3ab1FADFerredoxin--NADP reductase1.18.1.20.457
3h3r14HCollagen type IV alpha-3-binding protein/0.457
3q9bB3NAcetylpolyamine amidohydrolase/0.457
4dyp0MSNucleoprotein/0.457
4n9qFMNFMN-dependent NADH-azoreductase 1/0.457
1lb9DNQGlutamate receptor 2/0.456
1zgcA2EAcetylcholinesterase3.1.1.70.456
2xysSY9Soluble acetylcholine receptor/0.456
3g5eQ74Aldose reductase1.1.1.210.456
4araC56Acetylcholinesterase3.1.1.70.456
4bfxZVXPantothenate kinase2.7.1.330.456
4f1q0RZPoly [ADP-ribose] polymerase 142.4.2.300.456
1dtnAPGMandelate racemase/0.455
1jdzFMBPurine nucleoside phosphorylase/0.455
1xmmM7Gm7GpppX diphosphatase3.6.1.590.455
3b5iSAHIndole-3-acetate O-methyltransferase 1/0.455
3pkeY10Methionine aminopeptidase 2/0.455
3zv7NHGAcetylcholinesterase3.1.1.70.455
4gaaBESLeukotriene A(4) hydrolase/0.455
4j7hTRHPCZA361.3/0.455
1kyvRBF6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.454
1paxDHQPoly [ADP-ribose] polymerase 12.4.2.300.454
1z5uCMPClass B acid phosphatase/0.454
2a3bCFFEndochitinase B13.2.1.140.454
3aivHBO4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase, chloroplastic3.2.1.1820.454
3bl7DD1m7GpppX diphosphatase3.6.1.590.454
3caqNDP3-oxo-5-beta-steroid 4-dehydrogenase/0.454
3uzxAOX3-oxo-5-beta-steroid 4-dehydrogenase/0.454
4bbhYBNGlycylpeptide N-tetradecanoyltransferase/0.454
4hcy0YNTransketolase/0.454
4xzjNADPutative NAD(+)--arginine ADP-ribosyltransferase Vis2.4.2.310.454
5aglH4BNitric oxide synthase, brain1.14.13.390.454
4daj0HKMuscarinic acetylcholine receptor M3/0.454
1ftlDNQGlutamate receptor 2/0.453
2ipiAKYAclacinomycin-N/aclacinomycin-A oxidase/0.453
2pb1NFGGlucan 1,3-beta-glucosidase/0.453
3junAJDPhenazine biosynthesis protein A/B/0.453
3vilSA0Beta-glucosidase/0.453
4arbC57Acetylcholinesterase3.1.1.70.453
4b64NAPL-ornithine N(5)-monooxygenase/0.453
4g090VDHistidinol dehydrogenase/0.453
1tllFMNNitric oxide synthase, brain1.14.13.390.452
1wkgPOI[LysW]-aminoadipate semialdehyde transaminase/0.452
2j62GSZO-GlcNAcase NagJ/0.452
3apwDP0Alpha-1-acid glycoprotein 2/0.452
3ojwFMNNADPH--cytochrome P450 reductase/0.452
3ufl508Beta-secretase 13.4.23.460.452
4b65NDPL-ornithine N(5)-monooxygenase/0.452
4bfvZVVPantothenate kinase2.7.1.330.452
4dyn0MRNucleoprotein/0.452
4fapARDPeptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.452
4fapARDSerine/threonine-protein kinase mTOR2.7.11.10.452
4j171HQBeta-secretase 13.4.23.460.452
4s1iPLPPyridoxal kinase, putative/0.452
4ts7ADPPurine phosphoribosyltransferase (GpT-1)/0.452
2v8pCDP4-diphosphocytidyl-2-C-methyl-D-erythritol kinase/0.451
3sqwANPATP-dependent RNA helicase MSS116, mitochondrial3.6.4.130.451
4qfyDCPDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.451
4qofFMNRibosyldihydronicotinamide dehydrogenase [quinone]/0.451
5agkH4BNitric oxide synthase, brain1.14.13.390.451
3b8xG4MPutative pyridoxamine 5-phosphate-dependent dehydrase/0.450
3fr5I4AFatty acid-binding protein, adipocyte/0.450
5bv3M7Gm7GpppX diphosphatase3.6.1.590.450
1dx6GNTAcetylcholinesterase3.1.1.70.449
1pwyAC2Purine nucleoside phosphorylase2.4.2.10.449
2cekN8TAcetylcholinesterase3.1.1.70.449
2xukTZ5Acetylcholinesterase3.1.1.70.449
3aiqHBO4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase 1b, chloroplastic3.2.1.1820.449
3mytEQUSteroid Delta-isomerase5.3.3.10.449
4h6pFMNChromate reductase/0.449
4jtqFLPAldo-keto reductase family 1 member C2/0.449
4r5wXAVPoly [ADP-ribose] polymerase 12.4.2.300.449
5ah5LSSLeucine--tRNA ligase/0.449
2g28TDKPyruvate dehydrogenase E1 component1.2.4.10.448
3zvmADPBifunctional polynucleotide phosphatase/kinase2.7.1.780.448
4b4w9L9Bifunctional protein FolD/0.448
4fouC2EUncharacterized protein/0.448
4hhz15SPoly [ADP-ribose] polymerase 12.4.2.300.448
4mr92BXGamma-aminobutyric acid type B receptor subunit 1/0.448
4ms1381Gamma-aminobutyric acid type B receptor subunit 1/0.448
1efyBZCPoly [ADP-ribose] polymerase 12.4.2.300.447
1nquRDL6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.447
2b3dFADModulator of drug activity B/0.447
2wsa646Glycylpeptide N-tetradecanoyltransferase/0.447
3gn73GNPoly [ADP-ribose] polymerase 12.4.2.300.447
3h3t16HCollagen type IV alpha-3-binding protein/0.447
3ugrIMNAldo-keto reductase family 1 member C3/0.447
4b68NAPL-ornithine N(5)-monooxygenase/0.447
4d6qPD2Lysine-specific demethylase 4D1.14.110.447
4fcb0T7cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.447
4iksTFDMethionine aminopeptidase 1/0.447
4jtrIZPAldo-keto reductase family 1 member C2/0.447
4zweDGTDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.447
5dsyUHBPoly [ADP-ribose] polymerase 22.4.2.300.447
1b87ACOAac(6')-Ii protein/0.446
1h22E10Acetylcholinesterase3.1.1.70.446
2aot2PMHistamine N-methyltransferase2.1.1.80.446
2bf4FMNNADPH--cytochrome P450 reductase/0.446
2r86ATP5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase/0.446
2xugTZ4Acetylcholinesterase3.1.1.70.446
2xy93ESAngiotensin-converting enzyme3.2.10.446
3l3mA92Poly [ADP-ribose] polymerase 12.4.2.300.446
3ziuLSSLeucyl-tRNA synthetase/0.446
4drhRAPSerine/threonine-protein kinase mTOR2.7.11.10.446
4drhRAPPeptidyl-prolyl cis-trans isomerase FKBP55.2.1.80.446
4iilRBFMembrane lipoprotein TpN38(b)/0.446
4tnyDGTDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.446
4tnzTTPDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.446
4zvnFADRibosyldihydronicotinamide dehydrogenase [quinone]/0.446
4u150HKMuscarinic acetylcholine receptor M3/0.446
1jqdSAHHistamine N-methyltransferase2.1.1.80.445
1ve3SAMUncharacterized protein/0.445
1y2k7DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.445
2ay3MPPAromatic-amino-acid aminotransferase2.6.1.570.445
2p98YE7Methionine aminopeptidase/0.445
3sni546cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.445
4jq3ZOMAldo-keto reductase family 1 member C2/0.445
4mm729JNa(+):neurotransmitter symporter (Snf family)/0.445
1kyyINI6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.444
1rpwDIDHTH-type transcriptional regulator QacR/0.444
1z6tADPApoptotic protease-activating factor 1/0.444
2aouCQAHistamine N-methyltransferase2.1.1.80.444
2ggbU17Methionine aminopeptidase/0.444
2q92B23Methionine aminopeptidase/0.444
2w6cBM4Acetylcholinesterase3.1.1.70.444
2zs9ADPPantothenate kinase2.7.1.330.444
3af0GDPPantothenate kinase2.7.1.330.444
3nxrD2DDihydrofolate reductase1.5.1.30.444
4a6rTA8Probable aminotransferase/0.444
4dyb0MHNucleoprotein/0.444
1fapRAPPeptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.443
1fapRAPSerine/threonine-protein kinase mTOR2.7.11.10.443
2xlpNAPPutative flavin-containing monooxygenase/0.443
3eblGA4Gibberellin receptor GID1/0.443
3g4iD71cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.443
3mauEXTPutative sphingosine-1-phosphate lyase/0.443
3u57DH8Raucaffricine-O-beta-D-glucosidase3.2.1.1250.443
4a16H34Acetylcholinesterase3.1.1.70.443
4nv1TYDFormyl transferase/0.443
4u163C0Muscarinic acetylcholine receptor M3/0.443
1r5hAO2Methionine aminopeptidase 2/0.442
2b58COADiamine acetyltransferase 1/0.442
2j3qTFLAcetylcholinesterase3.1.1.70.442
2j7dGI1Beta-glucosidase A3.2.1.210.442
2v5uFMNFlavodoxin/0.442
2xuhTZ4Acetylcholinesterase3.1.1.70.442
3bv7NAP3-oxo-5-beta-steroid 4-dehydrogenase/0.442
3c49KU8Poly [ADP-ribose] polymerase 32.4.2.300.442
3c72CX1Geranylgeranyl transferase type-2 subunit beta2.5.1.600.442
4a7zAY9Aldos-2-ulose dehydratase/0.442
4c2z646Glycylpeptide N-tetradecanoyltransferase 1/0.442
5hvnNAD3-dehydroquinate synthase/0.442
4u140HKMuscarinic acetylcholine receptor M3/0.442
1akcPPEAspartate aminotransferase, mitochondrial2.6.1.10.441
2v2vV124-diphosphocytidyl-2-C-methyl-D-erythritol kinase/0.441
2x94X94Angiotensin-converting enzyme3.4.15.10.441
2z7gEH9Adenosine deaminase3.5.4.40.441
3f8sPF2Dipeptidyl peptidase 4/0.441
3hxdBD7Geranylgeranyl transferase type-2 subunit beta2.5.1.600.441
3uzxAOM3-oxo-5-beta-steroid 4-dehydrogenase/0.441
4b7zQ4QAcetylcholinesterase3.1.1.70.441
4bftZVTPantothenate kinase2.7.1.330.441
4f0rMTA5-methylthioadenosine/S-adenosylhomocysteine deaminase/0.441
1c23MPHMethionine aminopeptidase/0.440
1ltzHBIPhenylalanine-4-hydroxylase1.14.16.10.440
2aotSAHHistamine N-methyltransferase2.1.1.80.440
2d2gDZZPhosphotriesterase/0.440
2pzjNADPutative nucleotide sugar epimerase/ dehydratase/0.440
2vfzUPFN-acetyllactosaminide alpha-1,3-galactosyltransferase/0.440
3exhTPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial1.2.4.10.440
3exhTPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial1.2.4.10.440
3fzm3GOHeat shock cognate 71 kDa protein/0.440
3irhDTPHD domain protein/0.440
3nmpPYVAbscisic acid receptor PYL2/0.440
3p5lIT5Carbonic anhydrase 24.2.1.10.440
3wb50B4Beta-secretase 13.4.23.460.440
4a2zVIQGlycylpeptide N-tetradecanoyltransferase/0.440
4b144XBGlycylpeptide N-tetradecanoyltransferase/0.440
4itxIN5Cystathionine beta-lyase MetC4.4.1.80.440
4relKMPGlycosyltransferase/0.440
4to0DCPDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.440
4xczT3QQdtf/0.440