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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
4ho9UTPGlucose-1-phosphate thymidylyltransferase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4ho9UTPGlucose-1-phosphate thymidylyltransferase/1.000
4ho4THMGlucose-1-phosphate thymidylyltransferase/0.584
4ho8THMGlucose-1-phosphate thymidylyltransferase/0.551
1g0rTHMGlucose-1-phosphate thymidylyltransferase/0.504
4ho6UTPGlucose-1-phosphate thymidylyltransferase/0.489
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.485
1g2vTTPGlucose-1-phosphate thymidylyltransferase/0.483
5ifyUMPGlucose-1-phosphate thymidylyltransferase/0.482
4asyN5YGlucose-1-phosphate thymidylyltransferase/0.479
3v2uATPProtein GAL3/0.475
3jqpA2PFerredoxin--NADP reductase, apicoplast/0.473
4a83DXCMajor pollen allergen Bet v 1-A/0.470
4bfsZVSPantothenate kinase2.7.1.330.470
1nuuNADNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.469
3w2wATPCRISPR system Cmr subunit Cmr2/0.469
5adhAPRAlcohol dehydrogenase E chain1.1.1.10.468
4fhj0TZPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.467
4wjiNAPPutative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase/0.466
1nzdUPGDNA beta-glucosyltransferase/0.464
2qboCAMCamphor 5-monooxygenase1.14.15.10.464
2rhrEMOPutative ketoacyl reductase1.3.10.464
3zc3NAPFerredoxin--NADP reductase1.18.1.20.464
3ssnMVIMycinamicin VI 2''-O-methyltransferase/0.463
1c9k5GPBifunctional adenosylcobalamin biosynthesis protein CobU/0.462
3lj3WYEPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.462
3sptUD1Bifunctional protein GlmU/0.462
1rq1FADEndoplasmic oxidoreductin-11.8.40.461
3vcyUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.461
4mlp2CXCryptochrome-2/0.461
4tyqAP5Adenylate kinase/0.461
1h5tTYDGlucose-1-phosphate thymidylyltransferase 1/0.460
1u3dFADCryptochrome-1/0.460
4ipw1G7Mycocyclosin synthase1.14.21.90.460
1e5qNDPSaccharopine dehydrogenase [NADP(+), L-glutamate-forming]1.5.1.100.459
2q1sNAIPutative nucleotide sugar epimerase/ dehydratase/0.459
4egbNADdTDP-glucose 4,6-dehydratase/0.459
1cydNDPCarbonyl reductase [NADPH] 21.1.1.1840.458
1esvLARActin, alpha skeletal muscle/0.458
1gjvAGS[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial2.7.11.40.458
2hdhNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.458
3a1cACPProbable copper-exporting P-type ATPase A3.6.3.540.458
4fm80UQBeta-secretase 13.4.23.460.458
4lutDCSAlanine racemase/0.458
1u3cFADCryptochrome-1/0.457
3em0CHDFatty acid-binding protein 6, ileal (gastrotropin)/0.457
3ge1ADPGlycerol kinase/0.457
3inrGDUUDP-galactopyranose mutase5.4.99.90.457
3s1dZIRCytokinin dehydrogenase 11.5.99.120.457
4r1lADPPhenylacetate-coenzyme A ligase/0.457
2rl1UD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.456
2zsdCOAPantothenate kinase2.7.1.330.456
4c77N01Phenylacetone monooxygenase1.14.13.920.456
2ejvNADL-threonine 3-dehydrogenase/0.455
1lrlUPGUDP-glucose 4-epimerase5.1.3.20.454
3af3GCPPantothenate kinase2.7.1.330.454
3upkUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.454
3w1xXRODihydroorotate dehydrogenase (fumarate)1.3.98.10.454
4gu5FADCryptochrome-1/0.454
4oviN01Phenylacetone monooxygenase1.14.13.920.454
4q71FADBifunctional protein PutA/0.454
4u0oMTALipoyl synthase 2/0.454
1udaUFGUDP-glucose 4-epimerase5.1.3.20.453
2gesCOKPantothenate kinase2.7.1.330.453
2wi5ZZ5Heat shock protein HSP 90-alpha/0.453
3fwjCAMCamphor 5-monooxygenase1.14.15.10.453
3imgBZ2Pantothenate synthetase6.3.2.10.453
3r6sCMPCRP-like cAMP-activated global transcriptional regulator/0.453
3w0pADPHygromycin-B 4-O-kinase2.7.1.1630.453
4a99FADTetX family tetracycline inactivation enzyme/0.453
3d8vUD1Bifunctional protein GlmU/0.452
3mdmFJZCholesterol 24-hydroxylase/0.452
3t1tGDPProbable gliding protein mglA/0.452
4h9tHL4Phosphotriesterase/0.452
1j39UPGDNA beta-glucosyltransferase/0.451
2geuCOKPantothenate kinase2.7.1.330.451
2nnqT4BFatty acid-binding protein, adipocyte/0.451
4fhk0U0Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.451
4idgNADPutative UDP-glucose 4-epimerase/0.451
5ftcADPTPR domain protein/0.451
1fxoTMPGlucose-1-phosphate thymidylyltransferase/0.450
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.450
2yltNAPPhenylacetone monooxygenase1.14.13.920.450
3e8xNAPBH1520 protein/0.450
3gf4UPGUDP-galactopyranose mutase5.4.99.90.450
3h86AP5Adenylate kinase/0.450
3opxU5PSuppressor of disruption of TFIIS/0.450
4asuADPATP synthase subunit alpha, mitochondrial/0.450
4fj0NAP17beta-hydroxysteroid dehydrogenase/0.450
5kcpNAJAlcohol dehydrogenase E chain1.1.1.10.450
3nl6TPSUncharacterized protein/0.449
3to3ATPPetrobactin biosynthesis protein AsbB/0.449
4bqpNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.449
4f6w0SSCyclin-dependent kinase 82.7.11.220.449
4jx1CAHCamphor 5-monooxygenase1.14.15.10.449
1rfuADPPyridoxal kinase2.7.1.350.448
1yrdCAMCamphor 5-monooxygenase1.14.15.10.448
2eixFADNADH-cytochrome b5 reductase/0.448
3cavCI23-oxo-5-beta-steroid 4-dehydrogenase/0.448
3g1rFIT3-oxo-5-beta-steroid 4-dehydrogenase/0.448
3nmpPYVAbscisic acid receptor PYL2/0.448
3qw4U5POrotidine-5-phosphate decarboxylase/orotate phosphoribosyltransferase, putative/0.448
4a4zANPAntiviral helicase SKI23.6.4.130.448
1eioGCHGastrotropin/0.447
2brbPFQSerine/threonine-protein kinase Chk12.7.11.10.447
2getCOKPantothenate kinase2.7.1.330.447
2yxuATPPyridoxal kinase2.7.1.350.447
3nd1SAHPrecorrin-6A synthase (Deacetylating)/0.447
5fkoTDCTetracycline repressor protein class D/0.447
1bwfATFGlycerol kinase/0.446
1h66FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.446
1pn3TYDdTDP-epi-vancosaminyltransferase2.4.1.3110.446
2gnaGDUUDP-N-acetylglucosamine 4,6-dehydratase (inverting)4.2.1.1150.446
2qo7ANPEphrin type-A receptor 32.7.10.10.446
2wnsOMPUridine 5'-monophosphate synthase2.4.2.100.446
2xb5I7TTetracycline repressor protein class D/0.446
2xtzGSPGuanine nucleotide-binding protein alpha-1 subunit/0.446
2xyuQ9GEphrin type-A receptor 42.7.10.10.446
2y4gTIRTamL/0.446
3otwCOAPhosphopantetheine adenylyltransferase/0.446
3pce3HPProtocatechuate 3,4-dioxygenase alpha chain1.13.11.30.446
3pce3HPProtocatechuate 3,4-dioxygenase beta chain1.13.11.30.446
3sopGDPNeuronal-specific septin-3/0.446
4du82P0Mevalonate diphosphate decarboxylase/0.446
2ft9CHDFatty acid-binding protein 2, liver/0.445
2ok7FADFerredoxin--NADP reductase, apicoplast/0.445
2qocANPEphrin type-A receptor 32.7.10.10.445
3hdhNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.445
3i2834NBifunctional epoxide hydrolase 23.3.2.100.445
3l63CAMCamphor 5-monooxygenase1.14.15.10.445
4a81DXCMajor pollen allergen Bet v 1-A/0.445
4dpuAGSMevalonate diphosphate decarboxylase/0.445
4loi1YCStimulator of interferon genes protein/0.445
1fmjRTLRetinol dehydratase/0.444
1hetNADAlcohol dehydrogenase E chain1.1.1.10.444
1i24UPGUDP-sulfoquinovose synthase, chloroplastic3.13.1.10.444
1ldeNADAlcohol dehydrogenase E chain1.1.1.10.444
2fj1CTCTetracycline repressor protein class D/0.444
2zsaADPPantothenate kinase2.7.1.330.444
3iocA5DPantothenate synthetase6.3.2.10.444
4bfvZVVPantothenate kinase2.7.1.330.444
4hbm0Y7E3 ubiquitin-protein ligase Mdm26.3.20.444
4loh1SYStimulator of interferon genes protein/0.444
1lsjNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.443
1tehNADAlcohol dehydrogenase class-31.1.1.10.443
1udcUFMUDP-glucose 4-epimerase5.1.3.20.443
1yonA2R2-dehydropantoate 2-reductase1.1.1.1690.443
2rkvZBATrichothecene 3-O-acetyltransferase/0.443
3elbC5PEthanolamine-phosphate cytidylyltransferase2.7.7.140.443
3fwfCAMCamphor 5-monooxygenase1.14.15.10.443
3iahNAPPutative oxoacyl-(Acyl carrier protein) reductase/0.443
3jypNADQuinate/shikimate dehydrogenase (NAD(+))/0.443
3uk6ADPRuvB-like 23.6.4.120.443
4y9qC2EUncharacterized protein/0.443
4zrnUPGUDP-glucose 4-epimerase, putative/0.443
1gg5FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.442
1o0sNAINAD-dependent malic enzyme, mitochondrial1.1.1.380.442
2gcgNDPGlyoxylate reductase/hydroxypyruvate reductase1.1.1.790.442
2y0mACOHistone acetyltransferase KAT8/0.442
3f03FMNPentaerythritol tetranitrate reductase/0.442
3pvt3HC1,2-phenylacetyl-CoA epoxidase, subunit A1.14.13.1490.442
4en4ATPPyridoxal kinase2.7.1.350.442
4hmvWUBPhenazine biosynthesis protein PhzG1.40.442
5cdtNAJAlcohol dehydrogenase E chain1.1.1.10.442
5kghACOPredicted acetyltransferase/0.442
1mgoNADAlcohol dehydrogenase E chain1.1.1.10.441
2qblCAMCamphor 5-monooxygenase1.14.15.10.441
2xgoZKDUncharacterized protein/0.441
2zseACPPantothenate kinase2.7.1.330.441
3gwfNAPCyclohexanone monooxygenase/0.441
3oq6NAJAlcohol dehydrogenase E chain1.1.1.10.441
3umvFADDeoxyribodipyrimidine photo-lyase4.1.99.30.441
4eb4UMPThymidylate synthase2.1.1.450.441
1hfqMOTDihydrofolate reductase1.5.1.30.440
2gjlFMNNitronate monooxygenase1.13.12.160.440
2jcxNDP1-deoxy-D-xylulose 5-phosphate reductoisomerase/0.440
3keuATPPyridoxal kinase2.7.1.350.440
3td7FADProbable FAD-linked sulfhydryl oxidase R5961.8.3.20.440
4ead0NPThymidine phosphorylase2.4.2.40.440
4ohxADPProtein clpf-1/0.440