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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
4zolGTPTubulin alpha-1B chain

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4zolGTPTubulin alpha-1B chain/1.000
4tv9GTPTubulin alpha-1B chain/0.651
4wbnGTPTubulin alpha-1B chain/0.631
4ihjGTPTubulin alpha-1B chain/0.621
3ryhGTPTubulin alpha chain/0.620
5la6GTPTubulin alpha-1B chain/0.612
5jqgGTPTubulin alpha-1B chain/0.602
4o4iGTPTubulin alpha-1B chain/0.599
4tuyGTPTubulin alpha-1B chain/0.589
4o4lGTPTubulin alpha-1B chain/0.580
4ffbGTPTubulin alpha-1 chain/0.568
4iijGTPTubulin alpha-1B chain/0.547
4yj2GTPTubulin alpha-1B chain/0.517
2ylrNAPPhenylacetone monooxygenase1.14.13.920.494
3gwdNAPCyclohexanone monooxygenase/0.493
4u3jGTPTubulin beta chain/0.489
4eakATP5'-AMP-activated protein kinase subunit gamma-1/0.487
1xdpATPPolyphosphate kinase/0.486
5itzGTPTubulin alpha-1B chain/0.485
3iahNAPPutative oxoacyl-(Acyl carrier protein) reductase/0.481
2zatNAPDehydrogenase/reductase SDR family member 41.1.1.1840.478
4f6rGDPTubulin beta chain/0.478
2z4sADPChromosomal replication initiator protein DnaA/0.475
4d03NAPPhenylacetone monooxygenase1.14.13.920.474
4ef8FMNDihydroorotate dehydrogenase (fumarate)/0.472
1ib0NADNADH-cytochrome b5 reductase 31.6.2.20.470
2jkvNAP6-phosphogluconate dehydrogenase, decarboxylating1.1.1.440.470
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.470
2oapANPType II secretion system protein (GspE-2)/0.469
3zidGDPTubulin-like protein CetZ/0.469
2zseACPPantothenate kinase2.7.1.330.467
3to6LYS_CMCHistone acetyltransferase ESA1/0.467
4eagATP5'-AMP-activated protein kinase subunit gamma-1/0.467
2d1yNADOxidoreductase, short-chain dehydrogenase/reductase family/0.466
2yq92AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.466
3u9eCOALmo1369 protein/0.466
4nesUD1UDP-N-acetylglucosamine 2-epimerase5.1.3.140.466
2gv8NDPThiol-specific monooxygenase1.14.130.463
2b58COADiamine acetyltransferase 1/0.460
3k3ePDBHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.460
4hwkNAPSepiapterin reductase1.1.1.1530.460
4u0zAPCAdenosine monophosphate-protein transferase FICD2.7.7.n10.460
1nqw5YL6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.458
2jahNDPClavaldehyde dehydrogenase/0.458
2r8oT5XTransketolase 1/0.458
4ej0NAPADP-L-glycero-D-manno-heptose-6-epimerase/0.458
4i9h1E4L-lactate dehydrogenase A chain1.1.1.270.458
4kgkGTPUncharacterized protein/0.458
3af4GCPPantothenate kinase2.7.1.330.457
3lqfNADGalactitol dehydrogenase/0.457
1icqFMN12-oxophytodienoate reductase 11.3.1.420.456
2r8pT6FTransketolase 1/0.456
3eu5GBOProtein farnesyltransferase subunit beta2.5.1.580.456
2dftADPShikimate kinase2.7.1.710.455
3tutATPRNA 3'-terminal phosphate cyclase6.5.1.40.454
1i59ANPChemotaxis protein CheA2.7.13.30.453
1njfADPDNA polymerase III subunit tau2.7.7.70.453
1x7gNAPPutative ketoacyl reductase1.3.10.453
2ch6ADPN-acetyl-D-glucosamine kinase2.7.1.590.453
2qjoNADBifunctional NMN adenylyltransferase/Nudix hydrolase2.7.7.10.453
2ql6ADPNicotinamide riboside kinase 1/0.453
4b144XBGlycylpeptide N-tetradecanoyltransferase/0.453
4b63NAPL-ornithine N(5)-monooxygenase/0.453
4p9dTMPDeoxycytidylate deaminase/0.453
1g6oADPCag alpha/0.452
2getCOKPantothenate kinase2.7.1.330.452
3hyoADPPyridoxal kinase/0.452
4ohwATPProtein clpf-1/0.451
2a1hGBNBranched-chain-amino-acid aminotransferase, mitochondrial2.6.1.420.450
2ojtUBAGlutamate receptor ionotropic, kainate 1/0.450
2omeNADC-terminal-binding protein 2/0.450
3toxNAPPutative oxidoreductase/0.450
3tqaNDPDihydrofolate reductase/0.450
3zhsTD6Multifunctional 2-oxoglutarate metabolism enzyme1.2.4.20.450
4bfsZVSPantothenate kinase2.7.1.330.450
4c13UMLUDP-N-acetylmuramoyl-L-alanyl-D-glutamate--L-lysine ligase/0.450
4dmmNAP3-oxoacyl-[acyl-carrier-protein] reductase/0.450
4lcjNADC-terminal-binding protein 2/0.450
1e5qNDPSaccharopine dehydrogenase [NADP(+), L-glutamate-forming]1.5.1.100.449
1i5bANPChemotaxis protein CheA2.7.13.30.449
1xkvATPPhosphoenolpyruvate carboxykinase (ATP)/0.449
2h21SAMRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic2.1.1.1270.449
3qe2FMNNADPH--cytochrome P450 reductase/0.449
2o1sTDP1-deoxy-D-xylulose-5-phosphate synthase2.2.1.70.448
3toh079Gag-Pol polyprotein2.7.7.490.448
4wdfA2P2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.448
3kjiADPCO dehydrogenase/acetyl-CoA synthase complex, accessory protein CooC/0.447
4j7xNAPSepiapterin reductase1.1.1.1530.447
4m83ERYOleandomycin glycosyltransferase2.4.10.447
4wda2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.447
4wzhFMNDihydroorotate dehydrogenase (fumarate)/0.447
4xguADPPutative pachytene checkpoint protein 2/0.447
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.446
1u8vFAD4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase/0.446
4gyzD5MTyrosyl-DNA phosphodiesterase 23.1.40.446
5idwNAPShort-chain dehydrogenase/reductase SDR/0.446
1vfrFMNMajor NAD(P)H-flavin oxidoreductase1.6.990.445
2gesCOKPantothenate kinase2.7.1.330.445
2ien017Gag-Pol polyprotein3.4.23.160.445
2ignFADPyranose 2-oxidase/0.445
2o12FMNChorismate synthase/0.445
3af3GCPPantothenate kinase2.7.1.330.445
3bhiNAPCarbonyl reductase [NADPH] 11.1.1.1840.445
3juqAJDPhenazine biosynthesis protein A/B/0.445
3tjzGNPADP-ribosylation factor 1/0.445
3wqmB29Diterpene synthase3.1.7.80.445
4ambDUDPutative glycosyl transferase/0.445
1xe55FEPlasmepsin-23.4.23.390.444
2x3jATPAcsD/0.444
3mx5UTPNucleoprotein/0.444
3w2eNADNADH-cytochrome b5 reductase 31.6.2.20.444
4dptAGSMevalonate diphosphate decarboxylase/0.444
4egbNADdTDP-glucose 4,6-dehydratase/0.444
4hp8NAP2-deoxy-D-gluconate 3-dehydrogenase/0.444
5ftfADPTPR domain protein/0.444
2dknNAI3-alpha-hydroxysteroid dehydrogenase/0.443
2gh5FADGlutathione reductase, mitochondrial1.8.1.70.443
3fsuFAD5,10-methylenetetrahydrofolate reductase1.5.1.200.443
3imgBZ2Pantothenate synthetase6.3.2.10.443
3tr05GPGuanylate kinase/0.443
4pzrCOAHistone acetyltransferase p300/0.443
4r81FMNPredicted NADH dehydrogenase/0.443
4u0mATPCyclic GMP-AMP synthase/0.443
4uwmFMN3,6-diketocamphane 1,6 monooxygenase1.14.130.443
1f8fNADBenzyl alcohol dehydrogenase/0.442
1tehNADAlcohol dehydrogenase class-31.1.1.10.442
1uxyEPUUDP-N-acetylenolpyruvoylglucosamine reductase1.3.1.980.442
2ft9CHDFatty acid-binding protein 2, liver/0.442
2vhwNAIAlanine dehydrogenase1.4.1.10.442
2vkeTACTetracycline repressor protein class D/0.442
1rfvADPPyridoxal kinase2.7.1.350.441
2fxv5GPXanthine phosphoribosyltransferase2.4.2.220.441
2q1uNADPutative nucleotide sugar epimerase/ dehydratase/0.441
3l77NJPShort-chain alcohol dehydrogenase/0.441
4fj1NAP17beta-hydroxysteroid dehydrogenase/0.441
1ipeNDPTropinone reductase 21.1.1.2360.440
1okkGCPSignal recognition particle protein/0.440
1okkGCPSignal recognition particle receptor FtsY/0.440
1rfuADPPyridoxal kinase2.7.1.350.440
3gfbNADL-threonine 3-dehydrogenase/0.440
3zbzOVE2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.440
4bftZVTPantothenate kinase2.7.1.330.440
4i0h1BLBeta-secretase 13.4.23.460.440
4i9n1E5L-lactate dehydrogenase A chain1.1.1.270.440