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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
3ryhGTPTubulin alpha chain

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3ryhGTPTubulin alpha chain/1.000
4zolGTPTubulin alpha-1B chain/0.614
4tv9GTPTubulin alpha-1B chain/0.612
4wbnGTPTubulin alpha-1B chain/0.604
4ihjGTPTubulin alpha-1B chain/0.598
4o4iGTPTubulin alpha-1B chain/0.598
5la6GTPTubulin alpha-1B chain/0.586
4tuyGTPTubulin alpha-1B chain/0.560
4iijGTPTubulin alpha-1B chain/0.553
4o4lGTPTubulin alpha-1B chain/0.545
4ffbGTPTubulin alpha-1 chain/0.529
5jqgGTPTubulin alpha-1B chain/0.518
4yj2GTPTubulin alpha-1B chain/0.508
5itzGTPTubulin alpha-1B chain/0.491
4u3jGTPTubulin beta chain/0.489
2z4sADPChromosomal replication initiator protein DnaA/0.474
1xdpATPPolyphosphate kinase/0.473
1tehNADAlcohol dehydrogenase class-31.1.1.10.460
4eakATP5'-AMP-activated protein kinase subunit gamma-1/0.460
1okkGCPSignal recognition particle protein/0.458
1okkGCPSignal recognition particle receptor FtsY/0.458
1bmdNADMalate dehydrogenase/0.457
1ib0NADNADH-cytochrome b5 reductase 31.6.2.20.456
4ej0NAPADP-L-glycero-D-manno-heptose-6-epimerase/0.456
4i8x6P3L-lactate dehydrogenase A chain1.1.1.270.456
3tjzGNPADP-ribosylation factor 1/0.455
1njfADPDNA polymerase III subunit tau2.7.7.70.454
2ojtUBAGlutamate receptor ionotropic, kainate 1/0.454
2o12FMNChorismate synthase/0.453
2ql6ADPNicotinamide riboside kinase 1/0.453
2zatNAPDehydrogenase/reductase SDR family member 41.1.1.1840.453
3lqfNADGalactitol dehydrogenase/0.453
4yxm2BADNA integrity scanning protein DisA/0.453
4du82P0Mevalonate diphosphate decarboxylase/0.452
2wsiFADFAD synthase2.7.7.20.451
2y0mACOHistone acetyltransferase KAT8/0.450
3bhiNAPCarbonyl reductase [NADPH] 11.1.1.1840.450
4wdfA2P2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.450
4eb7PLPCysteine desulfurase IscS 2/0.446
4hwkNAPSepiapterin reductase1.1.1.1530.446
3pefNAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase/0.445
4g9kFADRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial1.6.5.90.445
3c1y2BADNA integrity scanning protein DisA/0.444
3daaPDDD-alanine aminotransferase2.6.1.210.444
4yvz3ATDNA integrity scanning protein DisA/0.444
3mk6ACOPantothenate kinase 32.7.1.330.443
2d1yNADOxidoreductase, short-chain dehydrogenase/reductase family/0.442
2zseACPPantothenate kinase2.7.1.330.442
4eb5PLPCysteine desulfurase IscS 2/0.441
3fsuFAD5,10-methylenetetrahydrofolate reductase1.5.1.200.440
3qt62P0Mevalonate diphosphate decarboxylase/0.440