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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities 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

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
3qjiMGPRibosome inactivating protein

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
3qjiMGPRibosome inactivating protein/1.000
4emrMGPRibosome inactivating protein/0.674
4lwxMU2Ribosome inactivating protein/0.656
4jtpASCRibosome inactivating protein/0.640
3u8fFGMRibosome inactivating protein/0.614
5ilwURIRibosome inactivating protein/0.605
1mrkFMCRibosome-inactivating protein alpha-trichosanthin3.2.2.220.537
4zz6CTPRibosome inactivating protein/0.527
2b8jADNClass B acid phosphatase3.1.3.20.462
3dz6M8ES-adenosylmethionine decarboxylase proenzyme4.1.1.500.454
1ni4TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial1.2.4.10.449
1ni4TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial1.2.4.10.449
4z87GDPInosine-5'-monophosphate dehydrogenase/0.449
2futH1SHeparin and heparin-sulfate lyase/0.446
3d73NBBPheromone-binding protein ASP1/0.446
3t5iSER_SER_CMT_FARRetinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.445
3l3lL3LPoly [ADP-ribose] polymerase 12.4.2.300.443
5cxv0HKMuscarinic acetylcholine receptor M1/0.443
3jyoNADQuinate/shikimate dehydrogenase (NAD(+))/0.442
1z5uCMPClass B acid phosphatase/0.441
2xkfBX1Serine/threonine-protein kinase Nek22.7.11.10.440