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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
5dtoSAHGenome polyprotein

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
5dtoSAHGenome polyprotein/1.000
5jjsSAHGenome polyprotein/0.596
3p97SAMGenome polyprotein2.1.1.560.580
5jjrSAHGenome polyprotein/0.558
4k6mSAHGenome polyprotein/0.557
3evbSAHGenome polyprotein2.1.1.560.549
3evcSAHGenome polyprotein2.1.1.560.536
3eldSFGMethyltransferase/0.534
4ctjSAMGenome polyprotein/0.534
2p3qSAHGenome polyprotein/0.532
3eluSAMMethyltransferase/0.531
1l9kSAHGenome polyprotein2.7.7.480.509
2p1dSAHGenome polyprotein2.7.7.480.504
3p8zSAHGenome polyprotein2.1.1.560.503
5cuqNSCGenome polyprotein/0.497
3evaSAHGenome polyprotein2.1.1.560.476
5cvcPLPSerine racemase/0.453
1lb9DNQGlutamate receptor 2/0.451
4d9fDCSD-cysteine desulfhydrase/0.451
2blaCP6Bifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.449
4f1yCNIGlutamate receptor 3/0.449
4wuoNAD3-isopropylmalate dehydrogenase1.1.1.850.448
4ie0PD2Alpha-ketoglutarate-dependent dioxygenase FTO/0.447
1rx8FOLDihydrofolate reductase1.5.1.30.446
1qnfFADDeoxyribodipyrimidine photo-lyase4.1.99.30.445
2ociTYCValacyclovir hydrolase3.10.443
4x7uZM3Mycinamicin III 3''-O-methyltransferase2.1.1.2370.443
5c6cCMPcGMP-dependent protein kinase 22.7.11.120.443
1dr5NAPDihydrofolate reductase1.5.1.30.441
1qpjSTUTyrosine-protein kinase Lck2.7.10.20.441
2qd3CHDFerrochelatase, mitochondrial4.99.1.10.441