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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
2gmsP0PPutative pyridoxamine 5-phosphate-dependent dehydrase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2gmsP0PPutative pyridoxamine 5-phosphate-dependent dehydrase/1.000
2gmuPDGPutative pyridoxamine 5-phosphate-dependent dehydrase/0.784
3b8xG4MPutative pyridoxamine 5-phosphate-dependent dehydrase/0.520
4tnzTTPDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.470
3af1GDPPantothenate kinase2.7.1.330.460
3cmfPDN3-oxo-5-beta-steroid 4-dehydrogenase/0.456
4b12C23Glycylpeptide N-tetradecanoyltransferase/0.449
2zs9ADPPantothenate kinase2.7.1.330.448
1digL37C-1-tetrahydrofolate synthase, cytoplasmic1.5.1.50.447
3dr7GPDGDP-perosamine synthase/0.445
3h3qH13Collagen type IV alpha-3-binding protein/0.445
4to6TTPDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.445
3jusBCDLanosterol 14-alpha demethylase1.14.13.700.444
4a959MTGlycylpeptide N-tetradecanoyltransferase/0.444
1kyvRBF6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.443
4itxIN5Cystathionine beta-lyase MetC4.4.1.80.442
1x28PGUAspartate aminotransferase2.6.1.10.440
3nytULPUDP-2-acetamido-2-deoxy-3-oxo-D-glucuronate aminotransferase2.6.1.980.440