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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
1ybaNADD-3-phosphoglycerate dehydrogenase1.1.1.95

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
1ybaNADD-3-phosphoglycerate dehydrogenase1.1.1.951.000
2pa3NAID-3-phosphoglycerate dehydrogenase1.1.1.950.587
2p9eNAID-3-phosphoglycerate dehydrogenase1.1.1.950.571
3ggoNAIPrephenate dehydrogenase/0.490
3gggNADPrephenate dehydrogenase/0.466
3ggpNADPrephenate dehydrogenase/0.455