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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
1buxPPSNucleoside diphosphate kinase, cytosolic2.7.4.6

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1buxPPSNucleoside diphosphate kinase, cytosolic2.7.4.61.000
3nguADPNucleoside diphosphate kinase/0.529
1zs6ADPNucleoside diphosphate kinase 32.7.4.60.492
4hr2ADPNucleoside diphosphate kinase/0.486
1wklATPNucleoside diphosphate kinase/0.478
1nhkCMPNucleoside diphosphate kinase2.7.4.60.469
3q8uADPNucleoside diphosphate kinase/0.469
2hvdADPNucleoside diphosphate kinase A2.7.4.60.462