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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
1nueGDPNucleoside diphosphate kinase B2.7.4.6

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1nueGDPNucleoside diphosphate kinase B2.7.4.61.000
2hveADPNucleoside diphosphate kinase A2.7.4.60.590
2hvdADPNucleoside diphosphate kinase A2.7.4.60.551
3q8uADPNucleoside diphosphate kinase/0.528
1zs6ADPNucleoside diphosphate kinase 32.7.4.60.526
1be4PCGNucleoside diphosphate kinase A 22.7.4.60.520
4uohADPNucleoside diphosphate kinase/0.511
3nguADPNucleoside diphosphate kinase/0.509
1wklATPNucleoside diphosphate kinase/0.502
2dxfGNPNucleoside diphosphate kinase2.7.4.60.493
1buxPPSNucleoside diphosphate kinase, cytosolic2.7.4.60.483
1nhkCMPNucleoside diphosphate kinase2.7.4.60.481
4hr2ADPNucleoside diphosphate kinase/0.472
3bbfGDPNucleoside diphosphate kinase B2.7.4.60.459
1xonPILcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.454
1oynROLcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.448
2dxdANPNucleoside diphosphate kinase2.7.4.60.448
4uogYYYNucleoside diphosphate kinase/0.446