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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Interaction pattern similarity measured by Grim
You can zoom onto the graph by using the mouse to make a selection

Binding Modes are compared using Grim.
For more information, please see the following publication: Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65


Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
3cfo GMP DNA-directed DNA polymerase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3cfo GMPDNA-directed DNA polymerase / 0.915
1ih7 GMPDNA-directed DNA polymerase / 0.799
4khn XG4DNA-directed DNA polymerase / 0.733
4i9q XG4DNA-directed DNA polymerase / 0.710
1waj 5GPDNA-directed DNA polymerase / 0.707
1clq GDPDNA-directed DNA polymerase / 0.696
1n7h GDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.667
1dli UDXUDP-glucose 6-dehydrogenase / 0.655
4eak ATP5'-AMP-activated protein kinase subunit gamma-1 / 0.650