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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
3wid NAP Glucose 1-dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3wid NAPGlucose 1-dehydrogenase / 1.103
3wie DN4Glucose 1-dehydrogenase / 0.810
4gkv NADAlcohol dehydrogenase, propanol-preferring 1.1.1.1 0.696
4oaq NDPR-specific carbonyl reductase / 0.696
1axe NADAlcohol dehydrogenase E chain 1.1.1.1 0.687
2b5v NAPGlucose 1-dehydrogenase / 0.677
4b65 NDPL-ornithine N(5)-monooxygenase / 0.677
4w6z 8IDAlcohol dehydrogenase 1 1.1.1.1 0.675
4dxh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.669
5kcz NAJAlcohol dehydrogenase E chain 1.1.1.1 0.669
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.669
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.669
2cdc NAPGlucose 1-dehydrogenase / 0.668
5kj6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.665
3wle NAD(R)-specific carbonyl reductase / 0.663
3jv7 NADSecondary alcohol dehydrogenase / 0.662
4hfm NAP2-alkenal reductase (NADP(+)-dependent) / 0.662
5cdt NAJAlcohol dehydrogenase E chain 1.1.1.1 0.661
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.661
4j43 NADUncharacterized protein / 0.659
1pl6 NADSorbitol dehydrogenase 1.1.1.14 0.657
4nd3 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.656
2vwh NAPGlucose 1-dehydrogenase / 0.655
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.653
3oq6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.652
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.651