Fig. 6
From: Predicting DNA binding protein-drug interactions based on network similarity
The flow chart is the drug-cluster associated model. The binding sites are first extracted from the PDB structure, and then we broke the binding site sequences into the trimers. All the trimmers are casted into 97 clusters (the type of drug). Because the trimers in the same cluster own similar chemical properties, the clusters can be viewed as chemica “group”. Each cluster in every binding site is used as groups-drug interaction pairs