Predicting the Binding Patterns of Hub Proteins: A Study Using Yeast Protein Interaction Networks
Figure 2
Three-phase method to predict protein-binding proteins, hub proteins, singlish interface/multiple interface (SIH/MIH), and Date/Party hubs.
Phase I predicts if a protein physically binds with other proteins (protein-binding (PB) versus non-protein-binding (NPB)). If a protein is predicted to be a PB protein in Phase I, that protein is further classified in Phase II and Phase III. Phase II uses sequence similarity to determine the potential number of interaction sites for the input sequence and if that protein is likely to be a hub protein. Phase III applies methods for predicting both structural (singlish vs. multiple) and kinetic (date vs. party) classifications of protein hub proteins. All methods for each of the three phases make predictions from sequence alone.