Domain-domain interactions in obligate and non-obligate protein-protein interactions

In this study, an analysis of protein-protein interactions (PPIs) that uses properties of domain-domain interactions (DDIs) present in the interface is discussed. The aim is to predict obligate and non-obligate complexes. The results show that support vector machines (SVM) classifier achieves much better prediction performance, even better than linear dimensionality reduction (LDR) schemes and aslo desolvation energy is better than interface area and composition for predicting transient and obligate complexes. Moreover, a visual and numerical analysis insight of the distribution of the DDIs in different complexes is shown that most homo-domain pairs are in obligate interactions.