Molecular Investigation of Protein–Protein Interaction Candidates Related to the Mammalian Brain

Abstract

The traditional protein–protein interaction (PPI) system is a mathematical depiction to accumulate valuable knowledge regarding cell physiology in normal and disease states still lacking some mechanistic approaches to biological processes. The mapping protein composition of the PPI system/network provides structural details of PPIs and their mutual exclusion interactions. However, the information revealed by high-throughput screening (HTS) PPI data is a collection of numerous false positives and negatives that could be addressed initially in experiments. The integrated PPI information and its next-generation sequencing technology collections with other genome-wide statistics, i.e. phenotype and expression profile facts, are widely used in understanding novel biological insights. Through this, we obtain a detailed integration analysis to reveal the function of proteins and many other aspects that help in understanding the complexity of the mammalian brain. For example, hereditary Parkinson’s disease and its extensive PPI processes are currently used for the determination of the mechanism of action of Parkinson’s disease. This is done with the localization of E3 ubiquitin ligase, and the activity involved becomes modulated with its interaction partners. These techniques are able to uncover the slightest alterations of the molecular pathogenesis of the specified disease. A new research paradigm corresponding to the protein interactions and detailed structural knowledge on the interacting surfaces of proteins helps in predicting the genotype–phenotype relationship. The main goal of this chapter is to emphasize the importance of examining substitute conformations of proteins in structural PPI networks, which enhances our capability to analyze protein interactions more accurately.