In silico interactome and docking site study of DNA repair proteins (APE1 and APE2) and their role in base excision repair in Arabidopsis thaliana

• Main Authors: Esma Kurtanovic, Mohamed Ragab Abdel Gawwad
• Format: Article
• Language: English
• Published: International Academy of Ecology and Environmental Sciences 2021-09-01
• Series: Network Biology
• Subjects: dna damage and repair; interactome; docking sites; ape homologs; a. thaliana; base excision repair
• Online Access: http://www.iaees.org/publications/journals/nb/articles/2021-11(3)/interactome-and-docking-site-of-DNA-repair-proteins.pdf

Flowering time is a life history trait of adaptiveness. Over many generations, phenotypes happen to emerge as mutations or spontaneous damage accumulates in the plastome. Thus, it is of great importance to investigate DNA repair mechanism roles of some proteins. Specifically, this study aims to determine potential targets that are part of base excision repair mechanism in Arabidopsis thaliana. To do so, bioinformatic methods are implemented in order to shed light on the functioning of our protein homologs. Their structural and functional similarities are confirmed by multiple sequence alignment, 3D structure prediction, phylogenetic tree construct and interactome analysis. The results indicate that interaction between two proteins is strong evidence that the proteins are involved in the same biological process. This study can be seen as a valuable data resource of predicted cellular functions of proteins and the evolutionary conservation of AP endonuclease families, which again, portrays the divergence of activities and biological contributions.