Investigating regulatory signatures of human autophagy related gene 5 (ATG5) through functional in silico analysis.
Autophagy is an essential, homeostatic process which removes damaged cellular proteins and organelles for cellular renewal. ATG5, a part of E3 ubiquitin ligase-like complex (Atg12-Atg5/Atg16L1), is a key regulator involved in autophagosome formation - a crucial phase of autophagy. In this study, we used different in silico methods for comprehensive analysis of ATG5 to investigate its less explored regulatory activity. We have predicted various physico-chemical parameters and two possible transmembrane models that helped in exposing its functional regions. Twenty four PTM sites and 44 TFBS were identified which could be targeted to modulate the autophagy pathway. Furthermore, LD analysis identified 3 blocks of genotyped SNPs and 2 deleterious nsSNPs that may have damaging impact on protein function and thus could be employed for carrying genome-wide association studies. In conclusion, the information obtained in this study could be helpful for better understanding of regulatory roles of ATG5 and provides a base for its implication in population-based studies.
Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, Waknaghat, Solan, 173 234, Himachal Pradesh, India.
Avni
A
Vij
Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, Waknaghat, Solan, 173 234, Himachal Pradesh, India.
Rohit
R
Randhawa
Centre for Animal Sciences, School of Basic and Applied Sciences, Central University Punjab, Mansa Road, Bathinda 151 001, India.
Jyoti
J
Parkash
Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, Waknaghat, Solan, 173 234, Himachal Pradesh, India.
Harish
H
Changotra
ATG5; Autophagy; Palmitoylation; Ubiquitylation; nsSNPs