Investigating the Effect of integrase Inhibitors on Extracted HIV Sequences from Iran

Abstract Background: Bioinformatics software have been effective tools to study the HIV genome as well as integrase domains. Our research was based on employing several bioinformatics software to find important mutations in integrase protein in Iranian HIV infected samples from 2006 to 2018, and an investigation of general properties, B-cell and T-cell epitopes, modification sites, and structure of integrase. Methods: Integrase sequences of 80 HIV samples isolated from 2006 to 2018, Iran, were retrieved from NCBI gene bank. Using several software, all sequences were analyzed for determination of mutations, physicochemical analysis, B-cell epitopes prediction, T-cell and CTL epitopes prediction, post modification, secondary and tertiary structure prediction.Results: Our analysis determined several mutations in some special positions ( 70, 90, 91, and 110); the efficacy of therapy and sustained virological response. Several B-cell, T-cell, and CTL epitopes were recognized. Secondary and tertiary structures were mapped for HIV integrase.Conclusion: Our study, as a first report, offered inclusive data about frequent mutation in the integrase gene in Iranian sequences that can provide helpful analysis on structure and function of domain 1 of the core gene

Keywords:

HIV , integrase , Bioinformatics