Department of Bioinformatics and Biotechnology, Government College University Faisalabad, Faisalabad 38000, Pakistan.
College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, China.
Int J Environ Res Public Health. 2021 Oct 28;18(21):11355. doi: 10.3390/ijerph182111355.
is a significant pathogen that causes skin and upper respiratory tract infections and non-suppurative complications, such as acute rheumatic fever and post-strep glomerulonephritis. Multidrug resistance has emerged in strains, making them more dangerous and pathogenic. Hence, it is necessary to identify and develop therapeutic methods that would present novel approaches to infections. In the current study, a subtractive proteomics approach was employed to core proteomes of four strains of using several bioinformatic software tools and servers. The core proteome consists of 1324 proteins, and 302 essential proteins were predicted from them. These essential proteins were analyzed using BLASTp against human proteome, and the number of potential targets was reduced to 145. Based on subcellular localization prediction, 46 proteins with cytoplasmic localization were chosen for metabolic pathway analysis. Only two cytoplasmic proteins, i.e., chromosomal replication initiator protein DnaA and two-component response regulator (TCR), were discovered to have the potential to be novel drug target candidates. Three-dimensional (3D) structure prediction of target proteins was carried out via the Swiss Model server. Molecular docking approach was employed to screen the library of 1000 phytochemicals against the interacting residues of the target proteins through the MOE software. Further, the docking studies were validated by running molecular dynamics simulation and highly popular binding free energy approaches of MM-GBSA and MM-PBSA. The findings revealed a promising candidate as a novel target against infections.
是一种重要的病原体,可引起皮肤和上呼吸道感染以及非化脓性并发症,如急性风湿热和链球菌后肾小球肾炎。 菌株出现了多药耐药性,使其更加危险和致病性。 因此,有必要识别和开发治疗方法,为 感染提供新的方法。 在本研究中,使用几种生物信息学软件工具和服务器,采用消减蛋白质组学方法对 4 株 的核心蛋白质组进行了分析。 核心蛋白质组由 1324 种蛋白质组成,从中预测了 302 种必需蛋白质。 使用 BLASTp 将这些必需蛋白质与人类蛋白质组进行比对,将潜在靶标的数量减少到 145 个。 根据亚细胞定位预测,选择了 46 种具有细胞质定位的蛋白质进行代谢途径分析。 只有两种细胞质蛋白,即染色体复制起始蛋白 DnaA 和双组分反应调节剂(TCR),被发现有可能成为新的药物靶标候选物。 通过 Swiss Model 服务器对靶蛋白的三维(3D)结构进行预测。 通过 MOE 软件,采用分子对接方法筛选针对目标蛋白相互作用残基的 1000 种植物化学物质库。 此外,通过运行分子动力学模拟和非常流行的 MM-GBSA 和 MM-PBSA 结合自由能方法对对接研究进行了验证。 研究结果表明,作为一种针对 感染的新型靶标,有一个很有前途的候选物。