不同药用植物的植物化学物质作为登革2型病毒的潜在抑制剂:一种计算方法

Phytochemicals of Different Medicinal Herbs as Potential Inhibitors Against Dengue Serotype 2 Virus: A Computational Approach.

作者信息

Roy Diya, Manumol M, Alagarasu Kalichamy, Parashar Deepti, Cherian Sarah

机构信息

Bioinformatics Group, ICMR-National Institute of Virology, 20-A, Dr. Ambedkar Road, Pune, Maharashtra, 411001, India.

Dengue & Chikungunya Group, ICMR-National Institute of Virology, 20-A, Dr. Ambedkar Road, Pune, Maharashtra, 411001, India.

出版信息

Mol Biotechnol. 2024 Sep 12. doi: 10.1007/s12033-024-01282-8.

Abstract

Dengue is one of the major mosquito-borne infectious diseases of the present century, reported to affect about 100-400 million people globally. The lack of effective therapeutic options has inspired several in vitro and in silico studies for the search of antivirals. Our previous study revealed the anti-dengue activity of different plant extracts from Plumeria alba, Bacopa monnieri, Vitex negundo, and Ancistrocladus heyneanus. Therefore, the current in silico study was designed to identify the phytochemicals present in the aforementioned plants, which are possibly responsible for the anti-dengue activity. Different plant databases as well as relevant literature were explored to find out the major compounds present in the above-stated plants followed by screening of the retrieved phytochemicals for the assessment of their binding affinity against different dengue viral proteins via molecular docking. The best poses of protein-ligand complexes obtained after molecular docking were selected for the calculation of binding free energy via MM-GBSA method. Based on the highest docking score and binding energy, six complexes were considered for further analysis. To analyze the stability of the complex, 100 ns molecular dynamics (MD) simulations were carried out using Desmond module in the Schrodinger suite. The MD simulation analysis showed that four compounds viz. liriodendrin, bacopaside VII, isoorientin, and cynaroside exhibited stability with viral targets including the RdRp, NS3 helicase, and E protein indicating their potential as novel anti-dengue antivirals.

摘要

登革热是本世纪主要的蚊媒传染病之一,据报道全球约有1亿至4亿人受其影响。由于缺乏有效的治疗选择,激发了多项体外和计算机模拟研究来寻找抗病毒药物。我们之前的研究揭示了来自白鸡蛋花、假马齿苋、黄荆和锡兰钩藤的不同植物提取物的抗登革热活性。因此,本次计算机模拟研究旨在鉴定上述植物中存在的可能具有抗登革热活性的植物化学物质。探索了不同的植物数据库以及相关文献,以找出上述植物中存在的主要化合物,然后对检索到的植物化学物质进行筛选,通过分子对接评估它们与不同登革热病毒蛋白的结合亲和力。分子对接后获得的蛋白质-配体复合物的最佳构象用于通过MM-GBSA方法计算结合自由能。基于最高的对接分数和结合能,选择了六个复合物进行进一步分析。为了分析复合物的稳定性,使用薛定谔套件中的Desmond模块进行了100纳秒的分子动力学(MD)模拟。MD模拟分析表明,四种化合物即鹅掌楸苷、假马齿苋皂苷VII、异荭草苷和刺菜蓟苷与包括RdRp、NS3解旋酶和E蛋白在内的病毒靶点表现出稳定性,表明它们作为新型抗登革热抗病毒药物的潜力。

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