利用分子对接、MD模拟、MMGBSA和ADMET分析的综合方法探索红椒对伤寒的治疗潜力

Vanshika Chaudhary , Indu Sharma , Jayant Jagtap , Mayank Bhushan
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引用次数: 0

摘要

由伤寒沙门氏菌引起的伤寒继续对全球健康构成重大挑战,特别是在耐多药菌株日益流行的情况下。尽管正在进行疫苗接种工作,每年仍有900多万人感染伤寒,11万多人死亡,主要影响低收入和中等收入国家。这种持续的负担,加上抗生素耐药性的上升,强调迫切需要替代治疗策略。因此,本研究通过综合计算方法研究了Carissa carandas(一种传统上未被充分开发的新型药用植物)中提取的植物化学物质的治疗潜力。利用Lipinski 's rule of 5和ADMET参数对143种植物化学物质进行了筛选,最终鉴定出42种候选植物化学物质。分子对接研究表明,熊果酸、鼠尾草酸和3-羟基-12-烯-28-酸的结合亲和力分别约为-9.6、-9.4和-9.6 kcal/mol,显著优于环丙沙星-7.0 kcal/mol的结合亲和力。为了进一步评估这些相互作用的稳定性,在100 ns的时间内进行了分子动力学模拟。结果表明,Ursolic酸- ompf配合物具有出色的结构稳定性,在整个模拟过程中具有很强的氢键网络,且均方根偏差(RMSD)波动最小。由于熊果酸与靶蛋白有强烈的相互作用,互补的MMGBSA分析产生的总结合能为-32.35 ± 2.87 kcal/mol。此外,ADMET分析证实,先导化合物具有某些有利的药代动力学特性和安全性,并且相对于环丙沙星具有更高的药物相似性评分。这些数值结果表明,羊角菜衍生化合物代表了一个有前途的植物治疗方法来管理伤寒;因此,需要使用体外和体内设置的进一步测试来证实这一点。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Exploring therapeutic potential of Carissa carandas for Typhoid: An integrated approach using molecular docking, MD simulation, MMGBSA, and ADMET analysis
Typhoid fever, caused by Salmonella typhi, continues to pose a significant global health challenge, particularly with the increasing prevalence of multidrug-resistant strains. Despite ongoing vaccination efforts, typhoid fever still accounts for over 9 million infections and more than 110,000 deaths annually, predominantly affecting low- and middle-income countries. This persistent burden, coupled with the rise of antibiotic resistance, underscores an urgent need for alternative therapeutic strategies. In response, this study investigates the therapeutic potential of phytochemicals derived from Carissa carandas, a novel and underexplored medicinal plant traditionally used in ethnomedicine, through an integrated computational approach. A comprehensive library of 143 phytochemicals was assembled and rigorously screened using Lipinski’s rule of five and ADMET parameters, which led to the identification of 42 promising candidates for further evaluation. Molecular docking studies revealed that key compounds including Ursolic acid, carissic acid, and 3-hydroxyurs-12-en-28-oic acid exhibited binding affinities of approximately –9.6, –9.4, and –9.6 kcal/mol, respectively, significantly outperforming ciprofloxacin, which showed a binding affinity of –7.0 kcal/mol. To further assess the stability of these interactions, molecular dynamics simulations were conducted over a 100 ns period. The results demonstrated outstanding structural stability of the Ursolic acid–OmpF complex, as evidenced by a strong network of hydrogen bonds throughout the simulation and minimal root-mean-square deviation (RMSD) fluctuations. Because Ursolic acid strongly interacts with the target protein, complementary MMGBSA analysis produced a total binding energy of –32.35 ± 2.87 kcal/mol. Furthermore, ADMET profiling confirmed that the lead compounds possess certain favorable pharmacokinetic properties and safety profiles and have improved drug-likeness scores relative to ciprofloxacin. These numerical outcomes suggest that C. carandas-derived compounds represent a promising phytotherapeutic approach for managing typhoid fever; therefore, further tests using both in vitro and in vivo setups are necessary to confirm this.
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