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针对杜氏利什曼原虫中靶向MCM10的抑制剂的计算机模拟和体外方法研究:一项综合研究。

Investigation into in silico and in vitro approaches for inhibitors targeting MCM10 in Leishmania donovani: a comprehensive study.

作者信息

Saha Satabdi, Sharma Anupama, Bhowmik Deep, Kumar Diwakar

机构信息

Department of Microbiology, Assam University, Silchar, 788011, Assam, India.

Department of Computational Sciences, Central University of Punjab, Bathinda, 151401, Punjab, India.

出版信息

Mol Divers. 2025 Feb;29(1):575-590. doi: 10.1007/s11030-024-10876-y. Epub 2024 May 9.

Abstract

Visceral Leishmaniasis (VL), the second neglected tropical disease caused by various Leishmania species, presents a significant public health challenge due to limited treatment options and the absence of vaccines. The agent responsible for visceral leishmaniasis, also referred to as "black fever" in India, is Leishmania donovani. This study focuses on L. donovani Minichromosome maintenance 10 (LdMcm10), a crucial protein in the DNA replication machinery, as a potential therapeutic target in Leishmania therapy using in silico and in vitro approaches. We employed bioinformatics tools, molecular docking, and molecular dynamics simulations to predict potential inhibitors against the target protein. The research revealed that the target protein lacks homologues in the host, emphasizing its potential as a drug target. Ligands from the DrugBank database were screened against LdMcm10 using PyRx software. The top three compounds, namely suramin, vapreotide, and pasireotide, exhibiting the best docking scores, underwent further investigation through molecular dynamic simulation and in vitro analysis. The observed structural dynamics suggested that LdMcm10-ligand complexes maintained consistent binding throughout the 300 ns simulation period, with minimal variations in their backbone. These findings suggest that these three compounds hold promise as potential lead compounds for developing new drugs against leishmaniasis. In vitro experiments also demonstrated a dose-dependent reduction in L. donovani viability for suramin, vapreotide, and pasireotide, with computed IC values providing quantitative metrics of their anti-leishmanial efficacy. The research offers a comprehensive understanding of LdMcm10 as a drug target and provides a foundation for further investigations and clinical exploration, ultimately advancing drug discovery strategies for leishmaniasis treatment.

摘要

内脏利什曼病(VL)是由多种利什曼原虫引起的第二种被忽视的热带病,由于治疗选择有限且缺乏疫苗,它对公共卫生构成了重大挑战。导致内脏利什曼病的病原体,在印度也被称为“黑热病”,是杜氏利什曼原虫。本研究聚焦于杜氏利什曼原虫微小染色体维持蛋白10(LdMcm10),它是DNA复制机制中的一种关键蛋白,采用计算机模拟和体外实验方法将其作为利什曼原虫治疗中的潜在治疗靶点。我们运用生物信息学工具、分子对接和分子动力学模拟来预测针对该靶蛋白的潜在抑制剂。研究表明,该靶蛋白在宿主中缺乏同源物,突出了其作为药物靶点的潜力。使用PyRx软件从DrugBank数据库中筛选针对LdMcm10的配体。对接分数最高的三种化合物,即苏拉明、伐普肽和帕西瑞肽,通过分子动力学模拟和体外分析进行了进一步研究。观察到的结构动力学表明,LdMcm10 - 配体复合物在整个300纳秒的模拟期内保持一致的结合,其主链变化极小。这些发现表明,这三种化合物有望成为开发抗利什曼病新药的潜在先导化合物。体外实验还证明,苏拉明、伐普肽和帕西瑞肽可使杜氏利什曼原虫的活力呈剂量依赖性降低,计算得到的IC值提供了它们抗利什曼原虫功效的定量指标。该研究全面了解了LdMcm10作为药物靶点的情况,并为进一步研究和临床探索奠定了基础,最终推动利什曼病治疗的药物发现策略。

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