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嘌呤还原酶 1 的潜在小分子抑制剂的计算研究。

Computational studies on potential small molecule inhibitors of pteridine reductase 1.

机构信息

Department of Chemistry, Kwame Nkrumah University of Science and Technology, Kumasi, Ghana.

Central Laboratory, Kwame Nkrumah University of Science and Technology, Kumasi, Ghana.

出版信息

J Biomol Struct Dyn. 2023;41(21):12128-12141. doi: 10.1080/07391102.2023.2166119. Epub 2023 Jan 12.


DOI:10.1080/07391102.2023.2166119
PMID:36632757
Abstract

Leishmaniasis is a neglected tropical disease of major public health concern. Challenges with current therapeutics have led to the exploration of plant medicine for potential antileishmanial agents. Despite the promising activity of some antileishmanial natural products, their protein targets have not been explored. The relevance of folate metabolism in the parasite's existence presents crucial targets for the development of antileishmanial chemotherapy. Pteridine reductase 1 (PTR1), a crucial enzyme involved in DNA biosynthesis, is a validated target of the parasite. Unearthing inhibitors of this enzyme is therefore an active research area. The goal of this work is to unearth small molecule inhibitors of PTR1 using molecular docking and molecular dynamic simulations. Thus, the interactions between selected antileishmanial natural products and PTR1 were examined. The binding affinities obtained from molecular docking ranged from -6.2 to -9.8 kcal/mol. When compared to the natural PTR1 substrate biopterin, compounds such as anonaine, chimanine D, corynantheine, grifolin, licochalcone A, piperogalin and xylopine produced better binding affinities, making interactions catalytic residues - Tyr194, Asp181, Phe113, Arg17 and Ser111. The PTR1- xylopine, -piperogalin, -grifolin, and -licochalcone A complexes exhibited remarkable stability under dynamic conditions during the entire 200 ns simulation period. The overall binding free energy of grifolin, piperogalin, and licochalcone A were observed to be -105.711, -103.567, and -105.646 kJ/mol respectively. The binding of these complexes was observed to be favorable and spontaneous and as such capable of inhibiting Leishmania PTR1. They could therefore be considered as candidates in the development of antileishmanial chemotherapy.Communicated by Ramaswamy H. Sarma.

摘要

利什曼病是一种被忽视的热带疾病,对公共健康构成重大威胁。目前治疗方法存在挑战,促使人们探索植物药物以寻找潜在的抗利什曼原虫药物。尽管一些抗利什曼原虫天然产物具有很有前景的活性,但它们的蛋白质靶标尚未得到探索。叶酸代谢在寄生虫生存中的相关性为开发抗利什曼病化疗提供了重要靶标。蝶呤还原酶 1(PTR1)是参与 DNA 生物合成的关键酶,是寄生虫的一个已验证的靶标。因此,发现该酶的抑制剂是一个活跃的研究领域。这项工作的目标是使用分子对接和分子动力学模拟发现 PTR1 的小分子抑制剂。因此,研究了选定的抗利什曼原虫天然产物与 PTR1 的相互作用。分子对接获得的结合亲和力范围为-6.2 至-9.8 kcal/mol。与天然 PTR1 底物生物蝶呤相比,阿农胺、西曼宁 D、考里那汀、格里福林、甘草查尔酮 A、胡椒醇和木樨草碱等化合物产生了更好的结合亲和力,与催化残基 Tyr194、Asp181、Phe113、Arg17 和 Ser111 相互作用。在整个 200 ns 模拟期间,PTR1-木樨草碱、-胡椒醇、-格里福林和-甘草查尔酮 A 复合物在动态条件下表现出显著的稳定性。格里福林、胡椒醇和甘草查尔酮 A 的总结合自由能分别观察到为-105.711、-103.567 和-105.646 kJ/mol。观察到这些复合物的结合是有利和自发的,因此能够抑制利什曼原虫 PTR1。因此,它们可以被认为是开发抗利什曼病化疗的候选药物。由 Ramaswamy H. Sarma 传达。

相似文献

[1]
Computational studies on potential small molecule inhibitors of pteridine reductase 1.

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[3]
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[5]
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[6]
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[7]
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[8]
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引用本文的文献

[1]
Synthesis of thiosemicarbazone Schiff base derivatives as anti-leishmanial agents and molecular dynamics simulations insights.

Sci Rep. 2025-7-10

[2]
Marine-Derived Furanones Targeting Quorum-Sensing Receptors in : Molecular Insights and Potential Mechanisms of Inhibition.

Bioinform Biol Insights. 2024-9-5

[3]
Antileishmanial natural products as potential inhibitors of the pteridine reductase: insights from molecular docking and molecular dynamics simulations.

In Silico Pharmacol. 2024-7-30

[4]
Computational investigation of turmeric phytochemicals targeting PTR1 enzyme of species.

Heliyon. 2024-3-16

[5]
Molecular Docking and Molecular Dynamics Simulations in Related to : An Update and Literature Review.

Trop Med Infect Dis. 2023-9-26

[6]
peptides as potential antimicrobial agents.

Heliyon. 2023-8-30

[7]
Structure and dynamics of pteridine reductase 1: the key phenomena relevant to enzyme function and drug design.

Eur Biophys J. 2023-10

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