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计算研究结构多样的植物次生代谢物作为抑制剂对. 的咪唑甘油磷酸脱水酶的作用

Computational insights into the role of structurally diverse plant secondary metabolites as inhibitors against Imidazole Glycerol Phosphate Dehydratase of .

机构信息

Environmental Biotechnology Laboratory, Centre for Rural Development and Technology, Indian Institute of Technology Delhi, New Delhi, India.

出版信息

J Biomol Struct Dyn. 2024 Sep;42(15):8159-8171. doi: 10.1080/07391102.2023.2245486. Epub 2023 Aug 14.

Abstract

() is one of the major causes of death worldwide and there is a pressing need for the development of novel drug leads. The Imidazole Glycerol Phosphate Dehydratase (IGPD) of is one of the key enzymes in the histidine biosynthesis pathway and has been recognized as the potentially underexploited drug target for anti-tuberculosis treatment. In the present study, 6063 structurally diverse plant secondary metabolites (PSM) were screened for their efficiency in inhibiting the catalytic activity of IGPD through molecular docking. The top 150 PSMs with the lowest binding energy represent the chemical classes, including Tannins (34%), Flavonoid Glycosides (14%), Terpene Glycosides (10%), Steroid Lactones (9.3%), Flavonoids (6.6%), Steroidal Glycosides (4.6%), etc. Bismahanine, Ashwagandhanolide, and Daurisoline form stable IGPD-inhibitor complexes with binding free energies of -291.3 ± 16.5, -279.0 ± 25.0, and -279.8 ± 17.6 KJ/mol, respectively, as determined by molecular dynamics simulations. These PSM demonstrated strong H-bond interactions with the amino acid residues Ile279, Arg281, and Lys276 in the catalytic region of IGPD, as revealed by structural snapshots. On the basis of our findings, these three PSM could be considered as possible leads against IGPD and should be explored and .Communicated by Ramaswamy H. Sarma.

摘要

()是全球主要死亡原因之一,因此迫切需要开发新的药物先导物。分枝杆菌的咪唑甘油磷酸脱水酶(IGPD)是组氨酸生物合成途径中的关键酶之一,已被认为是抗结核治疗中潜在未充分利用的药物靶点。在本研究中,通过分子对接筛选了 6063 种结构多样的植物次生代谢产物(PSM),以评估其抑制 IGPD 催化活性的效率。具有最低结合能的前 150 种 PSM 代表了化学类别,包括单宁(34%)、黄酮糖苷(14%)、萜类糖苷(10%)、甾体内酯(9.3%)、黄酮类(6.6%)、甾体糖苷(4.6%)等。通过分子动力学模拟,Bismahanine、Ashwagandhanolide 和 Daurisoline 与 IGPD 的催化区域的氨基酸残基 Ile279、Arg281 和 Lys276 形成稳定的 IGPD 抑制剂复合物,其结合自由能分别为-291.3±16.5、-279.0±25.0 和-279.8±17.6 KJ/mol。这些 PSM 与 IGPD 的催化区域的氨基酸残基 Ile279、Arg281 和 Lys276 表现出强烈的氢键相互作用,这一点通过结构快照得到了揭示。基于我们的发现,这三种 PSM 可以被认为是针对 IGPD 的潜在先导化合物,应该进行进一步探索和开发。

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