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从计算方法角度探索新型高亲和力磷酸二酯酶 10A 抑制剂治疗神经退行性疾病的研究进展

An insight from computational approach to explore novel, high-affinity phosphodiesterase 10A inhibitors for neurological disorders.

机构信息

Structural Bioinformatics Lab, CSIR-Institute of Himalayan Bioresource Technology (CSIR-IHBT), Palampur, HP, India.

Biotechnology Division, CSIR-IHBT, Palampur, HP, India.

出版信息

J Biomol Struct Dyn. 2023 Nov;41(19):9424-9436. doi: 10.1080/07391102.2022.2141895. Epub 2022 Nov 6.

DOI:10.1080/07391102.2022.2141895
PMID:36336960
Abstract

The enzyme Phosphodiesterase 10A (PDE10A) plays a regulatory role in the cAMP/protein kinase A (PKA) signaling pathway by means of hydrolyzing cAMP and cGMP. PDE10A emerges as a relevant pharmacological drug target for neurological conditions such as psychosis, schizophrenia, Parkinson's, Huntington's disease, and other memory-related disorders. In the current study, we subjected a set of 1,2,3-triazoles to be explored as PDE10A inhibitors using diverse computational approaches, including molecular docking, classical molecular dynamics (MD) simulations, Molecular Mechanics Poisson-Boltzmann Surface Area (MM-PBSA) calculations, steered MD, and umbrella sampling simulations. Molecular docking of cocrystallized ligands papaverine and PFJ, along with a set of in-house synthesized molecules, suggested that molecule 3i haded the highest binding affinity, followed by 3h and 3j. Furthermore, the structural stability studies using MD and MM-PBSA indicated that the 3h and 3j formed stable complexes with PDE10A. The binding free energy of -240.642 kJ/mol and -201.406 kJ/mol was observed for 3h and 3j, respectively. However, the cocrystallized ligands papaverine and PFJ exhibited comparitively higher binding free energy values of -202.030 kJ/mol and -138.764 kJ/mol, respectively. Additionally, steered MD and umbrella sampling simulations provided conclusive evidence that the molecules 3h and 3j could be exploited as promising candidates to target PDE10A.Communicated by Ramaswamy H. Sarma.

摘要

磷酸二酯酶 10A(PDE10A)通过水解 cAMP 和 cGMP 对 cAMP/蛋白激酶 A(PKA)信号通路发挥调节作用。PDE10A 成为神经疾病的相关药物靶点,如精神病、精神分裂症、帕金森病、亨廷顿病和其他与记忆相关的疾病。在本研究中,我们使用多种计算方法(包括分子对接、经典分子动力学(MD)模拟、分子力学泊松-玻尔兹曼表面面积(MM-PBSA)计算、导向 MD 和伞状采样模拟),对一组 1,2,3-三唑类化合物进行了探索,以作为 PDE10A 抑制剂。分子对接共晶配体罂粟碱和 PFJ 以及一组内部合成的分子表明,分子 3i 具有最高的结合亲和力,其次是 3h 和 3j。此外,使用 MD 和 MM-PBSA 进行的结构稳定性研究表明,3h 和 3j 与 PDE10A 形成稳定的复合物。观察到 3h 和 3j 的结合自由能分别为-240.642 kJ/mol 和-201.406 kJ/mol。然而,共晶配体罂粟碱和 PFJ 分别表现出相对较高的结合自由能值-202.030 kJ/mol 和-138.764 kJ/mol。此外,导向 MD 和伞状采样模拟提供了确凿的证据,表明分子 3h 和 3j 可被开发为针对 PDE10A 的有前途的候选药物。由 Ramaswamy H. Sarma 传达。

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