一些Keap1抑制剂的分子动力学、量子力学和对接研究——对其抗氧化潜力原子机制的洞察

Molecular dynamics, quantum mechanics and docking studies of some Keap1 inhibitors - An insight into the atomistic mechanisms of their antioxidant potential.

作者信息

Adelusi Temitope Isaac, Abdul-Hammed Misbaudeen, Idris Mukhtar Oluwaseun, Oyedele Qudus Kehinde, Adedotun Ibrahim Olaide

机构信息

Computational Biology/Drug Discovery Laboratory, Department of Biochemistry, Ladoke Akintola University of Technology, Ogbomosho, Nigeria.

Biophysical and Computational Chemistry Unit, Department of Pure and Applied Chemistry, Ladoke Akintola University of Technology, Ogbomoso, Oyo State, Nigeria.

出版信息

Heliyon. 2021 Jun 16;7(6):e07317. doi: 10.1016/j.heliyon.2021.e07317. eCollection 2021 Jun.

Abstract

Inhibitors of Keap1 would disrupt the covalent interaction between Keap1 and Nrf2 to unleash Nrf2 transcriptional machinery that orchestrates its cellular antioxidant, cytoprotective and detoxification processes thereby, protecting the cells against oxidative stress mediated diseases. In this research, we investigated the Keap1 inhibiting potential of fifty (50) antioxidants using pharmacokinetic ADMET profiling, bioactivity assessment, physicochemical studies, molecular docking investigation, molecular dynamics and Quantum mechanical-based Density Functional Theory (DFT) studies using Keap1 as the apoprotein control. Out of these 50 antioxidants, Maslinic acid (MASA), 18-alpha-glycyrrhetinic acid (18-AGA) and resveratrol stand out by passing the RO5 (Lipinski rule of 5) for the physicochemical properties and ADMET studies. These three compounds also show high binding affinity of -10.6 kJ/mol, -10.4 kJ/mol and -7.8 kJ/mol at the kelch pocket of Keap1 respectively. Analysis of the 20ns trajectories using RMSD, RMSF, ROG and h-bond parameters revealed the stability of these compounds after comparing them with Keap1 apoprotein. Furthermore, the electron donating and accepting potentials of these compounds was used to investigate their reactivity using Density Functional Theory (HOMO and LUMO) and it was revealed that resveratrol had the highest stability based on its low energy gap. Our results predict that the three compounds are potential drug candidates with domiciled therapeutic functions against oxidative stress-mediated diseases. However, resveratrol stands out as the compound with the best stability and therefore, could be the best candidate with the best therapeutic efficacy.

摘要

Keap1抑制剂会破坏Keap1与Nrf2之间的共价相互作用,从而释放Nrf2转录机制,该机制可协调细胞的抗氧化、细胞保护和解毒过程,进而保护细胞免受氧化应激介导的疾病侵害。在本研究中,我们以Keap1作为载脂蛋白对照,通过药代动力学ADMET分析、生物活性评估、物理化学研究、分子对接研究、分子动力学以及基于量子力学的密度泛函理论(DFT)研究,考察了五十种(50种)抗氧化剂抑制Keap1的潜力。在这50种抗氧化剂中,山楂酸(MASA)、18-α-甘草次酸(18-AGA)和白藜芦醇在物理化学性质和ADMET研究方面通过了RO5(Lipinski五规则)。这三种化合物在Keap1的kelch口袋处的结合亲和力也分别高达-10.6 kJ/mol、-10.4 kJ/mol和-7.8 kJ/mol。使用RMSD、RMSF、ROG和氢键参数对20ns轨迹进行分析,将这些化合物与Keap1载脂蛋白进行比较后,揭示了它们的稳定性。此外,利用密度泛函理论(HOMO和LUMO),通过这些化合物的给电子和吸电子潜力来研究它们的反应活性,结果表明白藜芦醇因其低能隙而具有最高的稳定性。我们的结果预测,这三种化合物是针对氧化应激介导疾病具有固有治疗功能的潜在候选药物。然而,白藜芦醇作为稳定性最佳的化合物脱颖而出,因此可能是具有最佳治疗效果的最佳候选药物。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7852/8233138/ca39f1937b36/gr1.jpg

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