通过虚拟筛选和分子动力学模拟发现潜在的GPRC5D抑制剂。

IF 3.1 4区 化学 Q2 CHEMISTRY, MULTIDISCIPLINARY
Xi Chen, Xinle Yang, Roufen Chen, Lei Xu, Xiaowu Dong, Zhen Cai
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引用次数: 0

摘要

G蛋白偶联受体家族C,第5组,成员D (GPRC5D)是G蛋白偶联受体(GPCR)家族的一员,最近成为血液系统恶性肿瘤,特别是多发性骨髓瘤免疫治疗的一个有希望的靶点。然而,目前还没有系统的虚拟筛选研究来确定靶向GPRC5D的小分子抑制剂。为了解决这一差距,开发了一种多步骤计算筛选策略,该策略集成了蛋白质配体亲和力预测网络(PLANET), gpu加速版AutoDock Vina (Vina- gpu),分子力学/广义出生表面积(MM/GBSA),以及吸收,分布,代谢,排泄和毒性(ADMET)性质预测的在线工具(admetSAR 3.0),并辅以分子动力学(MD)模拟和绝对结合自由能(ABFE)。从8,617个化合物的初始库中,优先考虑4个候选化合物(化合物1、2、7和8)。其中化合物2具有较强的结合亲和力(MM/GBSA ΔG = -79.8 kcal mol-1, ABFE = -9.0 kcal mol-1)和较高的药物相似度(药物相似度定量估计= 0.670)。MD模拟证实了其与关键残基ASP238和ASP239之间稳定的盐桥相互作用。本研究提出了一个系统的虚拟筛选工作流程,以促进gprc5d靶向治疗的发现。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Discovery of Potential GPRC5D Inhibitors through Virtual Screening and Molecular Dynamics Simulations.

G protein-coupled receptor family C, group 5, member D (GPRC5D), a member of the G protein-coupled receptor (GPCR) family, has recently emerged as a promising target for immunotherapy in hematologic malignancies, particularly multiple myeloma. However, no systematic virtual screening studies have been conducted to identify small-molecule inhibitors targeting GPRC5D. To address this gap, a multistep computational screening strategy is developed that integrates Protein-Ligand Affinity prediction NETwork (PLANET), a GPU-accelerated version of AutoDock Vina (Vina-GPU), molecular mechanics/generalized born surface area (MM/GBSA), and an online tool for Absorption, Distribution, Metabolism, Excretion, and Toxicity (ADMET) property prediction (admetSAR 3.0), complemented by molecular dynamics (MD) simulations and absolute binding free energy (ABFE). From an initial library of 8,617 compounds, four candidates (compounds 1, 2, 7, and 8) are prioritized. Among them, compound 2 shows relatively strong binding affinity (MM/GBSA ΔG = -79.8 kcal mol-1, ABFE = -9.0 kcal mol-1) and high drug-likeness (quantitative estimate of drug-likeness = 0.670). MD simulations confirm its stable salt bridge interactions with key residues ASP238 and ASP239. This study proposes a systematic virtual screening workflow to facilitate the discovery of GPRC5D-targeted therapeutics.

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来源期刊
ChemistryOpen
ChemistryOpen CHEMISTRY, MULTIDISCIPLINARY-
CiteScore
4.80
自引率
4.30%
发文量
143
审稿时长
1 months
期刊介绍: ChemistryOpen is a multidisciplinary, gold-road open-access, international forum for the publication of outstanding Reviews, Full Papers, and Communications from all areas of chemistry and related fields. It is co-owned by 16 continental European Chemical Societies, who have banded together in the alliance called ChemPubSoc Europe for the purpose of publishing high-quality journals in the field of chemistry and its border disciplines. As some of the governments of the countries represented in ChemPubSoc Europe have strongly recommended that the research conducted with their funding is freely accessible for all readers (Open Access), ChemPubSoc Europe was concerned that no journal for which the ethical standards were monitored by a chemical society was available for such papers. ChemistryOpen fills this gap.
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