Ligand pathways in estrogen-related receptors

受体 核受体 元动力学 雌激素受体 配体(生物化学) 信号转导 化学 细胞生物学 生物 生物化学 转录因子 遗传学 分子动力学 基因 癌症 计算化学 乳腺癌
作者
André Fischer,Ferhat Bardakci,Manuel Sellner,Markus A. Lill,Martin Smieško
出处
期刊:Journal of Biomolecular Structure & Dynamics [Informa]
卷期号:41 (5): 1639-1648 被引量:1
标识
DOI:10.1080/07391102.2022.2027818
摘要

The three subtypes of estrogen-related receptors ERRα, ERRβ, and ERRγ are nuclear receptors mediating metabolic processes in various tissues such as the skeletal muscle, fat tissue, bone, and liver. Although the knowledge on their physiological ligands is limited, they have been implicated as drug targets for important indications including diabetes, cardiovascular diseases, and osteoporosis. As in other nuclear receptors, their ligand binding pocket is buried within the core of the receptor and connected to its surrounding by ligand pathways. Here, we investigated these pathways with conventional molecular dynamics as well as metadynamics simulations to reveal their distribution and their capability to facilitate ligand translocation. Dependent on the ERR subtype and the conformational state of the receptor, we could detect different pathways to be favored. Overall, the results suggested pathways IIIa and IIIb to be favored in the agonistic conformation, while antagonists preferred pathways I, II, and V. Along the pathways, the ligands passed different gating mechanisms of the receptor, including groups of protein residues as well as whole secondary structure elements, to leave the binding site. Even though these pathways are suggested to influence ligand specificity of the receptors and their elucidation might advance rational drug design, they have not yet been studied in ERRs.Communicated by Ramaswamy H. Sarma.
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