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Effect of the R119G mutation on human P5CR structure and its interactions with NAD: Insights derived from molecular dynamics simulation and free energy analysis

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机构: [1]Laboratory of Molecular Cardiology, Department of Cardiology,The First Affiliated Hospital of Kunming Medical University, Kunming, PR China [2]Department of Computer Science, The Faculty of Basic Medicine, Kunming Medical University, Kunming, PR China [3]State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan University, Kunming, PR China
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关键词: P5CR Cutis laxa Molecular dynamics Binding free energy

摘要:
Pyrroline-5-carboxylate reductase (P5CR), an enzyme with conserved housekeeping roles, is involved in the etiology of cutis laxa. While previous work has shown that the R119G point mutation in the P5CR protein is involved, the structural mechanism behind the pathology remains to be elucidated. In order to probe the role of the R119G mutation in cutis laxa, we performed molecular dynamics (MD) simulations, essential dynamics (ED) analysis, and Molecular mechanics Poisson-Boltzmann surface area (MM-PBSA) binding free energy calculations on wild type (WT) and mutant P5CR-NAD complex. These MD simulations and ED analyses suggest that the R119G mutation decreases the flexibility of P5CR, specifically in the substrate binding pocket, which could decrease the kinetics of the cofactor entrance and egress. Furthermore, the MM-PBSA calculations suggest the R119G mutant has a lower cofactor binding affinity for NAD than WT. Our study provides insight into the possible role of the R119G mutation during interactions between P5CR and NAD, thus bettering our understanding of how the mutation promotes cutis laxa. (C) 2017 Elsevier Ltd. All rights reserved.

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出版当年[2018]版:
大类 | 4 区 生物
小类 | 4 区 生物学 4 区 计算机:跨学科应用
最新[2023]版:
大类 | 4 区 生物学
小类 | 4 区 生物学 4 区 计算机:跨学科应用
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出版当年[2017]版:
Q3 BIOLOGY Q3 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS
最新[2023]版:
Q2 BIOLOGY Q2 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS

影响因子: 最新[2023版] 最新五年平均 出版当年[2017版] 出版当年五年平均 出版前一年[2016版] 出版后一年[2018版]

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第一作者机构: [1]Laboratory of Molecular Cardiology, Department of Cardiology,The First Affiliated Hospital of Kunming Medical University, Kunming, PR China
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