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用点偶极静电作用参数化胆固醇的粗粒模型。

Parameterization of a coarse-grained model of cholesterol with point-dipole electrostatics.

机构信息

Departamento de Química, Faculdade de Filosofia, Ciências e Letras de Ribeirão Preto (FFCLRP), Universidade de São Paulo (USP), Av. Bandeirantes, 3900, Ribeirão Preto, SP, 14040-901, Brazil.

MEMPHYS-Center for Biomembrane Physics, Department of Physics and Chemistry, University of Southern Denmark, Odense, Denmark.

出版信息

J Comput Aided Mol Des. 2018 Nov;32(11):1259-1271. doi: 10.1007/s10822-018-0164-4. Epub 2018 Sep 26.

Abstract

We present a new coarse-grained (CG) model of cholesterol (CHOL) for the electrostatic-based ELBA force field. A distinguishing feature of our CHOL model is that the electrostatics is modeled by an explicit point dipole which interacts through an ideal vacuum permittivity. The CHOL model parameters were optimized in a systematic fashion, reproducing the electrostatic and nonpolar partitioning free energies of CHOL in lipid/water mixtures predicted by full-detailed atomistic molecular dynamics simulations. The CHOL model has been validated by comparison to structural, dynamic and thermodynamic properties with experimental and atomistic simulation reference data. The simulation of binary DPPC/cholesterol mixtures covering the relevant biological content of CHOL in mammalian membranes is shown to correctly predict the main lipid behavior as observed experimentally.

摘要

我们提出了一个新的粗粒化(CG)胆固醇(CHOL)模型,用于基于静电的 ELBA 力场。我们的 CHOL 模型的一个显著特点是,通过理想真空介电常数相互作用的显式点偶极子来模拟静电。CHOL 模型参数以系统的方式进行了优化,重现了全原子分子动力学模拟预测的脂质/水混合物中 CHOL 的静电和非极性分配自由能。通过与实验和原子模拟参考数据的结构、动态和热力学性质进行比较,验证了 CHOL 模型。模拟包含哺乳动物膜中 CHOL 相关生物含量的 DPPC/胆固醇二元混合物,正确预测了实验观察到的主要脂质行为。

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