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Implementation of Umbrella Integration within the Framework of the Empirical Valence Bond Approach

机译:经验价键法框架内伞整合的实施

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The umbrella integration method for calculating the potential of mean force(PMF)for a chemical reaction is implemented within the empirical valence bond(EVB)framework.In this implementation,the PMF is generated along the energy gap reaction coordinate,and the biasing potential is the difference between the mapping potential,which is defined to be a linear combination of the valence bond state energies,and the EVB ground state energy.The umbrella integration method is based on the derivative of the PMF with respect to the reaction coordinate.An analytical expression for this derivative applicable to certain types of EVB potentials is presented.The advantages of the umbrella integration method are illustrated by the application of both umbrella integration and the weighted histogram analysis method to the hydride transfer reaction catalyzed by the enzyme dihydrofolate reductase.This application demonstrates that the umbrella integration method reduces the statistical errors,converges efficiently,and does not require significantly overlapping windows.A modified version of the weighted histogram analysis method that shares these advantages is also proposed and implemented.
机译:在经验价键(EVB)框架内采用伞式积分方法计算化学反应的平均力(PMF)电位。在此实现中,PMF沿着能隙反应坐标生成,偏置电位为映射势被定义为价键态能与EVB基态能的线性组合之间的差。伞式积分法基于PMF关于反应坐标的导数。提出了适用于某些类型EVB电位的该衍生物的表达式。伞式积分法的优势通过伞式积分法和加权直方图分析法在二氢叶酸还原酶催化的氢化物转移反应中的应用得以说明。证明了伞形积分法减少了统计误差,收敛了效率同时,也提出并实现了具有这些优点的加权直方图分析方法的改进版本。

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