Divided Saddle Theory: A New Idea for Rate Constant Calculation.
نویسندگان
چکیده
We present a theory of rare events and derive an algorithm to obtain rates from postprocessing the numerical data of a free energy calculation and the corresponding committor analysis. The formalism is based on the division of the saddle region of the free energy profile of the rare event into two adjacent segments called saddle domains. The method is built on sampling the dynamics within these regions: auxiliary rate constants are defined for the saddle domains and the absolute forward and backward rates are obtained by proper reweighting. We call our approach divided saddle theory (DST). An important advantage of our approach is that it requires only standard computational techniques which are available in most molecular dynamics codes. We demonstrate the potential of DST numerically on two examples: rearrangement of alanine-dipeptide (CH3CO-Ala-NHCH3) conformers and the intramolecular Cope reaction of the fluxional barbaralane molecule.
منابع مشابه
Constraint at a Saddle Node Bifurcation
Many power engineering systems have dynamic state variables which can encounter constraints or limits affecting system stability. Voltage collapse is an instability associated with the occurrence of a saddle node bifurcation in the equations which model the electric power system. We investigate the effect of constraints on voltage collapse by studying the effect of constraining state variables ...
متن کاملA New Stock Model for Option Pricing in Uncertain Environment
The option-pricing problem is always an important part in modern finance. Assuming that the stock diffusion is a constant, some literature has introduced many stock models and given corresponding option pricing formulas within the framework of the uncertainty theory. In this paper, we propose a new stock model with uncertain stock diffusion for uncertain markets. Some option pricing formulas on...
متن کاملViscosity Calculation of Supercritical Gases Based on the Rainwater-Friend Theory and the Modified Enskog Theory
A new correlation function for the calculation of viscosity for five typical supercritical gases is presented using the rainwater-Friend and modified Enskog theory. It is shown that by using accurate value for the thermal pressure and co-volume in the modified Enskog theory, this correlation function is suitable for calculation of the viscosity of supercritical gases, without any density an...
متن کاملA Consistent Calculation of Bubble-Nucleation Rates
We present a consistent picture of tunnelling in field theory. Our results apply both to high-temperature field theories in four dimensions and to zero-temperature threedimensional ones. Our approach is based on the notion of a coarse-grained potential Uk that incorporates the effect of fluctuations with characteristic momenta above a given scale k. Uk is non-convex and becomes equal to the con...
متن کاملAutonomous Renormalization of Φ in Finite Geometry
The autonomous renormalization of the O(N)-symmetric scalar theory is based on an infinite re-scaling of constant fields, whereas finite-momentum modes remain finite. The natural framework for a detailed analysis of this method is a system of finite size, where all non-constant modes can be integrated out perturbatively and the constant mode is treated by a saddle-point approximation in the the...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید
ثبت ناماگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید
ورودعنوان ژورنال:
- Journal of chemical theory and computation
دوره 10 3 شماره
صفحات -
تاریخ انتشار 2014