Optimal Allocation of Dissipation to Maximize Flux, Analytically

Author: 
Peer reviewed: 
No, item is not peer reviewed.
Scholarly level: 
Undergraduate student
Date created: 
2018
Keywords: 
Molecular machines
Directionality
Free energy allocation
Abstract: 

Biological processes are inherently stochastic, and to achieve directionality, consume free energy. In most cases, the total free energy for a single cycle is fixed. We investigate how this fixed free energy can be allocated throughout different states to maximize the probability flux. We adopt a formalism based on the master equation to find exact solutions to the probability distribution for a specific state at a given time in Laplace space. With this analytical expression for probability distributions, we can calculate the probability flux for a 2-state and 3-state systems using two different energy landscapes, forward=labile, and reverse-labile schemes. We find the optimal allocation of free energy is unevenly distributed to compensate for slower transitions rates in the cycle.

Language: 
English
Document type: 
Thesis
Rights: 
Rights remain with the author.
File(s): 
Senior supervisor: 
David Sivak
Department: 
Science: Department of Physics
Thesis type: 
Honours Bachelor of Science
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