Optimal nonequilibrium driving of a rotary mechanochemical motor

Date created: 
2016-11-24
Identifier: 
etd9935
Keywords: 
Nonequilibrium thermodynamics
Stochastic physics
Optimal driving protocol
ATP synthase
Abstract: 

Prompted by current experiments on mechanically driven F1 ATP synthase, we investigate optimal (minimum-dissipation) driving protocols of rotary mechanochemical motors. We propose a simple model system coupling chemical reactions to mechanical motion under periodic boundary conditions, driven by a periodic time-dependent force. Under linear response approximations near equilibrium and near nonequilibrium steady states, optimal driving protocols are determined by a generalized friction coefficient. Such a model has a periodic generalized friction coefficient that peaks near system energy barriers, implying optimal protocols that proceed rapidly when the system is overwhelmingly in a single macrostate, but slow significantly near energy barriers, harnessing thermal fluctuations to kick the system over the energy barriers for free.

Document type: 
Thesis
Rights: 
This thesis may be printed or downloaded for non-commercial research and scholarly purposes. Copyright remains with the author.
File(s): 
Senior supervisor: 
David Sivak
Department: 
Science: Department of Physics
Thesis type: 
(Thesis) M.Sc.
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