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Molecular MachinesA Materials Science Approach$
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Giovanni Zocchi

Print publication date: 2018

Print ISBN-13: 9780691173863

Published to Princeton Scholarship Online: January 2019

DOI: 10.23943/princeton/9780691173863.001.0001

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Dynamics of Enzyme Action

Dynamics of Enzyme Action

Chapter:
(p.122) 4 Dynamics of Enzyme Action
Source:
Molecular Machines
Author(s):

Giovanni Zocchi

Publisher:
Princeton University Press
DOI:10.23943/princeton/9780691173863.003.0004

This chapter discusses the deformability of enzymes. This property allows enzymes to couple a chemical process to a cycle of deformations of the molecule, which can perform a task in the cell. This is the celebrated “molecular machine” aspect of enzymes. The dynamics of enzyme deformability presents universal features when ensemble-averaged trajectories are examined. The mechanical response is viscoelastic. The remainder of the chapter covers the nonlinearity of the enzyme's mechanics, timescales, enzymatic cycle and viscoelasticity, internal dissipation, origin of the restoring force g, models based on chemical kinetics, different levels of microscopic description, connection to information flow, normal mode analysis, many states of the folded protein, and interesting topics in nonequilibrium thermodynamics relating to enzyme dynamics.

Keywords:   enzymes, enzyme deformability dynamics, deformations, molecular machine, viscoelasticity, viscoelasticity, chemical kinetics, folded protein, nonequilibrium thermodynamics

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