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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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Statics of DNA Deformations

Statics of DNA Deformations

Chapter:
(p.25) 2 Statics of DNA Deformations
Source:
Molecular Machines
Author(s):

Giovanni Zocchi

Publisher:
Princeton University Press
DOI:10.23943/princeton/9780691173863.003.0002

DNA is a deformable molecule. The term “deformable” implies phenomena rooted in the collective behavior of many atoms, and a description based on concepts of continuum and statistical mechanics. Long DNA molecules are an excellent experimental system to study the equilibrium conformations and dynamics of long, flexible molecules. This chapter discusses the following: DNA melting, the zipper model, experimental melting curves, base pairing and base stacking as separate, Hamiltonian formulation of the zipper model, 2 × 2 model, nearest neighbor model, connection to nonlinear dynamics, linear and nonlinear elasticity of DNA, bending modulus and persistence length, measurements of DNA elasticity (short and long molecules), the Euler instability, and the DNA yield transition.

Keywords:   DNA deformation, DNA molecules, atoms, DNA melting, zipper model, base pairing, base stacking, nearest neighbor model

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