Annealed random copolymer model of the B-Z transition in DNA: Torsional responses

Ah Young Kwon, Nam Kyung Lee, Seok Cheol Hong, Julien Fierling, Albert Johner

Research output: Contribution to journalArticle

3 Citations (Scopus)

Abstract

Both in vivo and in vitro, specific sequences in double-stranded DNA can adopt the left-handed Z-form when underwound. Recently, the B-Z transition of DNA has been studied in detail in magnetic tweezers experiments by several groups. We present a theoretical description of this transition, based on an annealed random copolymer model. The transition of a switchable sequence is discussed as a function of energetic and geometric parameters of the B- and Z-forms, of the applied boundary conditions, and of the characteristics of the B-Z interface. We address a possible torsional softening upon the B-Z transition. The model can be also applied to other biofilaments with annealed torsional/flexural degrees of freedom.

Original languageEnglish
Pages (from-to)2562-2572
Number of pages11
JournalBiophysical Journal
Volume108
Issue number10
DOIs
Publication statusPublished - 2015 May 19

Fingerprint

Z-Form DNA
DNA
In Vitro Techniques

ASJC Scopus subject areas

  • Biophysics

Cite this

Annealed random copolymer model of the B-Z transition in DNA : Torsional responses. / Kwon, Ah Young; Lee, Nam Kyung; Hong, Seok Cheol; Fierling, Julien; Johner, Albert.

In: Biophysical Journal, Vol. 108, No. 10, 19.05.2015, p. 2562-2572.

Research output: Contribution to journalArticle

Kwon, Ah Young ; Lee, Nam Kyung ; Hong, Seok Cheol ; Fierling, Julien ; Johner, Albert. / Annealed random copolymer model of the B-Z transition in DNA : Torsional responses. In: Biophysical Journal. 2015 ; Vol. 108, No. 10. pp. 2562-2572.
@article{95b1773397974682b8ec6f408cb81941,
title = "Annealed random copolymer model of the B-Z transition in DNA: Torsional responses",
abstract = "Both in vivo and in vitro, specific sequences in double-stranded DNA can adopt the left-handed Z-form when underwound. Recently, the B-Z transition of DNA has been studied in detail in magnetic tweezers experiments by several groups. We present a theoretical description of this transition, based on an annealed random copolymer model. The transition of a switchable sequence is discussed as a function of energetic and geometric parameters of the B- and Z-forms, of the applied boundary conditions, and of the characteristics of the B-Z interface. We address a possible torsional softening upon the B-Z transition. The model can be also applied to other biofilaments with annealed torsional/flexural degrees of freedom.",
author = "Kwon, {Ah Young} and Lee, {Nam Kyung} and Hong, {Seok Cheol} and Julien Fierling and Albert Johner",
year = "2015",
month = "5",
day = "19",
doi = "10.1016/j.bpj.2015.03.060",
language = "English",
volume = "108",
pages = "2562--2572",
journal = "Biophysical Journal",
issn = "0006-3495",
publisher = "Biophysical Society",
number = "10",

}

TY - JOUR

T1 - Annealed random copolymer model of the B-Z transition in DNA

T2 - Torsional responses

AU - Kwon, Ah Young

AU - Lee, Nam Kyung

AU - Hong, Seok Cheol

AU - Fierling, Julien

AU - Johner, Albert

PY - 2015/5/19

Y1 - 2015/5/19

N2 - Both in vivo and in vitro, specific sequences in double-stranded DNA can adopt the left-handed Z-form when underwound. Recently, the B-Z transition of DNA has been studied in detail in magnetic tweezers experiments by several groups. We present a theoretical description of this transition, based on an annealed random copolymer model. The transition of a switchable sequence is discussed as a function of energetic and geometric parameters of the B- and Z-forms, of the applied boundary conditions, and of the characteristics of the B-Z interface. We address a possible torsional softening upon the B-Z transition. The model can be also applied to other biofilaments with annealed torsional/flexural degrees of freedom.

AB - Both in vivo and in vitro, specific sequences in double-stranded DNA can adopt the left-handed Z-form when underwound. Recently, the B-Z transition of DNA has been studied in detail in magnetic tweezers experiments by several groups. We present a theoretical description of this transition, based on an annealed random copolymer model. The transition of a switchable sequence is discussed as a function of energetic and geometric parameters of the B- and Z-forms, of the applied boundary conditions, and of the characteristics of the B-Z interface. We address a possible torsional softening upon the B-Z transition. The model can be also applied to other biofilaments with annealed torsional/flexural degrees of freedom.

UR - http://www.scopus.com/inward/record.url?scp=84929989715&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84929989715&partnerID=8YFLogxK

U2 - 10.1016/j.bpj.2015.03.060

DO - 10.1016/j.bpj.2015.03.060

M3 - Article

C2 - 25992734

AN - SCOPUS:84929989715

VL - 108

SP - 2562

EP - 2572

JO - Biophysical Journal

JF - Biophysical Journal

SN - 0006-3495

IS - 10

ER -