Sequence sensitivity of breathing dynamics in heteropolymer DNA

Details Sequence sensitivity of breathing dynamics in heteropolymer DNA Sequence sensitivity of breathing dynamics in heteropolymer DNA

2006-08-24

arxiv.org/abs/q-bio/0608036v1

Biology

Quantitative Biology

Biomolecules

4 pages, 5 figures, to appear in Physical Review Letters

Scientific paper

10.1103/PhysRevLett.97.128105

We study the fluctuation dynamics of localized denaturation bubbles in heteropolymer DNA with a master equation and complementary stochastic simulation based on novel DNA stability data. A significant dependence of opening probability and waiting time between bubble events on the local DNA sequence is revealed and quantified for a biological sequence of the T7 bacteriophage. Quantitative agreement with data from fluorescence correlation spectroscopy (FCS) is demonstrated.

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