Dynamic Approach to DNA Breathing

Forskningsoutput: TidskriftsbidragArtikel i vetenskaplig tidskrift

Abstract

Even under physiological conditions, the DNA double-helix spontaneously denatures locally, opening up fluctuating, flexible, single-stranded zones called DNA-bubbles. We present a dynamical description of this DNA-bubble breathing in terms of a Fokker-Planck equation for the bubble size, based on the Poland-Scheraga free energy for DNA denaturation. From this description, we can obtain basic quantities such as the lifetime, an important measure for the description of the interaction of a breathing DNA molecule and selectively single-stranded DNA binding proteins. Our approach is consistent with recent single molecule measurements of bubble fluctuation. We also introduce a master equation approach to model DNA breathing, and discuss its differences from the continuous Fokker-Planck description.

Detaljer

Författare
Externa organisationer
  • Nordic Institute for Theoretical Atomic Physics (NORDITA)
Forskningsområden

Ämnesklassifikation (UKÄ) – OBLIGATORISK

  • Biofysik
Originalspråkengelska
Sidor (från-till)339-350
TidskriftJournal of Biological Physics
Volym31
Utgivningsnummer3-4
StatusPublished - 2005 dec 1
PublikationskategoriForskning
Peer review utfördJa
Externt publiceradJa