Unzipping of DNA with correlated base sequence

Phys Rev E Stat Nonlin Soft Matter Phys. 2004 Jun;69(6 Pt 1):061908. doi: 10.1103/PhysRevE.69.061908. Epub 2004 Jun 4.

Abstract

We consider force-induced unzipping transition for a heterogeneous DNA model with a correlated base sequence. Both finite-range and long-range correlated situations are considered. It is shown that finite-range correlations increase stability of DNA with respect to the external unzipping force. Due to long-range correlations the number of unzipped base pairs displays two widely different scenarios depending on the details of the base sequence: either there is no unzipping phase transition at all, or the transition is realized via a sequence of jumps with magnitude comparable to the size of the system. Both scenarios are different from the behavior of the average number of unzipped base pairs (non-self-averaging). The results can be relevant for explaining the biological purpose of correlated structures in DNA.

Publication types

  • Evaluation Study
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Base Pairing*
  • Base Sequence
  • Computer Simulation
  • DNA / chemistry*
  • Elasticity
  • Leucine Zippers
  • Models, Chemical*
  • Models, Molecular*
  • Models, Statistical
  • Molecular Sequence Data
  • Nucleic Acid Conformation
  • Nucleotides / chemistry*
  • Sequence Analysis, DNA / methods*
  • Statistics as Topic
  • Stochastic Processes
  • Stress, Mechanical

Substances

  • Nucleotides
  • DNA