Investigation of DNA denaturation in Peyrard-Bishop-Dauxois model by molecular dynamics method

Abstract

The phase transition of $(PolyA/PolyT{)}_{100}$ duplex into the denaturated state is studied in the Peyrard-Bishop-Dauxois model by the method of direct molecular-dynamical modeling. The temperature dependencies of the total energy and heat capacity of the duplex are calculated. The approach applied can be used to calculate the statistical properties of the duplexes of any length and nucleotide composition.

arXiv comment6 pages, 4 figures

References in corpus (6)

• Denaturation of Heterogeneous DNA
• Dynamical model based on finite stacking enthalpies for homogeneous and inhomogeneous DNA thermal denaturation
• The probability analysis of opening of DNA
• Feigenbaum Cascade of Discrete Breathers in a Model of DNA
• Path Integral Method for DNA Denaturation
• Simplified Langevin approach to the Peyrard-Bishop-Dauxois model of DNA

Cited by in corpus (5)

• Base pair fluctuations in helical models for nucleic acids
• First-passage probability: a test for DNA Hamiltonian parameters
• Sharp DNA denaturation in a helicoidal mesoscopic model
• On the thermodynamics of DNA in the Peyrard-Bishop-Dauxois model
• Statistical method for A-RNA and B-DNA