Domain walls in the Peyrard-Bishop model of DNA denaturation: the extreme discrete case

N. Theodorakopoulos

Theoretical & Physical Chemistry Institute,
National Hellenic Research Foundation,
Vasileos Constantinou 48, 11635 Athens, Greece

The equilibrium states of the discrete Peyrard-Bishop Hamiltonian with one end fixed are computed exactly from the two-dimensional nonlinear Morse map. These exact nonlinear structures are interpreted as domain walls (DW), interpolating between bound and unbound segments of the chain. The free energy of the DWs is calculated to leading order beyond the Gaussian approximation. Thermodynamic instabilities (e.g. DNA unzipping and/or thermal denaturation) can be understood in terms of DW formation.