Dynamical model based on finite stacking enthalpies for homogeneous and inhomogeneous DNA thermal denaturation | Zendy

Marc Joyeux | Zendy; Sahin Buyukdagli | Zendy

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Dynamical model based on finite stacking enthalpies for homogeneous and inhomogeneous DNA thermal denaturation

Author(s) -

Marc Joyeux,

Sahin Buyukdagli

Publication year - 2005

Publication title -

physical review e

Language(s) - English

Resource type - Journals

eISSN - 1550-2376

pISSN - 1539-3755

DOI - 10.1103/physreve.72.051902

Subject(s) - stacking , homogeneous , molecular dynamics , thermodynamics , dna , denaturation (fissile materials) , thermal , nonlinear system , nucleic acid denaturation , materials science , chemistry , physics , computational chemistry , quantum mechanics , base sequence , organic chemistry , biochemistry , nuclear chemistry

We present a nonlinear dynamical model for DNA thermal denaturation, which isbased on the finite stacking enthalpies used in thermodynamicalnearest-neighbour calculations. Within this model, the finiteness of stackingenthalpies is shown to be responsible for the sharpness of calculated meltingcurves. Transfer-integral and molecular dynamics calculations are performed todemonstrate that the proposed model leads to good agreement with knownexperimental results for both homogeneous and inhomogeneous DNA

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