Excluded Volume Effect in Unzipping DNA with a Force

Details Excluded Volume Effect in Unzipping DNA with a Force Excluded Volume Effect in Unzipping DNA with a Force

2004-02-05

arxiv.org/abs/cond-mat/0402176v1

Biopolymers, vol. 73, Issue 3, pages 293-300 (2004)

Physics

Condensed Matter

Soft Condensed Matter

4 figures

Scientific paper

A double stranded DNA molecule when pulled with a force acting on one end of the molecule can become either partially or completely unzipped depending on the magnitude of the force F. For a random DNA sequence, the number M of unzipped base pairs goes as M~(F-Fc)^(-2) and diverges at the critical force Fc with an exponent \chi=2. We find that when excluded volume effect is taken into account for the unzipped part of the DNA, the exponent \chi=2 is not changed but the critical force Fc is changed. The force versus temperature phase diagram depends on only two parameters in the model, the persistence length and the denaturation temperature. Furthermore a scaling form of the phase diagram can be found. This scaling form is parameter independent and depends only on the spatial dimension. It applies to all DNA molecules and should provide a useful framework for comparison with experiments.

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