Physics – Condensed Matter – Soft Condensed Matter
Scientific paper
2011-06-21
Eur. Phys. J. E vol. 34 p.68 (2011)
Physics
Condensed Matter
Soft Condensed Matter
European Physical Journal E (2011) in press
Scientific paper
10.1140/epje/i2011-11068-9
A mesoscopic model for heterogeneous DNA denaturation is developed in the framework of the path integral formalism. The base pair stretchings are treated as one-dimensional, time dependent paths contributing to the partition function. The size of the paths ensemble, which measures the degree of cooperativity of the system, is computed versus temperature consistently with the model potential physical requirements. It is shown that the ensemble size strongly varies with the molecule backbone stiffness providing a quantitative relation between stacking and features of the melting transition. The latter is an overall smooth crossover which begins from the \emph{adenine-thymine} rich portions of the fragment. The harmonic stacking coupling shifts, along the $T$-axis, the occurrence of the multistep denaturation but it does not change the character of the crossover. The methods to compute the fractions of open base pairs versus temperature are discussed: by averaging the base pair displacements over the path ensemble we find that such fractions signal the multisteps of the transition in good agreement with the indications provided by the specific heat plots.
No associations
LandOfFree
Stacking Interactions in Denaturation of DNA Fragments does not yet have a rating. At this time, there are no reviews or comments for this scientific paper.
If you have personal experience with Stacking Interactions in Denaturation of DNA Fragments, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Stacking Interactions in Denaturation of DNA Fragments will most certainly appreciate the feedback.
Profile ID: LFWR-SCP-O-178647