Abstract
In the present work, we study the effect of translational-rotational hydrodynamic coupling on the stationary electric linear dichroism of DNA fragments. The theoretical resolution of the problem has, so far, been dealt with analytic methods valid only in the limit of low electric fields. In this work, we apply numerical methods that allow us to study the problem and also consider electric fields of arbitrary strength. We use the bent rod molecules model to describe DNA fragments with physical properties characterized by their electric charge, electric polarizability tensor, rotational diffusion tensor, and translation-rotation coupling diffusion tensor. The necessary orientational distribution function to calculate electric dichroism is obtained by solving the Fokker-Planck equation through the finite difference method. We analyze the different contributions due to electric polarizability and translational-rotational coupling to the electric dichroism.
Highlights
Physical properties of macromolecules in solution can be studied through electro-optical techniques
We study the coupling influence between translational and rotational diffusion on the stationary electric dichroism of bent rod DNA fragments orientated by external electric field with arbitrary strength
The results clearly show that the contributions to RELD originated in the orientation due to electric polarizability and hydrodynamic coupling are not additive
Summary
Physical properties of macromolecules in solution can be studied through electro-optical techniques In these procedures, an external electric field is applied on the solution to orient the molecules and induce on it an optical anisotropy. Stationary electric birefringence and dichroism for bent rod DNA fragments have been theoretically studied by Bertolotto and co-workers[6–10] in the limit of low electric field strengths. They have found that translational–rotational hydrodynamic coupling produces a positive contribution in the electro-optical effects. We study the coupling influence between translational and rotational diffusion on the stationary electric dichroism of bent rod DNA fragments orientated by external electric field with arbitrary strength. The optical properties are represented by the transition moment of each BRM chromophore group
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