Dynamics of dissolved DNA polymers with counterions

Barry H. Dorfman; V. K. Saxena; Lonnie L. VanZandt

doi:10.1117/12.145255

1 May 1993 Dynamics of dissolved DNA polymers with counterions

Barry H. Dorfman, V. K. Saxena, Lonnie L. VanZandt

Proceedings Volume 1890, Biomolecular Spectroscopy III; (1993) https://doi.org/10.1117/12.145255
Event: OE/LASE'93: Optics, Electro-Optics, and Laser Applications in Scienceand Engineering, 1993, Los Angeles, CA, United States

Abstract

A model for the dynamics of DNA dissolved in aqueous medium containing counterions is discussed. The dynamic behavior of B conformation poly(dA)-poly(dT) homopolymer DNA with sodium counterions is presented for two possible counterion-DNA interactions: totally site bound counterions and totally area bound counterions. We present an analysis of the eigenvectors of the modes below 100 cm^-1 and show that the location and density of hydrogen bond breathing modes and propeller twist modes depend on the counterion-DNA interaction model. The prediction of a plasmon mode around 25 cm^-1 for the site bound interaction model is discussed. We present an algorithm for calculating the dynamics of DNA with structural defects using this model.

Citation Download Citation

Barry H. Dorfman, V. K. Saxena, and Lonnie L. VanZandt "Dynamics of dissolved DNA polymers with counterions", Proc. SPIE 1890, Biomolecular Spectroscopy III, (1 May 1993); https://doi.org/10.1117/12.145255

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