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Volume 8   Issue 1   Year 2013
Hole Conductivity in Heterogeneous DNA Fragments

Ponomarev O.A., Shigaev A.S., Zhukov A.I., Lakhno V.D.

Institute of Mathematical Problems of Biology, Russian Academy of Sciences, 142290, Pushchino, Moscow Region, Russia
Moscow state university of design and technology, 115035, Moscow, Russia

Abstract. The characteristics of cation radical (hole) migration in heterogeneous DNA were investigated on the basis of Kubo formula, in which correlation functions were obtained from solutions of systems of Bogoliubov hierarchy. The cutting of Bogoliubov hierarchy was carried out by excepting correlations of the third and higher order. The obtained system of non-linear differential equations was investigated both analytically and numerically. The environment polarization, caused by interaction of holes with base pairs vibrations, was shown to play the key role in transport processes. The energy of the interaction can ten-fold exceed vibration energy. The transfer rate between adjacent DNA bases in one-dimensional case was shown to be almost independent of the nature and behavior of more distant pairs. The charge probability amplitude oscillates in the picosecond timescale. Nonetheless, the rates of hole transfer, obtained by averaging over these oscillations, turned out to be very close to the experimental data. The calculated dependence of the hole transfer rate between two guanine bases on the number of intervening adenine bases was also in good agreement with the experimental data. Besides, the temperature dependence of the transfer rate was investigated. Hopping mechanism was shown to make the main contribution to the hole transport process at 300 K.

Key words: DNA, charge transfer, hole, correlation functions, Bogoliubov hierarchy.

Table of Contents Original Article
Math. Biol. Bioinf.
doi: 10.17537/2013.8.135
published in Russian

Abstract (rus.)
Abstract (eng.)
Full text (rus., pdf)


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