Molecular Dynamics Simulations of the DNA-CNT Interaction Process: Hybrid Quantum Chemistry Potential and Classical Trajectory Approach

Mirzoaziz A. Khusenov, Ermuhammad B. Dushanov, Kholmirzo T. Kholmurodov

1Institute of Nuclear Physics, Tashkent, Uzbekistan 2Laboratory of Radiation Biology, JINR, Dubna, Moscow Region, Russia.
1Moscow State University of Technology “STANKIN”, Moscow, Russia 2Laboratory of Radiation Biology, JINR, Dubna, Moscow Region, Russia 3Dubna International University, Dubna, Moscow Region, Russia.
1Tajik Technical University Named after M.S. Osimi, Dushanbe, Tajikistan 2Moscow State University of Technology “STANKIN”, Moscow, Russia.

DOI: 10.4236/jmp.2014.54023                

Abstract

In this work the quantum chemistry Tersoff potential in combination with classical trajectory calculations was used to investigate the interaction of the DNA molecule with a carbon nanotube (CNT). The so-called hybrid approach—the classical and quantum-chemical modeling, where the force fields and interaction between particles are based on a definite (but not unique) description method, has been outlined in some detail. In such approach the molecules are described as a set of spheres and springs, thereby the spheres imitate classical particles and the spring the interaction force fields provided by quantum chemistry laws. The Tersoff potential in hybrid molecular dynamics (MD) simulations correctly describes the nature of covalent bonding. The aim of the present work was to estimate the dynamical and structural behavior of the DNA-CNT system at ambient temperature conditions. The dynamical configurations were built up for the DNA molecule interacting with the CNT. The analysis of generated МD configurations for the DNA-CNT complex was carried out. For the DNA-CNT system the observations reveal an encapsulation-like behavior of the DNA chain inside the CNT chain. The discussions were made on possible use of the DNA-CNT complex as a candidate material in drug delivery and related systems.

Keywords

Molecular Dynamics; Carbon Nanotube; DNA Molecule; Drug Delivery; DNA-CNT Interaction

Conflicts of Interest

The authors declare no conflicts of interest.

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