Dna Research And Dynamic Characteristics Of Soliton Transmission In The Dna Computer Simulation,

DNA is the vehicle of genetic information, and has special space configurations to perform all kinds of biological functions. It acts as one kind of wonderful materials to be used as rigid molecule handles to manipulate other molecules due to its the excellent elasticity and complexity. The particular structure and wonderful properties of DNA will be potentially applied tremendously in biology, medicine, material science and so on. As the structure and properties of DNA are related to environment, the base-stacking and hydrogen-bond interactions change as one variable of the environment conditions.In order to clarify some properties of DNA, we calculated the elasticity coefficient of DNA and the moments of inertia of bases and simulated the process how a soliton transfers along the double strand DNA. The results show as followings:Firstly, based on the experimental data of Optical Tweezers, which are concerned with the force extension curves of DNA at various pulls, we considered approximately the force extension changes of B-type DNA were linear and the elastic coefficients between different DNA base pairs were the same. By using the Hook's Law of physics, the elastic coefficient of the B-type DNA was computed. Our calculation indicated that the elastic coefficient of B-type DNA is about 1.47N/m, which supports a practical parameter while analyzing the dynamic properties of DNA.Secondly, a datum file whose ID is 1LAS was downloaded from the Protein Data Bank. Four kinds of bases of DNA were chosen to find out their spatial coordinates, and then the distances from every atom to the axis of rotation was calculated via the mathematical formula that can compute the distance from one point to a line. By using the physical formula that can take the moment of inertia of a matter, we got the moments of inertia of four bases of DNA turning around their axes that are their bond between their bases and the strand. The results demonstrated that the moment of inertia of Cytosine was about 1.1×10^-44kg*m²; Guanine, 9.8×10^-44kg*m²; Adenine, 6.1×10^-44kg*m² and Thymine, 3.0×10(-44)kg*m². These results may help to exposit the predilection of DNA bases and the flexibility of DNA strands. Thirdly, by changing parameters, i.e. interactive coefficients, elastic coefficients and characteristic frequencies we simulated one of the nonlinear solitary model of DNA via Runge Kutta method to obtain some direct descriptions of the transportation of soliton in DNA double strands. Finally, the speed of soliton in DNA was estimated, 250m/s, which offers a theoretical parameter for researchers to detect the soliton in DNA by experimental methods.