Civil Engineering & Mechanics |
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On the stochastic dynamics of molecular conformation |
DENG Mao-lin, ZHU Wei-qiu |
Department of Mechanics, State Key Laboratory of Fluid Power Transmission and Control, Zhejiang University, Hangzhou 310027, China |
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Abstract An important functioning mechanism of biological macromolecules is the transition between different conformed states due to thermal fluctuation. In the present paper, a biological macromolecule is modeled as two strands with side chains facing each other, and its stochastic dynamics including the statistics of stationary motion and the statistics of conformational transition is studied by using the stochastic averaging method for quasi Hamiltonian systems. The theoretical results are confirmed with the results from Monte Carlo simulation.
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Received: 14 February 2007
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