Аннотация:Molecular dynamics of different molecules including peptides and molecular oxygen was studied. For ths aim two types of model membranes were used- hydrocarbon (n-tetradecane) and lipid (l-palmitoyl-2-oleyl-phosphatidylcholine). Calculation of membrane dynamics was carried out in NVT and NPT ensembles (at isotropic normal pressure and at anisotropic, taking into account surface tension). The used thermostat based on collisional dynamics (frequency of collisions 10 ps-1, mass of collisional particles 1 amu) and force-field proposed by Amber (Amber99) was applied. The following features of the membranes were considered: specific surface area and density of the media, diffusion parameters and parameters of lipid conformation. Also dynamics of molecules at water-membrane interface and in water was examined. Application of external linear field enabled the consideration of membrane penetration. This non-equilibrium approach allowed to find free energy profiles for different kinds of molecules. Structural (micro- and macroscopic) characteristics are found to be in a good agreement with experimental data. Some characteristics such as viscosity of media and diffusion coefficient of molecule in media were originally found. Dynamics of molecules at interface are determined by polarity, size and charge ratio. Free energy of transfer of charged molecules from water to membrane correlates with Born energy. Studies at different temperatures revealed that hydrophobic effect decreases with an increase of temperature.
