A method for solving the turbulence equations embedded in the sigma ocean general ocean circulation model is proposed. Like the general circulation model, the turbulence equations are solved using the splitting method by physical processes. The turbulence equations are split into two main stages describing transport-diffusion and generation-dissipation processes. Parameterization of turbulence in the framework of equations allows, at the generation-dissipation stage, to use both numerical and analytical solutions and to ensure high efficiency of the algorithm. The results of large-scale ocean dynamics simulation taking into account the parameterization of vertical turbulent exchange are considered. Numerical experiments were carried out using k-omega turbulence model embedded to the Institute of Numerical Mathematics Ocean general circulation Model (INMOM). Both the circulation and turbulence models are solved using the splitting method with respect to physical processes. The coupled model is used to simulate the hydrophysical fields of the North Atlantic and Arctic Oceans for 1948--2009. The model has a horizontal resolution of 0.25 degree and 40 sigma-levels along the vertical. The sensitivity of the solution to the changes in mixing parameterization is studied. Experiments demonstrate that taking into account the climatic annual mean buoyancy frequency improves the reproduction of large-scale ocean characteristics. There is a positive effect of Prandtl number variations for reproducing the upper mixed layer depth. The experiments also demonstrate the computational effectiveness of the proposed approach in solving the turbulence equations.