An axisymmetric protoplanetary disk model that takes into account the interaction of turbulent gas flows with the magnetic field is considered. A closed system of equations of homogeneous compressible magnetohydrodynamics in the regime of developed turbulence in the gravitational and magnetic fields of a star has been constructed. Apart from the traditional probability-theoretical averaging of the MHD equations, the weighted Favre averaging is used. The approach by A.V. Kolesnichenko and M.Ya. Marov to modeling the turbulent transport coefficients in a weakly ionized disk has been implemented. It allows the inverse effects of the generated magnetic field on a turbulent gas flow and the dissipation of turbulence through kinematic and magnetic viscosities to be taken into account. A parallel code for numerically solving the system of averaged MHD equations has been developed. The averaged gas density and velocity distributions as well as the configuration of the disk’s intrinsic magnetic field at a distance of 1 AU from the star have been obtained through numerical simulations. The assumption that the vertical (parallel to the disk’s rotation axis) magnetic induction component changes much more profoundly in height than in radius and, hence, gives grounds to take into account its gradient in the model of the turbulent kinematic viscosity coefficient has been confirmed.