Results on the study of spatio-temporal variations of the real nonstationary atmosphere are presented. Outcomes of numerical modeling of 3D spatial inhomogeneities of meteoparameters, some impurities, and their dynamics are considered. The analysis is made for the East-European region in view of real underlying surface inhomogeneities and unsteady weather conditions using the up-to-date model of atmospheric chemistry and impurities transfer WRF-CHEM. The comparison of the computed time series with experimental data has shown a good agreement. Local vertical and horizontal structures of the gained perturbations are studied, including the case of the concentration of atmospheric impurities.