The atmospheric part of the mercury cycle is considered as very complicated because of the various physicochemical processes involved. The temporal and spatial scales of various processes are varying according to mercury species. While Hg 0 is considered as long-range transport pollutant, Hg II is fast reacting and deposits quickly (wet and dry). Hg P has behaviour similar to the other particulate in the atmosphere. There is enough evidence now about the various disturbances in what are considered as background quantities. The most important reasons are (i) the increase of emissions from sources like coal burning, waste incinerators, cement production, mining etc, (ii) the lack of understanding of important physicochemical processes like fluxes, transport, transformation and deposition. Because of these verified disturbances, during the last years, a considerable effort has been devoted to reduce the mercury emissions. At the framework of the EU/DG-XII project MAMCS a significant effort has been devoted at the development of appropriate models for studying the mercury cycle in the atmosphere. The model development is performed within the atmospheric models RAMS and SKIRON/Eta. In this development we tried to transfer and utilize the modeling techniques applied in conventional air pollution modelling studies. In addition, we had to develop new methodologies for processes like re-emissions from soil and water bodies and gas to particle formation. The developed modeling systems have been applied in the Mediterranean Region where the multi-scale atmospheric processes (thermal and mechanical circulations at regional and mesoscale) are considered as important, according to a number of past air pollution studies. Seasonal-type of simulation has been performed and annual deposition patterns have been estimated. As it was found, the regional-scale pattern and the trade wind systems (from North to South) and the photochemistry are the key factors for controlling the mercury deposition, especially the Hg P .