In the presented study a comprehensive statistical analysis of the chemical composition of atmospheric particulate matter was carried out. The data were collected from April 2003 to August 2008 with a 7-day time resolution in the Northern Adriatic Port of Koper and analyzed by the Proton Induced X-ray method (PIXE). The Positive Matrix Factorization (PMF) analysis of fifteen chemical elements identified six source factors, three natural-regional sources and three local-anthropogenic sources. Heavy machinery, industry and iron ore factor were marked as anthropogenic sources. Heavy machinery source was represented by the elements V, Ni and Cu. The elements Fe and Mn are attributed to the Iron ore source and were explained by the proximity of the bulk-cargo warehouse and the intense handling of iron ore in Port of Koper. The heavy industry source represented by Pb and Zn was the only anthropogenic factor, which shows clear seasonal pattern. In contrast to the local-anthropogenic source factors, natural and regional source factors show significant negative trend. The reduction of the crustal elements Ca, Ti and Sr, joined in a soil source, and sulfur-biomass source, represented by elements K and S, have been attributed to more intense precipitation and to the negative trend of the North Atlantic Oscillation (NAO) index. The negative trend of the Cl and Br elements was in line with the negative trend of the wind speed above the sea surface and the significant sea-wave height. •Analysis of the elemental concentrations over the period of six years was performed.•PMF analysis identified three natural and three anthropogenic sources.•Only the natural sources show significant negative trends.•Lower NAO index correlates with lower soil and sulfur biomass concentrations.•The observed negative trend of the sea-salt is associated with the decreased wind speeds.