Contaminated sites pose a significant risk to human health and the regional environment. A comprehensive study was dedicated to improving the understanding of the contamination condition of a smelting site by integrating multi-source information through 3D visualization techniques. The results showed that 3D visualization reveals excellent potential for application in the environmental studies to finely depict contamination in soils and establish relationships with geological features, hydrological conditions, and sources of contamination. The contamination plume model revealed that the soil environment at the site was seriously threatened by toxic metals, and dominated by multi-metal contamination, with contamination soil volume ranked as Cd > As > Pb> Zn > Hg. The stratigraphic model revealed the heterogeneous geological conditions of the site and identified the mixed fill layer as the primary remediation soil layer. The permeability model revealed that soil permeability significantly influenced contamination dispersion and contributed to delineate the contamination boundary accurately. The ecological hazard model targeted the high ecological hazard area and determined the high hazard contribution of Cd and Hg in the site soil. The outcomes can be directly applied to actual site remediation and provide a reference for the contaminated sites evaluation and restoration in the future. Display omitted •Multi-source model establishes relationships between influences on site pollution.•3D visualization holds great potential for finely delineating soil pollution.•3D visualization of multi-metal composite pollution plumes was realized.