Acid drainage from coal mines and metal mining is a major source of underground and surface water contamination in the world. The coal mining acid drainage (CMAD) from mine contains large amount of solids in suspension and a high content of sulphate and dissolved metals (Al, Mn, Zn, Cu, Pb, Fe, etc.) that finally are deposited in the rivers. Since this problem can persist for centuries after mine abandonment, it is necessary to apply multidisciplinary methods to determine the potential risk in a determinate area. These multidisciplinary methods must include molecular and elemental analysis and finally all information must be studied statistically. This methodology was used in the case of coal mining acid drainage from the Tubarao River (Santa Catarina, Brazil). During molecular analysis, Raman Spectroscopy, electron bean, and X-ray diffraction (XRD) have been proven very useful for the study of minerals present in sediment rivers near this CMAD. The obtained spectra allow the precise identification of the minerals as jarosite, quartz, clays, etc. The elemental analysis (Al, As, Fe, K, Na, Ba, Mg, Mn, Ti, V, Zn, Ag, Co, Li, Mo, Ni, Se, Sn, W, B, Cr, Cu, Pb and Sr) was realised by inductively coupled plasma mass spectrometry (ICP-MS). Statistical analysis (Principal Component Analysis) of these dates of concentration reveals the existence of different groups of samples with specific pollution profiles in different areas of the Tubarao River. Display omitted ► Increasing coal drainage sediments geochemical information will increase human health information in this area. ► Brazilian coal mining information will increase recuperation planning information. ► The nanominerals showed strong sorption ability to aqueous hazardous elements.