The structure–activity relationships of the natural flavonoids quercetin, chrysin and silibinin have revealed that they meet the key structural requirements for killing tumor cells. When the structures of these three flavonoids are modified by complexation using the oxovanadium(IV) cation their cytotoxic properties in human breast cancer cell lines are enhanced. Breast epithelial cells are used to determine the selectivity of these compounds. The mechanisms of action of the flavonoids and the oxovanadium(IV) cation in the MDA-MB231 cell line seem to be different to the apoptotic mechanisms of cell death exerted by the oxovanadium(IV) complexes. These results showed the mechanisms of the antitumoral effect of these complexes, making them promising compounds for cancer treatment.