The supramolecular system based on viologen calix[4]resorcinol and sodium alginate in an aqueous medium was studied by a set of physicochemical methods. It was found that sodium alginate and viologen calix[4]resorcinol in the range of macrocycle : polymer concentration ratios from 1 : 2 to 1 : 10 form stable nanoparticles capable of encapsulating biologically active hydrophobic substances. In the presence of encapsulated substrates, the selectivity of the action of quercetin and oleic acid against M-HeLa tumor cells increases by 2.47 and 1.14 times, respectively.