This is analogous to saying "an umbrella is better than a toaster". They are two different things.
And what's better, an umbrella or a toaster, depends on the one's goals: if one'd like to fry some bread, toaster is more useful; if one'd like to cover from rain, umbrella is far superior, although toaster could used be too; if one'd like to drive a nail into the wall, toaster again is better; etc.
So they are not that different: the specific structure of the Fourier basis allows for more efficient matrix * vector operation.