There's a bit of a "Watchmen" vibe, or even "Kingdom Come" or "Dark Knight," insofar as the movie begins with a world in which superheroes were outlawed.
But the basic dynamic of the Incredibles is very much a "Fantastic Four" one, the way that we have a family of heroes that bicker while fighting crime.
There's even a scene at the end, as others have noted, that is a direct homage to key events in FF #1.
