I think Professor Zoom/Reverse Flash works as Barry's arch-nemesis a little bit better, but that's not because of his powers. Its because of who Eobard is and the things that he has done. I mean, even before Flash Rebirth, this was the guy who murdered Barry's wife and then, after that, went after Barry's new fiancé and, in so doing, inspired Barry himself to kill. And not only that, but he also was at the center of the Return of Barry Allen arc, one of the best stories in the Flash canon, showing that he was also a meaningful villain for Wally, too.
Captain Cold is a big deal as a Flash villain, too, but to use an analogous situation as comparison, I'd say its like how Spider-Man's got both Green Goblin and Doctor Octopus, with Eobard being the former and Leonard being the latter.