If your timings stay the same, it will make a difference!! If you have to loosen your timings to much, it will not make much of a different... Example
DDR3 1333 at 6-6-6-24-2 vs DDR3 2000 at 6-6-6-24-2 - DDR3 2000 all the way!
DDR3 1333 at 6-6-6-24-2 vs DDR3 2000 at 9-9-9-24-2 - Pretty Equal