That's perfectly fine. It won't hinder performance enough to a degree that you'll really notice. the single card on it's own would utilize it's performance capabilities just as good as it would if it were under PCI-E 2.0
PCI-E 2.0 has a wider amount of bandwidth and would become more useful under SLI or Crossfire situations due to such extreme bandwidth sucking under those situations.
EDIT: in short PCI-E 2.0 is backwards compatible
Also, I took a good look at your specs and it looks like it'd be smooth sailing for you if you got it.
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