Fatal1ty 990FX Killer has pci-e 3.0, mby some other top boards.
Ofc 3.0(it's kinda feature, like 3.0usb works with 2.0 slots) card will work with pci-e 2.0. Performance difference is really low(mby 1-2%), atm gpus r not that powerful to take full advantage of pci-e 3.0. And if u go with amd u dont need high priced board either, coz if u want faster pc u go with intel + high overclock, not amd. So dont bother overpaying, just buy 2.0 board that fits your needs(crossfire for example) and be ok with it
P.s. also, i'd better go with gtx 760 instead, dunno about pricing in your country though. the only game that benefits from r9 is company of h 2. so if u dont play this game u'd better go with gtx 760. more stable drivers, more...