With the Onkyo, yes. You can use a crossover built into a powered sub, but you can't really high pass the mains. With the HK, you can if you have an external crossover. It has both sub outs and pre-out/main-ins, so you can a) add a sub(s) and just run the mains full range or b) use an external crossover between pre-out and main-in to send the lows to the sub(s) and highs to the mains.
It looks like the 3390 drops a few pounds, 40 watts/channel and the digital and iPod inputs. It's $80 cheaper, so if those things aren't important then you can save a bit. They both look very impressive and I don't think you'd be disappointed with either.