The CM 690-II's claimed ability to support 2 x 240mm rads (one top, one bottom) is fibbing a bit. From personal experience, I know that to fit a 240mm rad in the bottom your PSU must be no longer than 160mm and the rad must be no longer than 280mm (and even then it's an extremely tight squeeze, rendering modularity in a PSU redundant as you have zero space to change cables). This rules out the use of top-end PSU's (a 1000w PSU is typically 200m+ in length) and since water coolers tend to want high-end, power hungry components (e.g. you're watercooling because you're overclocking) you would probably want a 1000w PSU - which you can't have in this case with a bottom mounted radiator.
So chances are you'll only be mounting a 240mm radiator in the roof. If that's the case, you might as well go for a full tower case like the HAF 932 (also Coolermaster) or the 800D Obsidian (Corsair) that would allow you to mount a 360mm rad in the roof. Thus you can have a 360mm rad (good enough for most loops) and still mount a long (and thus powerful) PSU in the bottom. Additionally, the 800D has a rather handy 120mm fan mount on the lower compartment wall, with which you can use a bracket to mount a pump. I find bay reservoirs that are independent of the pump are easier to work with. I always worry about the seal between bay res and the disassembled pump, ever since my XSPC+DDC combo fiasco (the pump melted).
So my recommendation is the Corsair 800D.