Because I design a lot of passively cooled systems, and I work specifically with airflow, I would strongly suggest using air pressure to your advantage.
Negative air pressure in the Mac Pro/G5 cases is a wonderful thing, and works incredibly well.
Don't use any fans in the front, the exhaust fans in the back will pull a more than adequate amount of air through the computer to cool all of the components.
2x 92mm fans will do fine, 1x 120mm or even 1x 140mm would be even better though. Whatever suits your fancy really, but spare yourself, and don't mount fans in the front. Dust buildup will occur much faster with intake fans than relying on negative air pressure, even in the cleanest houses. Don't bother with air filters though, I work in a computer shop, and even the customers who build their own machines and "take really good care of them" don't clean them at all.
Also, please, don't put any fans on the bottom of the case. Utilize Front to Back airflow, and your temps will be perfectly acceptable. Do not worry about keeping the temps within 30C, modern hardware is capable of operating perfectly well beyond 70C for some time. The hard drives will stay very cool with even the slightest breeze, and the GPU will do fine with it's own cooler. Any tower based heat pipe cooler will keep the CPU very cool, and you wont have any problems.
More fans does not mean it will stay cooler or perform any better, so save yourself the trouble of cutting/drilling spots for them where they don't belong. Keep in mind that stock Macs use a front to back airflow pattern using push/pull fan setups to keep fan speeds down, but you're not running a dual socket board, so you aren't pushing the heat from one CPU through the heatsink of the next. If it ain't broke, don't fix it.
The hard drives can go anywhere in the front, but don't interrupt the airflow, you don't want a pocket of heat to form. Air will follow the path of least resistance, so the trick to keeping a computer cool is to control the path of airflow. If you want to ensure the computer will run cooler without changing much, create a duct, don't add another fan. It will do the trick quite well. Plastics lined with a foam on the inside will keep noise under control, increase the pressure of the airflow, and give you lower temps, and the temps will stay lower over time.
Finally, yes, heat rises, but remember that if you control airflow with ducting, as well as picking the right fans (smaller center hubs, higher static pressure, temperature controlled, etc), you wont have to worry about it.
Choose your components wisely, and it'll be a walk in the park. For example, if you want the ATI 6770 GPU, you should look into the MSI Twin Frozr model, as opposed to other reference models because it has a MUCH better stock cooler, and will run a lot cooler right off the bat. Additionally, if you wanted an i7 2600, but you aren't going to overclock, the i7 2600S is a lower wattage model with just as much power, resulting in cooler operation. 30nm Samsung RAM is also an important thing to keep in mind. And finally, no high wattage power supplies. Unless you're running quad-SLI, you really aren't going to need an ounce more than 550W, at best. A high quality 430W or 520W power supply will do much better than a cheap 750/800W power supply. Antec and some other brands are not ranking their power supplies on continuous output rather than peak output, so the Antec HCG-520W power supply peaks out close to 600W, if not more. Component choice will greatly affect the end result of your cooling needs.
So, from me to you, lots of experience later, front to back airflow, and high quality components will do much better than an overblown cooling system, and it'll last a lot longer.
If you need additional help, feel free to ask, I stop by many forums when I have the time.