This is a tough question to answer for a couple of reasons. First off: There are a lot of motherboards to choose from and there isn't really 1 out there that is absolutely the best. Intense graphics design requires some of the best hardware you can get and the motherboard is only 1 of many things to decide on. The Video Card, Processor and RAM are probably the most important things you will need to choose. The higher the frequency of the FSB (Front Side Bus) the less likely it will be a bottleneck for your graphics. If you are willing to pay a lot of money for a really nice system I could suggest some kind of dual processor board, a PNY video card, and a lot of fast RAM. A good recourse for motherboards is www.mbreview.com There you will be able to find some Excellent reviews on the latest motherboards. Some of my favorite brands are AOpen, Chaintech and MSI. They seem to be very reliable.
Asus, Gigabyte and Intel are three very good mb makers. If you're looking for extreme high-end, Gigabyte has a new MB with FOUR x16 slots, taking SLI to a new level.
If you are looking at using Vista, it's the video card(s) that need the attention, because available RAM is limited to less than 4MB, so the big factor is to get onboard (unshared) memory on your graphics card -- you don't want shared memory, which is going to subtract from RAM available to the CPU. With Win7, this is less of a problem.
If you like AMD, the Gigabyte GA-MA790GP-UD4H looks pretty good on the high end. It has 128mb of "side-port" memory that, as I understand it, is dedicated to graphics. I don't think it's a bit deal but it is a plus.
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