Almost any current motherboard will run Centos 5.3
I've had better luck with Asus motherboards than other brands, but other people will probably give you opposite opinions.
Pay attention to how many memory slots it has and what kind and max memory supported.
For a server, you probably don't want gaming quality graphics and you don't want to pay extra, take up a backplane slot and draw extra currect for a graphics card, so you probably want a motherboard with built in graphics.
For comparison purposes, I did a quick check on Newegg for a moderately priced AMD CPU motherboard with better than average memory flexibility and built in graphics. That led to this one
Note I don't have that motherboard (my motherboards are slightly older designs) so I can't say for certain that it will work well, but most motherboards will work well.