Performance differences are minimal for servers, not counting the Raptor. Chipsets and drivers make a bigger difference than the drives. SATAs tend to do better bursts, hence a good showing in office benches, but the difference will be nothing for a server.
For IDE RAId...not WDs. Don't know if it's just the WD800JBs, but I'd stay away from Caviars RAID at the moment.
Seagate, Samsung, Hitachi should all be fine, and the Samsung and Hitachi can be set for performance/quiet, where the new Seagates are stuck from the factory.
If you're using GbE, go hardware RAID. 100Mb, software is fine.
Also, get double what you use right now for storage

. It doesn't take long for it to start filling up.