Yes... The motherboard will fit into the Antec 1200 (Great case & motherboard selection
Outside of the form factor, as you mentioned, you need to look at expansion slots on the case and take into account your video card size & or SLI/Crossfire setup plans in the total picture of case/motherboard compatiblity.
I have all my case fans plugged into my molex connectors on my power supply. Also, I would look at getting an 8pin ATX extension so you can route the cable behind your motherboard.edit
: Note to myself... Remember to refresh page you left open for a while before posting to make sure the same answer hasn't already been given