Not at my linux box right now, so I'm not 100% certain... but try
nvidia-settings
(or nvidia-configure, or something like that

) that is if you're using an nvidia card, if not, I don't have a clue.
The setting you'd want to change is "sync to vblanc" for opengl, I'd say that this is by default off. I use sync to vblanc because I feel my aq2 performance in linux got lots better with it on.
Oh, and you need to set this every time you reboot (there was a switch that you can use to just load your settings and add that to your startup script... try nvidia-settings --help...)
Hope that makes some sense
