Hi Orfeof - you should not experience any deterioration in sound quality - the amps in the Pentas are still used. Whether or not the stereo is on or not when you use the to depends on how you set it up. If you want the Pentas connected to the Beomaster then yes, the stero will turn on when you activate the to and sound will come out of the Pentas. As suggested take a look at the masterlink manual as there are diagrams of various set up options and details of the option settings you need.
im confident the system will work the way you want if you get a 1611 converter - I have pretty much the same set up. Good luck!