The issue is not how to set one up, but rather how to maintaiin the health of the critter without too much effort in time and money.
Deep "reef" is kind of oxymoron, since you can't really go under several hundred feet and still call it reef. Most fish do fine with minimal light, so I guess you can do what Inno suggested and have a bright area on one side, and dark on the others. You may have hard time to get the fish where you want it all the time.
For corals, as mentioned, most "deep" water species will need something in the order of MH, just higher Kelvin temperature. It is not moonlight intensity as you might thought. There are the non-photosynethic corals, but again, they are very difficult to keep due to special needs.