You should be able to replace just the top piece of wood on the control panel, if you want to.
Just copy the piece that's there exactly.
If that's too much work, you could plug the existing holes, and redrill your own.
As for hooking up the computer, the best way is a JPac and an ArcadeVGA.
The JPac handles all the inputs, and the ArcadeVGA handles the video.
There are other solutions, but that one is easy, and out of the box.
Both pieces are available at Ultimarc.com