Summary

I designed this LED-Cube long time ago, but I finally had time to build it. Its controlled by an ATMega32 and based on this: http://www.instructables.com/id/LED-Cube-4x4x4/?ALLSTEPS

Instructions

Cut the parts from 3mm clear acrylic.
Glue them together. Be careful with the cover, the pin of the sideplates isn't in the middle, so use pcb enclosure top part to make sure you're glueing it together the right way.
Make the PCB (everything you'll need is in the pdf-files) and the LED-cube.
Use some superglue to mount the 2 switches in the front plate. If you want a exchangeable cube, you'll need to glue single female headers into every hole of the pcb enclosure top part.
Wire everything up.
Mount the pcb with 5mm spacers and M3 screws.
Program the cube.
?
Profit!