The TF:Prime DVD Boxset is literally the five (or is it six?) single release DVDs in one box. I'd imagine this would be the same (and have the four DVD cases, including Part 2.2 in one big box).
I liked that they merged 3+4 into a single case when they "remastered" it rather than spacing them out over three releases. (I bought it to save shelf space but I'm having trouble selling the original bulky 3.1, 3.2 and 4 release.)