3d-ish effects?

I’ve been looking at some flash sites, and I’ve seen a lot of “3d effects”, but not 3d as in shaded cubes and spheres, 3d as in lined boxes and rotating circles. Particularly what you see at 2advanced.com (I know, I’m just using it as an example). You see in their logo at the very beginning, the 3d rotation of the flat circle, and towards the intitiation the boxes get smaller, then rotate to form into the menus. I was just curious to what program could achieve 3d type effects like that, or how I would go about doing that.