It isn’t possible to integrate ProAnimator layers and AE 3D layers without faking since they are in different 3D worlds. Most of the time you can fake AE layers moving around ProAnimator layers by splitting the AE layer and moving it in front/behind the ProAnimator object at various points in time. For more complex moves you may need to consider doing it all in a dedicated 3D app.
JD
John Dickinson
Motionworks
http://www.motionworks.com.au