If you are serious about spending some time to get a good app model for your web app, take a look at the combo of mason and MasonX::WebApp

Any way you look at it, mason is a winner for web sites and thanks to Ken and Dave, the O'Reilly Mason book is available online for free at masonbook.com

Using mason by itself will help you with the structuring you want to do quite nicely, but you will have to use it's templating.

Then if you want a nice OO-Application structure on top, MasonX::WebApp is the money.

Just my 2c.