I would think that you don't upload any GWT js to your google site.  You'll 
need to have your GWT app hosted on a webserver somewhere, possibly the 
GAE.  Then add a script element in the site HTML referencing the hosted 
location of the js file.  You'll have to make sure that your EntryPoint 
class doesn't add to RootLayoutPanel, rather uses RootPanel and wraps a 
particular div.  

EntryPoint snippet...
...
RootPanel.get("myApplicationDiv").add(myApplicationPanel);
...

Somewhere in your site HTML, you must have <div id="myApplicationDiv"></div>

Make sure to do some research on cross site scripting.  
http://code.google.com/webtoolkit/doc/latest/tutorial/Xsite.html

Good luck!



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