There’s no tutorial because there’s really no such thing as a ‘general j2ee project’ structure. Each environment is a bit different in how their handled. To find out about how ours work, the best place to start is with the Working with Web Projects quickstart in the Documentation section here: http://www.myeclipseide.com/images/tutorials/quickstarts/webprojects/. The same tutorial is included in the product at Help > Help Contents > MyEclipse Application Developer Guide. That might be the best place to check it out since the website is currently being hammered with downloads of the 4.0M2 release for 3.1.
Once you see how our web projects work it should be more obvious where things go.
where to keep images or doc directory in eclipse web project .inside webroot or outside web root
To this specific question, everything that gets deployed as part of your web application, except for Java, should go under the web root.