How To Configure Extension Which Has It's Own Modules?

For the experts:

How is it possible to configure the following:

1. An existing Yii application has app/protected/modules

2. existing modules in #1 are configured inside main.php and added to modules section of the config file.

3. Now I have custom changes which include multiple new modules.

4. How to segregate new code underneath app/protected/extensions/newCode

5. In order to place new modules inside app/protected/extensions/newCode/modules directory.

How to configure? is it even possible?