What specifically are you having difficulty with? Almost all of the theme settings are under the "Shape 5 Theme" menu item in WP admin. The layout of the site is dynamically controlled by putting widgets in different positions, based on where you want them to appear. If you want the widgets to only be visible on specific pages, you can use Widget Context
to control where each widget is shown or hidden.
[Note: I am moving this topic to the correct board; please remember in the future to post theme/plugin specific questions to the board created specifically for the theme/plugin you are asking about.]