The molecules can be rotated by holding down the left mouse button while moving the mouse. The right mouse button can be used to move the view.
Zooming can be done with the scroll-wheel or by holding down both left and right buttons while moving the mouse up-down.
All molecules in the Molecule Project are sorted in categories in the Project Tree. The individual molecules or whole categories can be hidden from the view by un-cheking the boxes next to them.
To bring a particular molecule or category of molecules in focus, select the molecule or category of interest in the Project Tree view and click the zoom-to-fit button () at the bottom of the Project Tree view.