ChemDoodle Web Components library is able to render chemical structures in a web browser.
In the past chemical structures where being shown as static images. With ChemDoodle the molecules can be shown in 3D and can be interactive. Interactivity like moving, rotating, zooming, highlighting and animating are supported.
ChemDoodle is used in MAGMA in the eEmetabolomics project to show the structure of metabolites and their fragments.