A host application can embed Python and Python applications. A host must provide a Python wrapper for its API to translate code from the host’s low-level (high-speed) language to the relatively user-friendly Python language. With a common foundation of Python, ePMV can translate logic, architecture, and command variations between the host and PMV. We have selected PMV to serve as a foundation that can store the molecular model state, manipulate the model, and plug in other Python model manipulators– hence the title, embedded PMV. Screen-captured video posted at http://epmv.scripps.edu/videos/structure2010 discusses this architecture, highlights the connection to the data and shows advantages of the system.