ABSTRACT
This chapter is about coarse-graining of pathways and trajectories of proteins in action. In particular we focus on protein switches that ip between different structures; ips that modify their activity. These switches offer another layer of control and are of considerable interest in current elds of study such as systems biology [Alon 2006]. It is the collective behavior and interactions of many protein molecules that is the topic of biological networks, and such switches are essential components of the functional mechanisms represented by the networks.
