Figure 2.

Dynamics of ubiquitin at equilibrium investigated by contact maps. (A) The structure of a ubiquitin molecule in a cartoon representation and colored according to its secondary structure elements and numbers denoting the most important groups of contacts are shown. (B) 3D coordinates-based root mean-square fluctuations (RMSFs) of ubiquitin are shown. (C) The average contact map is shown, with circles highlighting the most important contacts. (D) A symmetric contact map showing the standard deviation of contact distances along the trajectory. To see this figure in color, go online.