MOTIVATION A growing body of research has concentrated on the identification and definition of conserved sequence motifs. It is widely recognized that these conserved sequence and structural units often mediate protein functions and interactions. The continuing advancements in high-throughput experiments necessitate the development of computational methods to critically assess the results. In t...

Understanding the dynamics behind domain architecture evolution is of great importance to unravel the functions of proteins. Complex architectures have been created throughout evolution by rearrangement and duplication events. An interesting question is how many times a particular architecture has been created, a form of convergent evolution or domain architecture reinvention. Previous studies ...

The FliM protein of Escherichia coli is required for the assembly and function of flagella. Genetic analyses and binding studies have shown that FliM interacts with several other flagellar proteins, including FliN, FliG, phosphorylated CheY, other copies of FliM, and possibly MotA and FliF. Here, we examine the effects of a set of linker insertions and partial deletions in FliM on its binding t...