Various kinetic studies on nucleotide incorporation by DNA polymerases have established that a rate-limiting step occurs that is crucial in the mechanism of discrimination between correct versus incorrect nucleotide. Crystallographic studies have indicated that this step may be due to a large open-to-closed conformational transition affecting the fingers subdomain. However, there is no direct e...

We apply the dressing method to a string solution given by a static string wrapped around the equator of a three-sphere and find that the result is the single spike solution recently discussed in the literature. Further application of the method allows the construction of solutions with multiple spikes. In particular we construct the solution describing the scattering of two single spikes and c...

A fundamental question in RNA folding is the nature of the rate-limiting step. Folding of large RNAs often is trapped by the need to undo misfolded structures, which precludes the study of the other, potentially more interesting aspects in the rate-limiting step, such as conformational search, metal ion binding, and the role of productive intermediates. The catalytic domain of the Bacillus subt...