  Along with recent progress in structural biology and genome biology,
structural dynamics of molecular systems including nucleic acids has attracted
attention in the context of gene regulation. Structure-function relationship is
an important topic, where physicochemical properties of nucleotides are
important as well as those of amino acids in proteins. Simulation is a useful
tool for the analysis of molecular dynamics in detail, complementary to
experiments. However, molecular simulation of nucleic acids has less developed
than that of proteins yet, partly due to the physical nature of nucleic acids.
In this review, we briefly describe the current situation and future directions
of the field, hopefully as a guide to collaboration between experiment and
computation.
