Prediction and Coarse-Grained Modeling of RNA Structures

Abstract

The discovery of a large number of RNAs of complex three-dimensional (3D) structures, associated with numerous functions in the cell, has led to a major paradigm shift in biology. Computer simulation of the higher-order structure and dynamics of an RNA can provide great insights into the properties of the RNA and its functions in the cell. In recent years, steady progress has been made toward the RNA 3D structure prediction and modeling with an increasing number of advanced algorithms and models. Here, we describe recent advances in RNA structure prediction using coarse-grained approaches. We focus on the prediction strategies of different coarse-grained models according to their underlying physical or chemical principles. The strengths and the limitations of each model are discussed. We conclude by summarizing potential applications and the future directions of coarse-grained models for RNA structure prediction.