A kinetic approach to the prediction of RNA secondary structures.
A new approach to the prediction of secondary RNA structures based on the analysis of the kinetics of molecular self-organisation is proposed herein. The Markov process is used to describe structural reconstructions during secondary structure formation. This process is modelled by a Monte-Carlo method. Examples of the calculation by this method of the secondary structures kinetic ensemble are given. Distribution of time-dependent probabilities within the ensembles is obtained. An effective method for search for the equilibrium ensemble is also suggested. This method is based on the construction of a tree of all possible secondary structures of RNA. By ascribing a probability for each structure (according to its free energy) the Boltzmann equilibrium ensemble can be obtained.
Mironov
A A
AA
All-Union Institute of Genetics Selection of Industrial Microorganisms, Moscow, USSR.
Dyakonova
L P
LP
Kister
A E
AE
D003201:Computers; D007700:Kinetics; D009690:Nucleic Acid Conformation; D011336:Probability; D012313:RNA; D013816:Thermodynamics
D012313:RNA