RNA folding at elementary step resolution.
We study the stochastic folding kinetics of RNA sequences into secondary structures with a new algorithm based on the formation, dissociation, and the shifting of individual base pairs. We discuss folding mechanisms and the correlation between the barrier structure of the conformational landscape and the folding kinetics for a number of examples based on artificial and natural sequences, including the influence of base modification in tRNAs.
Flamm
C
C
Institut für Theoretische Chemie und Molekulare Strukturbiologie, Universität Wien, Austria. xtof@tbi.univie.ac.at
Fontana
W
W
Hofacker
I L
IL
Schuster
P
P
D000465:Algorithms; D001483:Base Sequence; D004735:Energy Transfer; D007700:Kinetics; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D012313:RNA / Q000737:chemistry* / Q000378:metabolism*; D012360:RNA, Transfer, Phe / Q000737:chemistry / Q000378:metabolism; D013816:Thermodynamics
D012360:RNA, Transfer, Phe; D012313:RNA