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RNA folding at elementary step resolution

Published online by Cambridge University Press:  01 March 2000

CHRISTOPH FLAMM ,
WALTER FONTANA ,
IVO L. HOFACKER  and
PETER SCHUSTER
CHRISTOPH FLAMM
Affiliation:
Institut für Theoretische Chemie und Molekulare Strukturbiologie, Universität Wien, A-1090 Wien, Austria
WALTER FONTANA
Affiliation:
Santa Fe Institute, Santa Fe, New Mexico 87501 USA Present address: Institute for Advanced Study, Program in Theoretical Biology, 310 Olden Lane, Princeton, New Jersey 08540, USA.
IVO L. HOFACKER
Affiliation:
Institut für Theoretische Chemie und Molekulare Strukturbiologie, Universität Wien, A-1090 Wien, Austria
PETER SCHUSTER
Affiliation:
Institut für Theoretische Chemie und Molekulare Strukturbiologie, Universität Wien, A-1090 Wien, Austria
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Abstract

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.

Keywords

conformational spacesfoldabilityRNA folding kineticsRNA secondary structure
Type
Research Article
Information
RNA , Volume 6 , Issue 3 , March 2000 , pp. 325 - 338
Copyright
2000 RNA Society

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