Hinge Stiffness Is a Barrier to RNA Folding

Jörg C. Schlatterer, Lisa W. Kwok, Jessica S. Lamb, Hye Yoon Park, Kurt Andresen, Michael D. Brenowitz, Lois Pollack

Research output: Contribution to journalArticle

40 Citations (Scopus)

Abstract

Cation-mediated RNA folding from extended to compact, biologically active conformations relies on a temporal balance of forces. The Mg2 +-mediated folding of the Tetrahymena thermophila ribozyme is characterized by rapid nonspecific collapse followed by tertiary-contact-induced compaction. This article focuses on an autonomously folding portion of the Tetrahymena ribozyme, its P4-P6 domain, in order to probe one facet of the rapid collapse: chain flexibility. The time evolution of P4-P6 folding was followed by global and local measures as a function of Mg2 + concentration. While all concentrations of Mg2 + studied are sufficient to screen the charge on the helices, the rates of compaction and tertiary contact formation diverge as the concentration of Mg2 + increases; collapse is greatly accelerated by Mg2 +, while tertiary contact formation is not. These studies highlight the importance of chain stiffness to RNA folding; at 10 mM Mg2 +, a stiff hinge limits the rate of P4-P6 folding. At higher magnesium concentrations, the rate-limiting step shifts from hinge bending to tertiary contact formation.

Original languageEnglish (US)
Pages (from-to)859-870
Number of pages12
JournalJournal of Molecular Biology
Volume379
Issue number4
DOIs
StatePublished - Jun 13 2008

Fingerprint

RNA Folding
Catalytic RNA
Tetrahymena thermophila
Tetrahymena
Magnesium
Cations

Keywords

  • compaction
  • persistence length
  • RNA folding
  • time-resolved hydroxyl radical footprinting
  • time-resolved small-angle X-ray scattering

ASJC Scopus subject areas

  • Virology

Cite this

Schlatterer, J. C., Kwok, L. W., Lamb, J. S., Park, H. Y., Andresen, K., Brenowitz, M. D., & Pollack, L. (2008). Hinge Stiffness Is a Barrier to RNA Folding. Journal of Molecular Biology, 379(4), 859-870. https://doi.org/10.1016/j.jmb.2008.04.013

Hinge Stiffness Is a Barrier to RNA Folding. / Schlatterer, Jörg C.; Kwok, Lisa W.; Lamb, Jessica S.; Park, Hye Yoon; Andresen, Kurt; Brenowitz, Michael D.; Pollack, Lois.

In: Journal of Molecular Biology, Vol. 379, No. 4, 13.06.2008, p. 859-870.

Research output: Contribution to journalArticle

Schlatterer, JC, Kwok, LW, Lamb, JS, Park, HY, Andresen, K, Brenowitz, MD & Pollack, L 2008, 'Hinge Stiffness Is a Barrier to RNA Folding', Journal of Molecular Biology, vol. 379, no. 4, pp. 859-870. https://doi.org/10.1016/j.jmb.2008.04.013
Schlatterer JC, Kwok LW, Lamb JS, Park HY, Andresen K, Brenowitz MD et al. Hinge Stiffness Is a Barrier to RNA Folding. Journal of Molecular Biology. 2008 Jun 13;379(4):859-870. https://doi.org/10.1016/j.jmb.2008.04.013
Schlatterer, Jörg C. ; Kwok, Lisa W. ; Lamb, Jessica S. ; Park, Hye Yoon ; Andresen, Kurt ; Brenowitz, Michael D. ; Pollack, Lois. / Hinge Stiffness Is a Barrier to RNA Folding. In: Journal of Molecular Biology. 2008 ; Vol. 379, No. 4. pp. 859-870.
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