Structures, kinetics, thermodynamics, and biological functions of RNA hairpins

Philip C. Bevilacqua, Joshua M. Blose

Research output: Chapter in Book/Report/Conference proceedingChapter

78 Citations (Scopus)

Abstract

Most RNA comprises one strand and therefore can fold back on itself to form complex structures. At the heart of these structures is the hairpin, which is composed of a stem having Watson-Crick base pairing and a loop wherein the backbone changes directionality. First, we review the structure of hairpins including diversity in the stem, loop, and closing base pair. The function of RNA hairpins in biology is discussed next, including roles for isolated hairpins, as well as hairpins in the context of complex tertiary structures. We describe die kinetics and thermodynamics of hairpin folding including models for hairpin folding, folding transition states, and the cooperativity of folding. Lastly, we discuss some ways in which hairpins can influence the folding and function of tertiary structures, both directly and indirectly. RNA hairpins provide a simple means of controlling gene expression that can be understood in the language of physical chemistry.

Original languageEnglish (US)
Title of host publicationAnnual Review of Physical Chemistry
EditorsStephen Leone, Jay Groves, Rustem Ismagilov, Geraldine Richmond
Pages79-103
Number of pages25
DOIs
StatePublished - May 26 2008

Publication series

NameAnnual Review of Physical Chemistry
Volume59
ISSN (Print)0066-426X

Fingerprint

folding
Thermodynamics
RNA
thermodynamics
Kinetics
kinetics
Physical chemistry
stems
Gene expression
physical chemistry
gene expression
closing
biology
strands

All Science Journal Classification (ASJC) codes

  • Physical and Theoretical Chemistry

Cite this

Bevilacqua, P. C., & Blose, J. M. (2008). Structures, kinetics, thermodynamics, and biological functions of RNA hairpins. In S. Leone, J. Groves, R. Ismagilov, & G. Richmond (Eds.), Annual Review of Physical Chemistry (pp. 79-103). (Annual Review of Physical Chemistry; Vol. 59). https://doi.org/10.1146/annurev.physchem.59.032607.093743
Bevilacqua, Philip C. ; Blose, Joshua M. / Structures, kinetics, thermodynamics, and biological functions of RNA hairpins. Annual Review of Physical Chemistry. editor / Stephen Leone ; Jay Groves ; Rustem Ismagilov ; Geraldine Richmond. 2008. pp. 79-103 (Annual Review of Physical Chemistry).
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Bevilacqua, PC & Blose, JM 2008, Structures, kinetics, thermodynamics, and biological functions of RNA hairpins. in S Leone, J Groves, R Ismagilov & G Richmond (eds), Annual Review of Physical Chemistry. Annual Review of Physical Chemistry, vol. 59, pp. 79-103. https://doi.org/10.1146/annurev.physchem.59.032607.093743

Structures, kinetics, thermodynamics, and biological functions of RNA hairpins. / Bevilacqua, Philip C.; Blose, Joshua M.

Annual Review of Physical Chemistry. ed. / Stephen Leone; Jay Groves; Rustem Ismagilov; Geraldine Richmond. 2008. p. 79-103 (Annual Review of Physical Chemistry; Vol. 59).

Research output: Chapter in Book/Report/Conference proceedingChapter

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Bevilacqua PC, Blose JM. Structures, kinetics, thermodynamics, and biological functions of RNA hairpins. In Leone S, Groves J, Ismagilov R, Richmond G, editors, Annual Review of Physical Chemistry. 2008. p. 79-103. (Annual Review of Physical Chemistry). https://doi.org/10.1146/annurev.physchem.59.032607.093743