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

Philip C. Bevilacqua, Joshua M. Blose

Research output: Chapter in Book/Report/Conference proceedingChapter

89 Scopus citations


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
Number of pages25
StatePublished - May 26 2008

Publication series

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

All Science Journal Classification (ASJC) codes

  • Physical and Theoretical Chemistry


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