Thermal Stability of RNA Hairpins Containing a Four-Membered Loop and a Bulge Nucleotide

Duncan R. Groebe, Olke C. Uhlenbeck*

*Corresponding author for this work

Research output: Contribution to journalArticle

43 Scopus citations

Abstract

Fourteen RNA hairpins containing a four-membered loop and a bulge nucleotide were synthesized and their thermal stabilities determined. The combined contribution of a four-membered loop and bulge A to the free energy of a hairpin is calculated to be 9.3 kcal/mol at 37 °C and successfully predicts the stability of an independent RNA hairpin. The introduction of a bulge nucleotide to the helical stem of an RNA hairpin destabilizes the molecule in a sequence-dependent manner. The individual thermodynamic contributions of a four-membered loop and bulge A, G, and U residues to the stability of an RNA hairpin loop are presented.

Original languageEnglish (US)
Pages (from-to)742-747
Number of pages6
JournalBiochemistry
Volume28
Issue number2
DOIs
StatePublished - 1989

ASJC Scopus subject areas

  • Biochemistry

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