Determination of the angle between the anticodon and aminoacyl acceptor stems of yeast phenylalanyl tRNA in solution

Proc Natl Acad Sci U S A. 1995 May 23;92(11):4803-7. doi: 10.1073/pnas.92.11.4803.

Abstract

A principal feature of the crystal structures of tRNAs is an L-shaped tertiary conformation in which the aminoacyl acceptor stem and the anticodon stem are approximately perpendicular. However, the anticodon-acceptor interstem angle has not been precisely quantified in solution for any tRNA. Such a determination would represent an important test of the predicted global conformation of tRNAs in solution. To this end, we have constructed a yeast tRNA(Phe) heteroduplex RNA molecule in which the anticodon and acceptor stems of the tRNA have each been extended by approximately 70 base pairs. A comparison of the rotational decay times of the heteroduplex molecule and a linear control yields an interstem angle of 89 +/- 4 degrees in 4 mM magnesium chloride/100 microM spermine hydrochloride, essentially identical to the corresponding angle observed in the crystal under similar buffer and temperature conditions. The current approach is applicable to the study of a wide variety of RNA molecules that possess elements of nonhelical structure.

Publication types

  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Anticodon / chemistry*
  • Anticodon / metabolism
  • Base Sequence
  • Kinetics
  • Magnesium Chloride / pharmacology
  • Models, Molecular
  • Molecular Sequence Data
  • Nucleic Acid Conformation*
  • Nucleic Acid Heteroduplexes / chemistry
  • Nucleic Acid Heteroduplexes / metabolism
  • Plasmids
  • RNA, Fungal / chemistry
  • RNA, Fungal / metabolism
  • RNA, Transfer, Phe / chemistry*
  • RNA, Transfer, Phe / metabolism
  • Saccharomyces cerevisiae / genetics
  • Saccharomyces cerevisiae / metabolism*
  • Time Factors

Substances

  • Anticodon
  • Nucleic Acid Heteroduplexes
  • RNA, Fungal
  • RNA, Transfer, Phe
  • Magnesium Chloride