Title
A frameshifting stimulatory stem loop destabilizes the hybrid state and impedes ribosomal translocation
Date Issued
15 April 2014
Access level
open access
Resource Type
journal article
Author(s)
Kima H.
Liua F.
Fei J.
Gonzalez R.
Tinoco I.
Columbia University
Publisher(s)
National Academy of Sciences
Abstract
Ribosomal frameshifting occurs when a ribosome slips a few nucleotides on an mRNA and generates a new sequence of amino acids. Programmed -1 ribosomal frameshifting (-1PRF) is used in various systems to express two or more proteins from a single mRNA at precisely regulated levels. We used single-molecule fluorescence resonance energy transfer (smFRET) to study the dynamics of -1PRF in the Escherichia coli dnaX gene. The frameshifting mRNA (FSmRNA) contained the frameshifting signals: a Shine- Dalgarno sequence, a slippery sequence, and a downstream stem loop. The dynamics of ribosomal complexes translating through the slippery sequence were characterized using smFRET between the Cy3-labeled L1 stalk of the large ribosomal subunit and a Cy5- labeled tRNALys in the ribosomal peptidyl-tRNA-binding (P) site. We observed significantly slower elongation factor G (EF-G)-catalyzed translocation through the slippery sequence of FSmRNA in comparison with an mRNA lacking the stem loop, ?SL. Furthermore, the P-site tRNA/L1 stalk of FSmRNA-programmed pretranslocation (PRE) ribosomal complexes exhibited multiple fluctuations between the classical/open and hybrid/closed states, respectively, in the presence of EF-G before translocation, in contrast with ?SL-programmed PRE complexes, which sampled the hybrid/closed state approximately once before undergoing translocation. Quantitative analysis showed that the stimulatory stem loop destabilizes the hybrid state and elevates the energy barriers corresponding to subsequent substeps of translocation. The shift of the FSmRNA-programmed PRE complex equilibrium toward the classical/open state and toward states that favor EF-G dissociation apparently allows the PRE complex to explore alternative translocation pathways such as -1PRF.
Start page
5538
End page
5543
Volume
111
Issue
15
Language
English
OCDE Knowledge area
Bioquímica, Biología molecular Biología celular, Microbiología
Scopus EID
2-s2.0-84898802217
PubMed ID
Source
Proceedings of the National Academy of Sciences of the United States of America
ISSN of the container
00278424
DOI of the container
10.1073/pnas.1403457111
Sponsor(s)
National Institute of General Medical Sciences
Sources of information: Directorio de Producción Científica Scopus