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Structural model of an mRNA in complex with the bacterial chaperone Hfq

Journal Article · · Proceedings of the National Academy of Sciences of the United States of America
 [1];  [2];  [3];  [4]
  1. Johns Hopkins Univ., Baltimore, MD (United States). Cell, Molecular and Developmental Biology and Biophysics Program
  2. National Inst. of Standards and Technology (NIST), Gaithersburg, MD (United States). Center for Neutron Research
  3. National Inst. of Health, Frederick, MD (United States). National Cancer Inst. Center for Cancer Research. Structural Biophysics Lab.
  4. Johns Hopkins Univ., Baltimore, MD (United States). T. C. Jenkins Dept. of Biophysics
+ Show Author Affiliations
The Sm-like protein Hfq (host factor Q-beta phage) facilitates regulation by bacterial small noncoding RNAs (sRNAs) in response to stress and other environmental signals. In this paper, we present a low-resolution model of Escherichia coli Hfq bound to the rpoS mRNA, a bacterial stress response gene that is targeted by three different sRNAs. Selective 2'-hydroxyl acylation and primer extension, small-angle X-ray scattering, and Monte Carlo molecular dynamics simulations show that the distal face and lateral rim of Hfq interact with three sites in the rpoS leader, folding the RNA into a compact tertiary structure. These interactions are needed for sRNA regulation of rpoS translation and position the sRNA target adjacent to an sRNA binding region on the proximal face of Hfq. Finally, our results show how Hfq specifically distorts the structure of the rpoS mRNA to enable sRNA base pairing and translational control.
Research Organization:
Johns Hopkins Univ., Baltimore, MD (United States)
Sponsoring Organization:
Engineering and Physical Sciences Research Council (EPSRC) (United Kingdom); National Inst. of Health (NIH) (United States); National Science Foundation (NSF) (United States); USDOE
Contributing Organization:
National Inst. of Health, Frederick, MD (United States); National Inst. of Standards and Technology (NIST), Gaithersburg, MD (United States)
Grant/Contract Number:
AC02-06CH11357
OSTI ID:
1168867
Journal Information:
Proceedings of the National Academy of Sciences of the United States of America, Journal Name: Proceedings of the National Academy of Sciences of the United States of America Journal Issue: 48 Vol. 111; ISSN 0027-8424
Publisher:
National Academy of Sciences, Washington, DC (United States)Copyright Statement
Country of Publication:
United States
Language:
ENGLISH

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Cited By (21)

Nucleoid and cytoplasmic localization of small RNAs inEscherichia coli journal January 2017
The important conformational plasticity of DsrA sRNA for adapting multiple target regulation journal June 2017
Stability of local secondary structure determines selectivity of viral RNA chaperones journal May 2018
Hfq Globally Binds and Destabilizes sRNAs and mRNAs in Yersinia pestis journal July 2019
Genome-wide analyses of small non-coding RNAs in streptococci journal May 2015
Recognition of the small regulatory RNA RydC by the bacterial Hfq protein journal December 2014
Hfq chaperone brings speed dating to bacterial sRNA journal April 2018
RNA-based recognition and targeting: sowing the seeds of specificity journal February 2017
RNA-binding proteins in bacteria journal July 2018
Characterization of RNA-binding properties of the archaeal Hfq-like protein from Methanococcus jannaschii journal July 2016
The small RNA, SdsR, acts as a novel type of toxin in Escherichia coli journal October 2018
Target activation by regulatory RNAs in bacteria journal May 2015
An RNA-dependent mechanism for transient expression of bacterial translocation filaments journal February 2018
A metastable rRNA junction essential for bacterial 30S biogenesis journal February 2018
Dynamic interactions between the RNA chaperone Hfq, small regulatory RNAs and mRNAs in live bacterial cells journal January 2020
Stability of local secondary structure determines selectivity of viral RNA chaperones journal May 2018
Mechanism to control the cell lysis and the cell survival strategy in stationary phase under heat stress journal October 2015
Conformation and mechanical property of rpoS mRNA inhibitory stem studied by optical tweezers and X-ray scattering journal September 2019
Hfq‐dependent mRNA unfolding promotes sRNA ‐based inhibition of translation journal February 2019
Characterization of RNA-binding properties of the archaeal Hfq-like protein from Methanococcus jannaschii text January 2016
Characterization of RNA-binding properties of the archaeal Hfq-like protein from Methanococcus jannaschii text January 2016

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Related Subjects

59 BASIC BIOLOGICAL SCIENCES
Lsm protein
RNA–protein interactions
SAXS
bacterial posttranscriptional control
small noncoding RNA