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Title: High-resolution structure of the Escherichia coli ribosome

Abstract

Protein synthesis by the ribosome is highly dependent on the ionic conditions in the cellular environment, but the roles of ribosome solvation remain poorly understood. Moreover, the function of modifications to ribosomal RNA and ribosomal proteins are unclear. Here we present the structure of the Escherichia coli 70S ribosome to 2.4 Å resolution. The structure reveals details of the ribosomal subunit interface that are conserved in all domains of life, and suggest how solvation contributes to ribosome integrity and function. The structure also suggests how the conformation of ribosomal protein uS12 likely impacts its contribution to messenger RNA decoding. In conclusion, this structure helps to explain the phylogenetic conservation of key elements of the ribosome, including posttranscriptional and posttranslational modifications and should serve as a basis for future antibiotic development.

Authors:
 [1];  [2];  [2];  [2];  [3];  [1]
  1. Univ. of California, Berkeley, CA (United States)
  2. Weill Cornell Medical College, New York, NY (United States)
  3. Weill Cornell Medical College, New York, NY (United States); Rockefeller Univ., New York, NY (United States)
Publication Date:
Research Org.:
Univ. of California, Berkeley, CA (United States)
Sponsoring Org.:
USDOE
OSTI Identifier:
1347117
Grant/Contract Number:  
AC02-05CH11231
Resource Type:
Journal Article: Accepted Manuscript
Journal Name:
Nature Structural & Molecular Biology
Additional Journal Information:
Journal Volume: 22; Journal Issue: 4; Journal ID: ISSN 1545-9993
Publisher:
Nature Publishing Group
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; drug recovery; evolution; single-molecule biophysics; X-ray crystallography

Citation Formats

Noeske, Jonas, Wasserman, Michael R., Terry, Daniel S., Altman, Roger B., Blanchard, Scott C., and Cate, Jamie H. D. High-resolution structure of the Escherichia coli ribosome. United States: N. p., 2015. Web. doi:10.1038/nsmb.2994.
Noeske, Jonas, Wasserman, Michael R., Terry, Daniel S., Altman, Roger B., Blanchard, Scott C., & Cate, Jamie H. D. High-resolution structure of the Escherichia coli ribosome. United States. https://doi.org/10.1038/nsmb.2994
Noeske, Jonas, Wasserman, Michael R., Terry, Daniel S., Altman, Roger B., Blanchard, Scott C., and Cate, Jamie H. D. 2015. "High-resolution structure of the Escherichia coli ribosome". United States. https://doi.org/10.1038/nsmb.2994. https://www.osti.gov/servlets/purl/1347117.
@article{osti_1347117,
title = {High-resolution structure of the Escherichia coli ribosome},
author = {Noeske, Jonas and Wasserman, Michael R. and Terry, Daniel S. and Altman, Roger B. and Blanchard, Scott C. and Cate, Jamie H. D.},
abstractNote = {Protein synthesis by the ribosome is highly dependent on the ionic conditions in the cellular environment, but the roles of ribosome solvation remain poorly understood. Moreover, the function of modifications to ribosomal RNA and ribosomal proteins are unclear. Here we present the structure of the Escherichia coli 70S ribosome to 2.4 Å resolution. The structure reveals details of the ribosomal subunit interface that are conserved in all domains of life, and suggest how solvation contributes to ribosome integrity and function. The structure also suggests how the conformation of ribosomal protein uS12 likely impacts its contribution to messenger RNA decoding. In conclusion, this structure helps to explain the phylogenetic conservation of key elements of the ribosome, including posttranscriptional and posttranslational modifications and should serve as a basis for future antibiotic development.},
doi = {10.1038/nsmb.2994},
url = {https://www.osti.gov/biblio/1347117}, journal = {Nature Structural & Molecular Biology},
issn = {1545-9993},
number = 4,
volume = 22,
place = {United States},
year = {Mon Mar 16 00:00:00 EDT 2015},
month = {Mon Mar 16 00:00:00 EDT 2015}
}

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Cited by: 159 works
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Expanding the Nucleotide Repertoire of the Ribosome with Post-Transcriptional Modifications
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Optimization of speed and accuracy of decoding in translation
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Oxygenase-catalyzed ribosome hydroxylation occurs in prokaryotes and humans
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Erratum: Aminoglycoside activity observed on single pre-translocation ribosome complexes
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Pseudouridylation of helix 69 of 23S rRNA is necessary for an effective translation termination
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Macrolide antibiotics allosterically predispose the ribosome for translation arrest
journal, June 2014


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journal, July 1979


Conformational flexibility in RNA: the role of dihydrouridine
journal, March 1996


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Effect of polyamines on translation fidelity in vivo
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Linking Crystallographic Model and Data Quality
journal, May 2012


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Resistance to Macrolide, Lincosamide, Streptogramin, Ketolide, and Oxazolidinone Antibiotics
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Works referencing / citing this record:

Mirror‐Image 5S Ribonucleoprotein Complexes
journal, January 2020


Mirror‐Image 5S Ribonucleoprotein Complexes
journal, January 2020


Defects in the Assembly of Ribosomes Selected for β-Amino Acid Incorporation
journal, October 2019


Ribosome-dependent activation of stringent control
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Mechanistic insights into the alternative translation termination by ArfA and RF2
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The signal recognition particle contacts uL23 and scans substrate translation inside the ribosomal tunnel
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A general mechanism of ribosome dimerization revealed by single-particle cryo-electron microscopy
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Dissecting ribosomal particles throughout the kingdoms of life using advanced hybrid mass spectrometry methods
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Structure of ribosome-bound azole-modified peptide phazolicin rationalizes its species-specific mode of bacterial translation inhibition
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Small is big in Arabidopsis mitochondrial ribosome
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Structure of the 70S ribosome from human pathogen Staphylococcus aureus
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Structures of the E. coli translating ribosome with SRP and its receptor and with the translocon
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A general mechanism of ribosome dimerization revealed by single-particle cryo-electron microscopy
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Dissecting ribosomal particles throughout the kingdoms of life using advanced hybrid mass spectrometry methods
journal, June 2018


Structure of ribosome-bound azole-modified peptide phazolicin rationalizes its species-specific mode of bacterial translation inhibition
journal, October 2019


Structural basis for selective stalling of human ribosome nascent chain complexes by a drug-like molecule
journal, June 2019


Comparative RNA function analysis reveals high functional similarity between distantly related bacterial 16 S rRNAs
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Structural basis of translation inhibition by cadazolid, a novel quinoxolidinone antibiotic
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Landscape of the complete RNA chemical modifications in the human 80S ribosome
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Molecular Mimicry of SecA and Signal Recognition Particle Binding to the Bacterial Ribosome
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