Evidence map›Paper›PMID 35346688›Full record

ArticleThe Journal of biological chemistry2022

Protein folding stabilities are a major determinant of oxidation rates for buried methionine residues.

Ethan J Walker, John Q Bettinger, Kevin A Welle, Jennifer R Hryhorenko, Adrian M Molina Vargas, Mitchell R O'Connell, Sina Ghaemmaghami

Open access · goldAbstract read
In one paragraph

Article in The Journal of biological chemistry, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.

0numbers the graph read from it
0cells of the map it votes in
18citing papers in PubMed
2.4field-weighted citation impact, top 11% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

18 citing papers in PubMed, 35 citations in OpenAlex.

  1. Article
  2. Article
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  4. Photooxidative molecular damage under blue light.Experimental & molecular medicine · 2026
    Review
  5. Article
  6. Review
  7. Article
  8. Article
  9. Article
  10. Formylation facilitates the reduction of oxidized initiator methionines.Proceedings of the National Academy of Sciences of the United States of America · 2024
    Article
  11. Review
  12. Article
  13. Folding stabilities of ribosome-bound nascent polypeptides probed by mass spectrometry.Proceedings of the National Academy of Sciences of the United States of America · 2023
    Article
  14. Review
  15. Article
  16. CJournal of proteome research · 2023
    Article
  17. Review
  18. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

7 authors at 1 institution in 1 country.

Ethan J WalkerDepartment of Biology, University of Rochester, New York, USA; Department of Biochemistry and Biophysics, School of Medicine and Dentistry, University of Rochester, New York, USA.
John Q BettingerDepartment of Biology, University of Rochester, New York, USA.
Kevin A WelleUniversity of Rochester Mass Spectrometry Resource Laboratory, University of Rochester, New York, USA.
Jennifer R HryhorenkoUniversity of Rochester Mass Spectrometry Resource Laboratory, University of Rochester, New York, USA.
Adrian M Molina VargasDepartment of Biomedical Genetics, School of Medicine and Dentistry, University of Rochester, New York, USA; Center for RNA Biology, University of Rochester, New York, USA.
Mitchell R O'ConnellDepartment of Biochemistry and Biophysics, School of Medicine and Dentistry, University of Rochester, New York, USA; Center for RNA Biology, University of Rochester, New York, USA.
Sina GhaemmaghamiDepartment of Biology, University of Rochester, New York, USA; University of Rochester Mass Spectrometry Resource Laboratory, University of Rochester, New York, USA. Electronic address: sina.ghaemmaghami@rochester.edu.
University of Rochester · US

Funding

The prevalence and mechanism of selectivity in basal autophagyR35GM119502 · NIGMS · UNIVERSITY OF ROCHESTER · PI SINA GHAEMMAGHAMI · 2016 to 2026
$5.9M
Programmable RNA-targeting CRISPR-Cas tools to study RNA biologyR35GM133462 · NIGMS · UNIVERSITY OF ROCHESTER · PI Mitchell O'Connell · 2019 to 2026
$3.6M
Orbitrap Fusion Lumos Mass Spectrometer for UR Proteomics ResearchS10OD025242 · OD · UNIVERSITY OF ROCHESTER · PI GHAEMMAGHAMI, SINA · 2018 to 2018
$1.1M
NIGMS NIH HHS R35 GM119502NIGMS NIH HHS R35 GM133462NIH HHS S10 OD025242
6 · The paper itself

Abstract

The oxidation of protein-bound methionines to form methionine sulfoxides has a broad range of biological ramifications, making it important to delineate factors that influence methionine oxidation rates within a given protein. This is especially important for biopharmaceuticals, where oxidation can lead to deactivation and degradation. Previously, neighboring residue effects and solvent accessibility have been shown to impact the susceptibility of methionine residues to oxidation. In this study, we provide proteome-wide evidence that oxidation rates of buried methionine residues are also strongly influenced by the thermodynamic folding stability of proteins. We surveyed the Escherichia coli proteome using several proteomic methodologies and globally measured oxidation rates of methionine residues in the presence and absence of tertiary structure, as well as the folding stabilities of methionine-containing domains. These data indicated that buried methionines have a wide range of protection factors against oxidation that correlate strongly with folding stabilities. Consistent with this, we show that in comparison to E. coli, the proteome of the thermophile Thermus thermophilus is significantly more stable and thus more resistant to methionine oxidation. To demonstrate the utility of this correlation, we used native methionine oxidation rates to survey the folding stabilities of E. coli and T. thermophilus proteomes at various temperatures and propose a model that relates the temperature dependence of the folding stabilities of these two species to their optimal growth temperatures. Overall, these results indicate that oxidation rates of buried methionines from the native state of proteins can be used as a metric of folding stability.

Indexed as

ProteomeProteomicsEscherichia coliMethionineOxidation-ReductionProtein FoldingMethionineProteomemass spectrometry (MS)methionineoxidation-reductionprotein stabilityproteomics

Identifiers

PMID35346688
PMCPMC9062257
OpenAlexW4220680155

What OpenQuestion holds

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LicenceCC BY-NC-ND
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.