Evidence map›Paper›PMID 24175952›Full record

ArticleBiochemistry2013

The sensitive balance between the fully folded and locally unfolded conformations of a model peroxiredoxin.

Arden Perkins, Kimberly J Nelson, Jared R Williams, Derek Parsonage, Leslie B Poole, P Andrew Karplus

Abstract read
In one paragraph

Article in Biochemistry, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.

0numbers the graph read from it
0cells of the map it votes in
30citing papers in PubMed
2.8field-weighted citation impact, top 9% 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

30 citing papers in PubMed, 57 citations in OpenAlex.

  1. Article
  2. Improving pJournal of chemical theory and computation · 2025
    Article
  3. Article
  4. Regulation of NADP-Malic Enzyme Activity in Maize (Plants (Basel, Switzerland) · 2023
    Article
  5. Article
  6. Article
  7. Review
  8. Real-time monitoring of peroxiredoxin oligomerization dynamics in living cells.Proceedings of the National Academy of Sciences of the United States of America · 2020
    Article
  9. Article
  10. Article
  11. Article
  12. Article
  13. Structural snapshots of OxyR reveal the peroxidatic mechanism of HProceedings of the National Academy of Sciences of the United States of America · 2018
    Article
  14. Review
  15. Article
  16. Novel hyperoxidation resistance motifs in 2-Cys peroxiredoxins.The Journal of biological chemistry · 2018
    Article
  17. Article
  18. Article
  19. Article
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors at 2 institutions in 1 country.

Arden PerkinsDepartment of Biochemistry and Biophysics, Oregon State University , Corvallis, Oregon 97331, United States.
Kimberly J Nelson
Jared R Williams
Derek Parsonage
Leslie B Poole
P Andrew Karplus
Oregon State University · USWake Forest University · US

Funding

Reducing Susceptibility to Environmental Stress Throughout the Life SpanP30ES000210 · NIEHS · OREGON STATE UNIVERSITY · PI BECKMAN, JOSEPH S · 1985 to 2015
$21.4M
Mechanistic Studies of Alkyl Hydroperoxide Reductase and Related Redox SystemsR01GM050389 · NIGMS · WAKE FOREST UNIVERSITY HEALTH SCIENCES · PI POOLE, LESLIE B · 1994 to 2013
$4.8M
NIEHS NIH HHS P30 ES000210NIGMS NIH HHS R01 GM050389
6 · The paper itself

Abstract

To reduce peroxides, peroxiredoxins (Prxs) require a key "peroxidatic" Cys that, in a substrate-ready fully folded (FF) conformation, is oxidized to sulfenic acid and then, after a local unfolding (LU) of the active site, forms a disulfide bond with a second "resolving" Cys. For Salmonella typhimurium alkyl hydroperoxide reductase C (StAhpC) and some other Prxs, the FF structure is only known for a peroxidatic Cys→Ser variant, which may not accurately represent the wild-type enzyme. Here, we obtain the structure of authentic reduced wild-type StAhpC by dithiothreitol treatment of disulfide form crystals that fortuitously accommodate both the LU and FF conformations. The unique environment of one molecule in the crystal reveals a thermodynamic linkage between the folding of the active site loop and C-terminal regions, and comparisons with the Ser variant show structural and mobility differences from which we infer that the Cys→Ser mutation stabilizes the FF active site. A structure for the C165A variant (a resolving Cys to Ala mutant) in the same crystal form reveals that this mutation destabilizes the folding of the C-terminal region. These structures prove that subtle modifications to Prx structures can substantially influence enzymatic properties. We also present a simple thermodynamic framework for understanding the various mixtures of FF and LU conformations seen in these structures. On the basis of this framework, we rationalize how physiologically relevant regulatory post-translational modifications may modulate activity, and we propose a nonconventional strategy for designing selective Prx inhibitors.

Indexed as

Protein FoldingAmino Acid SubstitutionCatalytic DomainCrystallography, X-RayCysteineModels, MolecularPeroxiredoxinsProtein Structure, TertiarySalmonella typhimuriumSerineStructure-Activity RelationshipThermodynamicsCysteinePeroxiredoxinsSerine

Identifiers

PMID24175952
PMCPMC3932808
OpenAlexW2052056124

What OpenQuestion holds

Textmetadata
LicenceTDM
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.