Evidence map›Paper›PMID 23718207›Full record

ArticleBiochemistry2013

Multistep, eight-electron oxidation catalyzed by the cofactorless oxidase, PqqC: identification of chemical intermediates and their dependence on molecular oxygen.

Florence Bonnot, Anthony T Iavarone, Judith P Klinman

Erratum issuedAbstract 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. An erratum has been issued. Cited by 19 papers.

0numbers the graph read from it
0cells of the map it votes in
19citing papers in PubMed
1.5field-weighted citation impact, top 19% 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

19 citing papers in PubMed, 39 citations in OpenAlex.

  1. Article
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  5. Review
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  8. An Unusual Route forJournal of bacteriology · 2020
    Article
  9. Biological pincer complexes.ChemCatChem · 2020
    Article
  10. A two-component protease inThe Journal of biological chemistry · 2019
    Article
  11. Article
  12. Moving Through Barriers in Science and Life.Annual review of biochemistry · 2019
    Article
  13. Occurrence, function, and biosynthesis of mycofactocin.Applied microbiology and biotechnology · 2019
    Review
  14. Article
  15. Article
  16. Article
  17. Article
  18. Article
  19. Review
4 · The record

Corrections and comments

  • Erratum issued
5 · Who and what money

Authors and funding

3 authors at 1 institution in 1 country.

Florence BonnotDepartment of Chemistry, ‡Department of Molecular and Cell Biology, and §California Institute for Quantitative Biosciences (QB3), University of California , Berkeley, California 94720, United States.
Anthony T Iavarone
Judith P Klinman
QB3 · US

Funding

Toward a Comprehensive Model for Enzyme CatalysisR01GM025765 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI KLINMAN, JUDITH P · 1985 to 2015
$7.1M
QUINOENZYMES: BIOGENESIS, STRUCTURE AND FUNCTIONR01GM039296 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI KLINMAN, JUDITH P · 1988 to 2015
$6.3M
QTOF MASS SPECTROMETER: CELL MOLECULAR BIOLOGY, PROTEIN STRUCTURES10RR022393 · NCRR · UNIVERSITY OF CALIFORNIA BERKELEY · PI WILLIAMS, EVAN R · 2006 to 2006
$499k
DOPAMINE MONOOXYGENASE--MOLECULAR MECHANISMSR37GM025765 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI KLINMAN, JUDITH POLLOCK · 1990 to 1999
–
NCRR NIH HHS 1S10RR022393-01NCRR NIH HHS S10 RR022393NIGMS NIH HHS GM025765NIGMS NIH HHS R01 GM025765NIGMS NIH HHS R01 GM039296NIGMS NIH HHS R37 GM025765
6 · The paper itself

Abstract

The final step of the biosynthesis of prokaryotic cofactor PQQ is catalyzed by PqqC, a cofactorless oxidase that brings about a ring closure and overall eight-electron oxidation of its substrate. Time-dependent acid quenching and subsequent high-performance liquid chromatography separation and mass spectrometric analyses of reaction mixtures were performed to correlate the structures of intermediates with previously observed UV-visible signatures. The reaction is composed of four stepwise oxidations: three steps use O2 as the two-electron acceptor, and the fourth uses hydrogen peroxide (H2O2). The chemical nature of the intermediates, the stoichiometry of the reaction, and their dependence on the oxygen concentration indicate that the third oxidation uses the product, H2O2, from the preceding step to produce water. The last oxidation step can also be studied separately and is a reaction between O2 and PQQH2 trapped in the active site. This oxidation is approximately 10 times slower than the reoxidation of PQQH2 in solution. From the order of the four oxidation steps and their sensitivity to O2 concentration, we propose a progressive closure of the active site as the enzyme proceeds through its catalytic cycle.

Indexed as

Bacterial ProteinsCatalysisElectronsKineticsMass SpectrometryModels, MolecularOxidation-ReductionOxygenSpectrophotometry, UltravioletBacterial ProteinsOxygenPqqC protein, Bacteria

Identifiers

PMID23718207
PMCPMC3825819
OpenAlexW1988812962

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.