Evidence map›Paper›PMID 10960098›Full record

ArticleJournal of bacteriology2000

Identification of Escherichia coli ubiB, a gene required for the first monooxygenase step in ubiquinone biosynthesis.

W W Poon, D E Davis, H T Ha, T Jonassen, P N Rather, C F Clarke

Open access · greenAbstract read
In one paragraph

Article in Journal of bacteriology, 2000. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 71 papers.

0numbers the graph read from it
0cells of the map it votes in
71citing papers in PubMed
2.3field-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

71 citing papers in PubMed, 139 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Article
  7. Article
  8. Article
  9. Coenzyme Q biochemistry and biosynthesis.Trends in biochemical sciences · 2023
    Review
  10. Article
  11. Article
  12. The EcoCyc Database in 2021.Frontiers in microbiology · 2021
    Article
  13. Article
  14. Coenzyme QFrontiers in bioengineering and biotechnology · 2021
    Article
  15. Article
  16. Article
  17. Article
  18. Review
  19. Article
  20. Article

11 more citing papers are in PubMed but not listed here.

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.

W W PoonDepartment of Chemistry and Biochemistry and the Molecular Biology Institute, University of California, Los Angeles 90095, USA.
D E Davis
H T Ha
T Jonassen
P N Rather
C F Clarke
University of California, Los Angeles · USUniversity School · US

Funding

UCLA NIGMS T32 Program AssessmentT32GM007185 · NIGMS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI TORRES, JORGE · 1985 to 2020
$21.7M
CHEMISTRY BIOLOGY INTERFACE TRAINING PROGRAMT32GM008496 · NIGMS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI MAYNARD, HEATHER D · 1993 to 2019
$6.3M
FUNCTIONAL ROLES OF UBIQUINONE IN YEAST AND HUMAN CELLSR01GM045952 · NIGMS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI CLARKE, CATHERINE FREITAG · 1991 to 2009
$3.2M
NIGMS NIH HHS GM07185NIGMS NIH HHS GM08496NIGMS NIH HHS GM45952NIGMS NIH HHS R01 GM045952NIGMS NIH HHS T32 GM007185NIGMS NIH HHS T32 GM008496
6 · The paper itself

Abstract

It was recently discovered that the aarF gene in Providencia stuartii is required for coenzyme Q (CoQ) biosynthesis. Here we report that yigR, the Escherichia coli homologue of aarF, is ubiB, a gene required for the first monooxygenase step in CoQ biosynthesis. Both the P. stuartii aarF and E. coli ubiB (yigR) disruption mutant strains lack CoQ and accumulate octaprenylphenol. Octaprenylphenol is the CoQ biosynthetic intermediate found to accumulate in the E. coli strain AN59, which contains the ubiB409 mutant allele. Analysis of the mutation in the E. coli strain AN59 reveals no mutations within the ubiB gene, but instead shows the presence of an IS1 element at position +516 of the ubiE gene. The ubiE gene encodes a C-methyltransferase required for the synthesis of both CoQ and menaquinone, and it is the 5' gene in an operon containing ubiE, yigP, and ubiB. The data indicate that octaprenylphenol accumulates in AN59 as a result of a polar effect of the ubiE::IS1 mutation on the downstream ubiB gene. AN59 is complemented by a DNA segment containing the contiguous ubiE, yigP, and ubiB genes. Although transformation of AN59 with a DNA segment containing the ubiB coding region fails to restore CoQ biosynthesis, transformation with the ubiE coding region results in a low-frequency but significant rescue attributed to homologous recombination. In addition, the fre gene, previously considered to correspond to ubiB, was found not to be involved in CoQ biosynthesis. The ubiB gene is a member of a predicted protein kinase family of which the Saccharomyces cerevisiae ABC1 gene is the prototypic member. The possible protein kinase function of UbiB and Abc1 and the role these polypeptides may play in CoQ biosynthesis are discussed.

Indexed as

Escherichia coli ProteinsBacterial ProteinsEscherichia coliGenotypeMixed Function OxygenasesMutagenesisOperonRestriction MappingSaccharomyces cerevisiaeTerpenesUbiquinone2-octaprenyl phenolaarF protein, Providencia stuartiiBacterial ProteinsEscherichia coli ProteinsMixed Function OxygenasesTerpenesUbiB protein, E coliUbiquinone

Identifiers

PMID10960098
PMCPMC94662
OpenAlexW2160455336

What OpenQuestion holds

Textmetadata
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.