Evidence map›Paper›PMID 19653655›Full record

ArticleBiochemistry2009

Structure and function of Bacillus subtilis YphP, a prokaryotic disulfide isomerase with a CXC catalytic motif .

Urszula Derewenda, Tomasz Boczek, Kelly L Gorres, Minmin Yu, Li-wei Hung, David Cooper, Andrzej Joachimiak, Ronald T Raines, Zygmunt S Derewenda

Open access · greenAbstract read
In one paragraph

Article in Biochemistry, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.

0numbers the graph read from it
0cells of the map it votes in
22citing papers in PubMed
1.7field-weighted citation impact, top 18% 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

22 citing papers in PubMed, 35 citations in OpenAlex.

  1. Article
  2. Structure of BrxA from Staphylococcus aureus, a bacilliredoxin involved in redox homeostasis in Firmicutes.Acta crystallographica. Section F, Structural biology communications · 2022
    Article
  3. Review
  4. Thiol-Mediated Uptake.JACS Au · 2021
    Review
  5. Inhibitors of thiol-mediated uptake.Chemical science · 2020
    Article
  6. Article
  7. Article
  8. Review
  9. Article
  10. The Role of Bacillithiol in Gram-Positive Firmicutes.Antioxidants & redox signaling · 2018
    Review
  11. Review
  12. Article
  13. Article
  14. Article
  15. Article
  16. Article
  17. Article
  18. Article
  19. Article
  20. Atomic resolution insights into curli fiber biogenesis.Structure (London, England : 1993) · 2011
    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

9 authors at 4 institutions in 2 countries.

Urszula DerewendaDepartment of Molecular Physiology and Biological Physics and the ISFI PSI2 Center, University of Virginia School of Medicine, Charlottesville, Virginia 22908-0736, USA.
Tomasz Boczek
Kelly L Gorres
Minmin Yu
Li-wei Hung
David Cooper
Andrzej Joachimiak
Ronald T Raines
Zygmunt S Derewenda
University of Virginia · USJoint Center for Structural Genomics · USLos Alamos National Laboratory · USRzeszów University · PL

Funding

The Midwest Center for Structural GenomicsU54GM074942 · NIGMS · UNIVERSITY OF CHICAGO · PI JOACHIMIAK, ANDRZEJ · 2005 to 2009
$51.0M
Subproject 5U54GM074946 · NIGMS · UNIVERSITY OF CALIF-LOS ALAMOS NAT LAB · PI TERWILLIGER, THOMAS C. · 2005 to 2009
$20.2M
STRUCTURE--FUNCTION ANALYSIS OF RIBONUCLEASE AR01GM044783 · NIGMS · UNIVERSITY OF WISCONSIN-MADISON · PI RAINES, RONALD T · 1990 to 2021
$7.1M
FDA HHS T32 BM008505NIGMS NIH HHS GM044783NIGMS NIH HHS R01 GM044783NIGMS NIH HHS U54 GM074942NIGMS NIH HHS U54 GM074946NIGMS NIH HHS U54 GM074946-01US
6 · The paper itself

Abstract

The DUF1094 family contains over 100 bacterial proteins, all containing a conserved CXC motif, with unknown function. We solved the crystal structure of the Bacillus subtilis representative, the product of the yphP gene. The protein shows remarkable structural similarity to thioredoxins, with a canonical alphabetaalphabetaalphabetabetaalpha topology, despite low amino acid sequence identity to thioredoxin. The CXC motif is found in the loop immediately downstream of the first beta-strand, in a location equivalent to the CXXC motif of thioredoxins, with the first Cys occupying a position equivalent to the first Cys in canonical thioredoxin. The experimentally determined reduction potential of YphP is E degrees' = -130 mV, significantly higher than that of thioredoxin and consistent with disulfide isomerase activity. Functional assays confirmed that the protein displays a level of isomerase activity that might be biologically significant. We propose a mechanism by which the members of this family catalyze isomerization using the CXC catalytic site.

Indexed as

Amino Acid MotifsAmino Acid SequenceBacillus subtilisBacterial ProteinsCatalysisCatalytic DomainConserved SequenceCrystallography, X-RayCysteineIsomerismMolecular Sequence DataMultigene FamilyMutagenesis, Site-DirectedProtein Disulfide-IsomerasesSequence AlignmentThioredoxinsBacterial ProteinsCysteineProtein Disulfide-IsomerasesThioredoxins

Identifiers

PMID19653655
PMCPMC2739605
OpenAlexW1991569648

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.