Evidence map›Paper›PMID 19117956›Full record

ArticleThe Journal of biological chemistry2009

Structural analysis of the DNA-binding domain of the Helicobacter pylori response regulator ArsR.

Shobhana S Gupta, Brendan N Borin, Timothy L Cover, Andrzej M Krezel

Open access · hybridAbstract read
In one paragraph

Article in The Journal of biological chemistry, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.

0numbers the graph read from it
0cells of the map it votes in
12citing papers in PubMed
0.9field-weighted citation impact, top 24% 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

12 citing papers in PubMed, 24 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Antibiotic-induced ROS-mediated Fur allosterism contributes toAntimicrobial agents and chemotherapy · 2024
    Article
  5. Bifunctional protein ArsRBMC microbiology · 2023
    Article
  6. Two-component regulatory systems inFrontiers in cellular and infection microbiology · 2022
    Review
  7. Article
  8. Article
  9. Article
  10. Article
  11. Review
  12. 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

4 authors at 1 institution in 1 country.

Shobhana S GuptaDepartment of Microbiology and Immunology, Vanderbilt University and Veterans Affairs Tennessee Valley Healthcare System, Nashville, Tennessee 37232, USA.
Brendan N Borin
Timothy L Cover
Andrzej M Krezel
VA Tennessee Valley Healthcare System · US

Funding

XRAY CRYSTALLOGRAPHIC STRUCTURE ANALYSIS: PROTEIN SORTINGP41RR001081 · NCRR · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI KORTEMME, TANJA · 1985 to 2011
$17.6M
Structure-function analysis of H. pylori VacAR01AI039657 · NIAID · VANDERBILT UNIVERSITY MEDICAL CENTER · PI TIMOTHY L COVER · 1996 to 2026
$8.3M
MOLECULAR BIOPHYSICS TRAINING PROGRAM AT VANDERBILTT32GM008320 · NIGMS · VANDERBILT UNIVERSITY · PI CHAZIN, WALTER J. · 1989 to 2023
$7.9M
NCRR NIH HHS P41 RR001081NCRR NIH HHS P41 RR-01081NIAID NIH HHS R01 AI39657NIGMS NIH HHS T32 GM008320
6 · The paper itself

Abstract

The Helicobacter pylori ArsS-ArsR two-component signal transduction system, comprised of a sensor histidine kinase (ArsS) and a response regulator (ArsR), allows the bacteria to regulate gene expression in response to acidic pH. We expressed and purified the full-length ArsR protein and the DNA-binding domain of ArsR (ArsR-DBD), and we analyzed the tertiary structure of the ArsR-DBD using solution nuclear magnetic resonance (NMR) methods. Both the full-length ArsR and the ArsR-DBD behaved as monomers in size exclusion chromatography experiments. The structure of ArsR-DBD consists of an N-terminal four-stranded beta-sheet, a helical core, and a C-terminal beta-hairpin. The overall tertiary fold of the ArsR-DBD is most closely related to DBD structures of the OmpR/PhoB subfamily of bacterial response regulators. However, the orientation of the N-terminal beta-sheet with respect to the rest of the DNA-binding domain is substantially different in ArsR compared with the orientation in related response regulators. Molecular modeling of an ArsR-DBD-DNA complex permits identification of protein elements that are predicted to bind target DNA sequences and thereby regulate gene transcription in H. pylori.

Indexed as

Models, MolecularBacterial ProteinsDNA, BacterialGene Expression Regulation, BacterialHelicobacter pyloriHistidine KinaseHydrogen-Ion ConcentrationNuclear Magnetic Resonance, BiomolecularProtein KinasesProtein Structure, SecondaryProtein Structure, TertiarySignal TransductionTrans-ActivatorsTranscription, GeneticBacterial ProteinsDNA, BacterialHistidine KinaseProtein KinasesTrans-Activators

Identifiers

PMID19117956
PMCPMC2649097
OpenAlexW1963715036

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.