Evidence map›Paper›PMID 24534728›Full record

ArticleJournal of molecular biology2014

A DNA mimic: the structure and mechanism of action for the anti-repressor protein AbbA.

Ashley T Tucker, Benjamin G Bobay, Allison V Banse, Andrew L Olson, Erik J Soderblom, M Arthur Moseley, Richele J Thompson, Kristen M Varney, Richard Losick, John Cavanagh

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Journal of molecular biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.

0numbers the graph read from it
0cells of the map it votes in
9citing papers in PubMed
–field-weighted citation impact
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

9 citing papers in PubMed.

  1. The alternative sigma factor SigN ofJournal of bacteriology · 2023
    Article
  2. Review
  3. Article
  4. Article
  5. Article
  6. Article
  7. Noncanonical DNA-binding mode of repressor and its disassembly by antirepressor.Proceedings of the National Academy of Sciences of the United States of America · 2016
    Article
  8. Article
  9. Review
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

10 authors.

Ashley T TuckerDepartment of Molecular and Structural Biochemistry, North Carolina State University, Campus Box 7622, 128 Polk Hall, Raleigh, NC 27695, USA.
Benjamin G BobayDepartment of Molecular and Structural Biochemistry, North Carolina State University, Campus Box 7622, 128 Polk Hall, Raleigh, NC 27695, USA.
Allison V BanseDepartment of Molecular and Cellular Biology, Harvard University, 52 Oxford Street, Cambridge, MA 02138, USA.
Andrew L OlsonDepartment of Molecular and Structural Biochemistry, North Carolina State University, Campus Box 7622, 128 Polk Hall, Raleigh, NC 27695, USA.
Erik J SoderblomDuke Proteomics Core Facility, Institute for Genome Sciences and Policy, Duke University School of Medicine, Duke University, B02 Levine Sciences Research Center, 450 Research Drive, Durham, NC 27708, USA.
M Arthur MoseleyDuke Proteomics Core Facility, Institute for Genome Sciences and Policy, Duke University School of Medicine, Duke University, B02 Levine Sciences Research Center, 450 Research Drive, Durham, NC 27708, USA.
Richele J ThompsonDepartment of Molecular and Structural Biochemistry, North Carolina State University, Campus Box 7622, 128 Polk Hall, Raleigh, NC 27695, USA.
Kristen M VarneyDepartment of Biochemistry and Molecular Biology, University of Maryland School of Medicine, 108 North Greene Street, Baltimore, MD 21201, USA.
Richard LosickDepartment of Molecular and Cellular Biology, Harvard University, 52 Oxford Street, Cambridge, MA 02138, USA.
John CavanaghDepartment of Molecular and Structural Biochemistry, North Carolina State University, Campus Box 7622, 128 Polk Hall, Raleigh, NC 27695, USA. Electronic address: john_cavanagh@ncsu.edu.

Funding

Role of RNA Polymerase in Bacterial DifferentionR01GM018568 · NIGMS · HARVARD UNIVERSITY · PI LOSICK, RICHARD MARC · 1985 to 2018
$11.5M
NMR STUDIES OF BACTERIAL REGULATORY PROTEINSR01GM055769 · NIGMS · WADSWORTH CENTER · PI CAVANAGH, JOHN, MELANDER, CHRISTIAN COREY · 1998 to 2017
$3.8M
ROLE OF RNA POLYMERASE IN BACTERIAL DIFFERENTIATIONR37GM018568 · NIGMS · HARVARD UNIVERSITY · PI LOSICK, RICHARD MARC · 1990 to 1999
–
NIGMS NIH HHS GM18568NIGMS NIH HHS R01 GM018568NIGMS NIH HHS R01 GM055769NIGMS NIH HHS R01 GM55769NIGMS NIH HHS R37 GM018568
6 · The paper itself

Abstract

Bacteria respond to adverse environmental conditions by switching on the expression of large numbers of genes that enable them to adapt to unfavorable circumstances. In Bacillus subtilis, many adaptive genes are under the negative control of the global transition state regulator, the repressor protein AbrB. Stressful conditions lead to the de-repression of genes under AbrB control. Contributing to this de-repression is AbbA, an anti-repressor that binds to and blocks AbrB from binding to DNA. Here, we have determined the NMR structure of the functional AbbA dimer, confirmed that it binds to the N-terminal DNA-binding domain of AbrB, and have provided an initial description for the interaction using computational docking procedures. Interestingly, we show that AbbA has structural and surface characteristics that closely mimic the DNA phosphate backbone, enabling it to readily carry out its physiological function.

Indexed as

Bacillus subtilisBacterial ProteinsMagnetic Resonance SpectroscopyModels, MolecularMolecular Docking SimulationProtein ConformationProtein MultimerizationBacterial ProteinsAbbADNA mimicmolecular dockingNMRtransition state regulator

Identifiers

PMID24534728
PMCPMC4017629

What OpenQuestion holds

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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.