Evidence map›Paper›PMID 33638994›Full record

ArticleNucleic acids research2021

Structure-based analyses of Salmonella RcsB variants unravel new features of the Rcs regulon.

Juanjo Huesa, Joaquín Giner-Lamia, M Graciela Pucciarelli, Francisco Paredes-Martínez, Francisco García-del Portillo, Alberto Marina, Patricia Casino

Open access · goldAbstract read
In one paragraph

Article in Nucleic acids research, 2021. 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
2.4field-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

9 citing papers in PubMed, 17 citations in OpenAlex.

  1. Article
  2. Review
  3. Article
  4. Article
  5. A frameshift ineLife · 2023
    Article
  6. Article
  7. Article
  8. Regulation of gene expression by non-phosphorylated response regulators.International microbiology : the official journal of the Spanish Society for Microbiology · 2021
    Review
  9. 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

7 authors at 3 institutions in 1 country.

Juanjo HuesaDepartamento de Bioquímica y Biología Molecular, Universitat de València. Dr Moliner 50, 46100 Burjassot, Spain.
Joaquín Giner-LamiaLaboratorio de Patógenos Bacterianos Intracelulares. Centro Nacional de Biotecnología (CNB)-CSIC. Darwin 3, 28049 Madrid. Spain.
M Graciela PucciarelliLaboratorio de Patógenos Bacterianos Intracelulares. Centro Nacional de Biotecnología (CNB)-CSIC. Darwin 3, 28049 Madrid. Spain.
Francisco Paredes-MartínezDepartamento de Bioquímica y Biología Molecular, Universitat de València. Dr Moliner 50, 46100 Burjassot, Spain.
Francisco García-del PortilloLaboratorio de Patógenos Bacterianos Intracelulares. Centro Nacional de Biotecnología (CNB)-CSIC. Darwin 3, 28049 Madrid. Spain.
Alberto MarinaDepartment of Genomic and Proteomic, Instituto de Biomedicina de Valencia (IBV-CSIC), Jaume Roig 11, 46010 Valencia, Spain.
Patricia CasinoDepartamento de Bioquímica y Biología Molecular, Universitat de València. Dr Moliner 50, 46100 Burjassot, Spain.
Centro Nacional de Biotecnología · ESUniversitat de València · ESInstituto de Salud Carlos III · ES

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

RcsB is a transcriptional regulator that controls expression of numerous genes in enteric bacteria. RcsB accomplishes this role alone or in combination with auxiliary transcriptional factors independently or dependently of phosphorylation. To understand the mechanisms by which RcsB regulates such large number of genes, we performed structural studies as well as in vitro and in vivo functional studies with different RcsB variants. Our structural data reveal that RcsB binds promoters of target genes such as rprA and flhDC in a dimeric active conformation. In this state, the RcsB homodimer docks the DNA-binding domains into the major groove of the DNA, facilitating an initial weak read-out of the target sequence. Interestingly, comparative structural analyses also show that DNA binding may stabilize an active conformation in unphosphorylated RcsB. Furthermore, RNAseq performed in strains expressing wild-type or several RcsB variants provided new insights into the contribution of phosphorylation to gene regulation and assign a potential role of RcsB in controlling iron metabolism. Finally, we delimited the RcsB box for homodimeric active binding to DNA as the sequence TN(G/A)GAN4TC(T/C)NA. This RcsB box was found in promoter, intergenic and intragenic regions, facilitating both increased or decreased gene transcription.

Indexed as

Promoter Regions, GeneticRegulonBacterial ProteinsBinding SitesGene Expression Regulation, BacterialGenome, BacterialModels, MolecularMutationPhosphorylationProtein ConformationSalmonella typhimuriumTranscription, GeneticBacterial ProteinsRcsB protein, Bacteria

Identifiers

PMID33638994
PMCPMC7913699
OpenAlexW3128191687

What OpenQuestion holds

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Registered trials

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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.