Evidence map›Paper›PMID 33608564›Full record

ArticleScientific reports2021

One-dimensional diffusion of TrpR along DNA enhances its affinity for the operator by chemical ratchet mechanism.

Takashi Kinebuchi, Nobuo Shimamoto

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Scientific reports, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
0.2field-weighted citation impact, top 49% 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

2 citing papers in PubMed, 5 citations in OpenAlex.

  1. Article
  2. 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

2 authors at 1 institution in 1 country.

Takashi KinebuchiNational Institute of Genetics, Mishima, Shizuoka, 411-8540, Japan.
Nobuo ShimamotoNational Institute of Genetics, Mishima, Shizuoka, 411-8540, Japan. nshima@lab.nig.ac.jp.
The Graduate University for Advanced Studies, SOKENDAI · JP

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Several DNA-binding proteins show the affinities for their specific DNA sites that positively depend on the length of DNA harboring the sites, i. e. antenna effect. DNA looping can cause the effect for proteins with two or more DNA binding sites, i. e. the looping mechanism. One-dimensional diffusion also has been suggested to cause the effect for proteins with single DNA sites, the diffusion mechanism, which could violate detailed balance. We addressed which mechanism is possible for E. coli TrpR showing 10

Indexed as

Gene Expression Regulation, BacterialOperator Regions, GeneticAlgorithmsBacterial ProteinsBinding SitesDNA, BacterialDNA-Binding ProteinsEscherichia coliEscherichia coli ProteinsKineticsLexA Repressor ProteinModels, BiologicalModels, TheoreticalNucleic Acid ConformationProtein BindingRepressor ProteinsBacterial ProteinsDNA, BacterialDNA-Binding ProteinsEscherichia coli ProteinsLexA Repressor ProteinRepressor ProteinsSerine EndopeptidasesTRPR protein, E coli

Identifiers

PMID33608564
PMCPMC7896080
OpenAlexW3130429626

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.