Evidence map›Paper›PMID 24944884›Full record

ArticleFEBS open bio2014

Molecular mechanisms in the selective basal activation of pyrabactin receptor 1: Comparative analysis of mutants.

Lyudmyla Dorosh, Nandhakishore Rajagopalan, Michele C Loewen, Maria Stepanova

Open access · goldAbstract read
In one paragraph

Article in FEBS open bio, 2014. 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
0.9field-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

2 citing papers in PubMed, 4 citations in OpenAlex.

  1. Article
  2. 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 4 institutions in 1 country.

Lyudmyla DoroshNational Research Council of Canada, Edmonton, Alberta, Canada ; Department of Electrical and Computer Engineering, University of Alberta, Edmonton, Alberta, Canada.
Nandhakishore RajagopalanNational Research Council of Canada, Saskatoon, Saskatchewan, Canada.
Michele C LoewenNational Research Council of Canada, Saskatoon, Saskatchewan, Canada ; Department of Biochemistry, University of Saskatchewan, Saskatoon, Saskatchewan, Canada.
Maria StepanovaNational Research Council of Canada, Edmonton, Alberta, Canada ; Department of Electrical and Computer Engineering, University of Alberta, Edmonton, Alberta, Canada.
National Research Council Canada · CASaskatchewan Research Council (Canada) · CAUniversity of Alberta · CAUniversity of Saskatchewan · CA

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Pyrabactin receptors (PYR) play a central role in abscisic acid (ABA) signal transduction; they are ABA receptors that inhibit type 2C protein phosphatases (PP2C). Molecular aspects contributing to increased basal activity of PYR against PP2C are studied by molecular dynamics (MD) simulations. An extensive series of MD simulations of the apo-form of mutagenized PYR1 as a homodimer and in complex with homology to ABA-insensitive 1 (HAB1) phosphatase are reported. In order to investigate the detailed molecular mechanisms mediating PYR1 activity, the MD data was analyzed by essential collective dynamics (ECD), a novel approach that allows the identification, with atomic resolution, of persistent dynamic correlations based on relatively short MD trajectories. Employing the ECD method, the effects of select mutations on the structure and dynamics of the PYR1 complexes were investigated and considered in the context of experimentally determined constitutive activities against HAB1. Approaches to rationally design constitutively active PYR1 constructs to increase PP2C inhibition are discussed.

Indexed as

ABA, A8S abscisic acidAbscisic acid signalingCA, constitutively activeConstitutively active mutationsECD, essential collective dynamicsEssential collective dynamics analysisHAB1, homology to ABA insensitive 1MD, molecular dynamicsMolecular dynamics simulationsP2M, N-(pyridin-2-ylmethyl) naphthalene-1-sulfonamide or C16H14N2O2SPCA, principal component analysisPDB, Protein Data BankPP2C, phosphatase type 2CPYL, PYR1-likePYR1, pyrabactin resistance 1Pyrabactin resistancePYV, pyrabactin or C16H13BrN2O2SRCAR, regulatory component of ABA responseWT, wild type

Identifiers

PMID24944884
PMCPMC4060014
OpenAlexW2071175767

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.