Evidence map›Paper›PMID 28661131›Full record

ArticleBiochemistry2017

Molecular Simulations Reveal an Unresolved Conformation of the Type IA Protein Kinase A Regulatory Subunit and Suggest Its Role in the cAMP Regulatory Mechanism.

Sophia P Hirakis, Robert D Malmstrom, Rommie E Amaro

Abstract read
In one paragraph

Article in Biochemistry, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing 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

6 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Switching of the folding-energy landscape governs the allosteric activation of protein kinase A.Proceedings of the National Academy of Sciences of the United States of America · 2018
    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

3 authors.

Sophia P HirakisDepartment of Chemistry and Biochemistry and National Biomedical Computational Resource, University of California, San Diego , 9500 Gilman Drive, La Jolla, California 92093-0304, United States.
Robert D MalmstromDepartment of Chemistry and Biochemistry and National Biomedical Computational Resource, University of California, San Diego , 9500 Gilman Drive, La Jolla, California 92093-0304, United States.
Rommie E AmaroDepartment of Chemistry and Biochemistry and National Biomedical Computational Resource, University of California, San Diego , 9500 Gilman Drive, La Jolla, California 92093-0304, United States.ORCID 0000-0002-9275-9553

Funding

National Biomedical Computation Resource - Competitive Revision SupplementP41GM103426 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI AMARO, ROMMIE E · 2012 to 2019
$14.0M
Training in Multi-Scale Analysis of Biological Structure and FunctionT32EB009380 · NIBIB · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI Andrew D. McCulloch, Padmini Rangamani · 2009 to 2026
$4.8M
A Structural Systems Biology Approach to Drug DiscoveryDP2OD007237 · OD · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI AMARO, ROMMIE E · 2010 to 2015
$2.9M
Modeling and analysis of the mechanochemical processes that govern clathrin-mediated endocytosisR01GM132106 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI RANGAMANI, PADMINI · 2020 to 2024
$1.5M
NIBIB NIH HHS T32 EB009380NIGMS NIH HHS P41 GM103426NIGMS NIH HHS R01 GM132106NIH HHS DP2 OD007237
6 · The paper itself

Abstract

We identify a previously unresolved, unrecognized, and highly stable conformation of the protein kinase A (PKA) regulatory subunit RIα. This conformation, which we term the "Flipback" structure, bridges conflicting characteristics in crystallographic structures and solution experiments of the PKA RIα heterotetramer. Our simulations reveal a hinge residue, G235, in the B/C helix that is conserved through all isoforms of RI. Brownian dynamics simulations suggest that the Flipback conformation plays a role in cAMP association to the A domain of the R subunit.

Indexed as

Models, MolecularAmino Acid MotifsAmino Acid SubstitutionAnimalsCattleConserved SequenceCyclic AMPCyclic AMP-Dependent Protein Kinase Catalytic SubunitsCyclic AMP-Dependent Protein Kinase RIalpha SubunitDatabases, ProteinEnzyme ActivationEnzyme StabilityGlycineHoloenzymesMiceMolecular Docking SimulationCyclic AMPCyclic AMP-Dependent Protein Kinase Catalytic SubunitsCyclic AMP-Dependent Protein Kinase RIalpha SubunitGlycineHoloenzymesPrkaca protein, mouseRecombinant Proteins

Identifiers

PMID28661131
PMCPMC5751417

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.