Evidence map›Paper›PMID 23458248›Full record

ArticleJournal of the American Chemical Society2013

Phosphoryl transfer by protein kinase A is captured in a crystal lattice.

Adam C Bastidas, Michael S Deal, Jon M Steichen, Yurong Guo, Jian Wu, Susan S Taylor

Abstract read
In one paragraph

Article in Journal of the American Chemical Society, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 papers.

0numbers the graph read from it
0cells of the map it votes in
45citing papers in PubMed
4.9field-weighted citation impact, top 4% 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

45 citing papers in PubMed, 88 citations in OpenAlex.

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  9. Review
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  12. Mechanism of auto-inhibition and activation of Mec1Nature structural & molecular biology · 2021
    Article
  13. Article
  14. Article
  15. Kinase Activation by Small Conformational Changes.Journal of chemical information and modeling · 2020
    Article
  16. Article
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  18. Article
  19. Review
  20. 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

6 authors at 2 institutions in 1 country.

Adam C BastidasDepartment of Pharmacology, University of California, San Diego, California 92093, USA.
Michael S Deal
Jon M Steichen
Yurong Guo
Jian Wu
Susan S Taylor
University of California, San Diego · USHoward Hughes Medical Institute · US

Funding

GRADUATE TRAINING IN CELLULAR &MOLECULAR PHARMACOLOGYT32GM007752 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI BROWN, JOAN HELLER, HANDEL, TRACY M · 1985 to 2023
$13.5M
Contemporary Approaches to Cancer Cell Signaling and CommunicationT32CA009523 · NCI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI DONOGHUE, DANIEL J, YANG, JING · 1985 to 2025
$12.1M
Protein Kinase: Primary Structure and cAMP InteractionsR01GM019301 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI TAYLOR, SUSAN S. · 1985 to 2013
$3.4M
PROTEIN KINASE: PRIMARY STRUCTURE AND CAMP INTERACTIONR37GM019301 · NIGMS · UNIVERSITY OF CALIFORNIA SAN DIEGO · PI TAYLOR, SUSAN S · 1995 to 2004
$2.0M
The Role of N-myristylation and N-terminal Modifications on PKA Structure and DynF31GM099415 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI BASTIDAS, ADAM CHRISTOPHER · 2011 to 2013
$94k
Howard Hughes Medical InstituteNCI NIH HHS T32 CA009523NIGMS NIH HHS F31 GM099415NIGMS NIH HHS F31GM099415NIGMS NIH HHS GM19301NIGMS NIH HHS R01 GM019301NIGMS NIH HHS R37 GM019301NIGMS NIH HHS T32 GM007752
6 · The paper itself

Abstract

The catalytic (C) subunit of cAMP-dependent protein kinase (PKA) is a serine/threonine kinase responsible for most of the effects of cAMP signaling, and PKA serves as a prototype for the entire kinase family. Despite multiple studies of PKA, the steps involved in phosphoryl transfer, the roles of the catalytically essential magnesium ions, and the processes that govern the rate-limiting step of ADP release are unresolved. Here we identified conditions that yielded slow phosphoryl transfer of the γ-phosphate from the generally nonhydrolyzable analog of ATP, adenosine-5'-(β,γ-imido)triphosphate (AMP-PNP), onto a substrate peptide within protein crystals. By trapping both products in the crystal lattice, we now have a complete resolution profile of all the catalytic steps. One crystal structure refined to 1.55 Å resolution shows two states of the protein with 55% displaying intact AMP-PNP and an unphosphorylated substrate and 45% displaying transfer of the γ-phosphate of AMP-PNP onto the substrate peptide yielding AMP-PN and a phosphorylated substrate. Another structure refined to 2.15 Å resolution displays complete phosphoryl transfer to the substrate. These structures, in addition to trapping both products in the crystal lattice, implicate one magnesium ion, previously termed Mg2, as the more stably bound ion. Following phosphoryl transfer, Mg2 recruits a water molecule to retain an octahedral coordination geometry suggesting the strong binding character of this magnesium ion, and Mg2 remains in the active site following complete phosphoryl transfer while Mg1 is expelled. Loss of Mg1 may thus be an important part of the rate-limiting step of ADP release.

Indexed as

Adenylyl ImidodiphosphateAnimalsCrystallography, X-RayCyclic AMP-Dependent Protein KinasesMagnesiumMiceModels, MolecularPeptidesPhosphorylationAdenylyl ImidodiphosphateCyclic AMP-Dependent Protein KinasesMagnesiumPeptides

Identifiers

PMID23458248
PMCPMC3663052
OpenAlexW1992325160

What OpenQuestion holds

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LicenceTDM
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.