Evidence map›Paper›PMID 24107129›Full record

ArticleThe Biochemical journal2014

A robust methodology to subclassify pseudokinases based on their nucleotide-binding properties.

James M Murphy, Qingwei Zhang, Samuel N Young, Michael L Reese, Fiona P Bailey, Patrick A Eyers, Daniela Ungureanu, Henrik Hammaren, Olli Silvennoinen, Leila N Varghese and 14 more

Open access · greenAbstract read
In one paragraph

Article in The Biochemical journal, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 150 papers.

0numbers the graph read from it
0cells of the map it votes in
150citing papers in PubMed
9.0field-weighted citation impact, top 1% 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

150 citing papers in PubMed, 285 citations in OpenAlex.

  1. Trial
  2. Article
  3. Modulating pseudokinase conformation from the ATP-binding site.Structure (London, England : 1993) · 2026
    Article
  4. Review
  5. Review
  6. Review
  7. Structural basis for pseudokinase-mediated regulation of GCN2 in the integrated stress response.Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  8. Article
  9. Article
  10. Article
  11. Review
  12. Mixed Lineage Kinase Domain-Like Protein (MLKL): From Mechanisms to Therapeutic Opportunities.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025
    Review
  13. Article
  14. Review
  15. Article
  16. Article
  17. Article
  18. Review
  19. Article
  20. Review

90 more citing papers are in PubMed but not listed here.

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

24 authors at 9 institutions in 3 countries.

James M Murphy
Qingwei Zhang‡Department of Biochemistry and Molecular Biology, School of Biomedical Sciences, Monash University, Clayton, Victoria 3800, Australia.
Samuel N Young*The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria 3052, Australia.
Michael L Reese§Department of Microbiology and Immunology, Stanford University, Stanford, CA 24305-5124, U.S.A.
Fiona P Bailey¶Department of Biochemistry, Institute of Integrative Biology, University of Liverpool, Liverpool L69 7ZB, U.K.
Patrick A Eyers¶Department of Biochemistry, Institute of Integrative Biology, University of Liverpool, Liverpool L69 7ZB, U.K.
Daniela Ungureanu∥School of Medicine and Institute of Biomedical Technology, University of Tampere and Tampere University Hospital, Tampere 33014, Finland.
Henrik Hammaren∥School of Medicine and Institute of Biomedical Technology, University of Tampere and Tampere University Hospital, Tampere 33014, Finland.
Olli Silvennoinen∥School of Medicine and Institute of Biomedical Technology, University of Tampere and Tampere University Hospital, Tampere 33014, Finland.
Leila N Varghese
Kelan Chen
Anne Tripaydonis*The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria 3052, Australia.
Natalia Jura**Cardiovascular Research Institute and Department of Cellular and Molecular Pharmacology, University of California San Francisco, San Francisco, CA 94158-9001, U.S.A.
Koichi Fukuda††Department of Molecular Cardiology, Lerner Research Institute, NB20, Cleveland Clinic, 9500 Euclid Avenue, Cleveland, OH 44195, U.S.A.
Jun Qin††Department of Molecular Cardiology, Lerner Research Institute, NB20, Cleveland Clinic, 9500 Euclid Avenue, Cleveland, OH 44195, U.S.A.
Zachary Nimchuk‡‡Department of Biology, California Institute of Technology, Pasadena, CA 91125, U.S.A.
Mary Beth Mudgett§§Department of Biology, Stanford University, Stanford, CA 24305-5020, U.S.A.
Sabine Elowe¶¶Centre de Recherche du Centre Hospitalier Universitaire de Québec and and Faculté de Médicine, Département de Pédiatrie, Université Laval, Québec G1V 4G2, Canada.
Christine L Gee∥∥Australian Synchrotron, Clayton, Victoria 3168, Australia.
Ling Liu***Cancer Research Program, The Kinghorn Cancer Centre, Garvan Institute of Medical Research, 370 Victoria Street, Darlinghurst, Sydney, NSW 2010, Australia.
Roger J Daly***Cancer Research Program, The Kinghorn Cancer Centre, Garvan Institute of Medical Research, 370 Victoria Street, Darlinghurst, Sydney, NSW 2010, Australia.
Gerard Manning†††Genentech, 1 DNA Way, MS 93, South San Francisco, CA 94010, U.S.A.
Jeffrey J Babon
Isabelle S Lucet‡Department of Biochemistry and Molecular Biology, School of Biomedical Sciences, Monash University, Clayton, Victoria 3800, Australia.
University of Melbourne · AUWalter and Eliza Hall Institute of Medical Research · AUMonash University · AUTampere University · FIAustralian Synchrotron · AUCentre hospitalier universitaire de Québec · CAGarvan Institute of Medical Research · AUTampere University Hospital · FIThe Kinghorn Cancer Centre · AU

Funding

STRUCTURES AND MECHANISMS OF ANK REPEAT BEARING PROTEINSR01HL058758 · NHLBI · CLEVELAND CLINIC LERNER COM-CWRU · PI JUN QIN · 1999 to 2026
$9.0M
Strain-specific Host-Pathogen Interactions in ToxoplasmosisR01AI073756 · NIAID · STANFORD UNIVERSITY · PI BOOTHROYD, JOHN C · 2007 to 2016
$4.2M
Structural and Functional Studies of HER Receptor Tyrosine KinasesR01GM109176 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI JURA, NATALIA · 2014 to 2018
$1.8M
Medical Research Council G120/1030NHLBI NIH HHS R01 HL058758NHLBI NIH HHS R01 HL58758NIAID NIH HHS AI73756NIAID NIH HHS R01 AI073756NIGMS NIH HHS R01 GM109176
6 · The paper itself

Abstract

Protein kinase-like domains that lack conserved residues known to catalyse phosphoryl transfer, termed pseudokinases, have emerged as important signalling domains across all kingdoms of life. Although predicted to function principally as catalysis-independent protein-interaction modules, several pseudokinase domains have been attributed unexpected catalytic functions, often amid controversy. We established a thermal-shift assay as a benchmark technique to define the nucleotide-binding properties of kinase-like domains. Unlike in vitro kinase assays, this assay is insensitive to the presence of minor quantities of contaminating kinases that may otherwise lead to incorrect attribution of catalytic functions to pseudokinases. We demonstrated the utility of this method by classifying 31 diverse pseudokinase domains into four groups: devoid of detectable nucleotide or cation binding; cation-independent nucleotide binding; cation binding; and nucleotide binding enhanced by cations. Whereas nine pseudokinases bound ATP in a divalent cation-dependent manner, over half of those examined did not detectably bind nucleotides, illustrating that pseudokinase domains predominantly function as non-catalytic protein-interaction modules within signalling networks and that only a small subset is potentially catalytically active. We propose that henceforth the thermal-shift assay be adopted as the standard technique for establishing the nucleotide-binding and catalytic potential of kinase-like domains.

Indexed as

Amino Acid SequenceAnimalsCell LineHumansInsectaJanus Kinase 2Molecular Sequence DataProtein BindingReal-Time Polymerase Chain ReactionReceptor, ErbB-3ERBB3 protein, humanJAK2 protein, humanJanus Kinase 2Receptor, ErbB-3

Identifiers

PMID24107129
PMCPMC5679212
OpenAlexW2168822202

What OpenQuestion holds

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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.