Evidence map›Paper›PMID 25122770›Full record

ArticleThe Journal of biological chemistry2014

Interaction with the Src homology (SH3-SH2) region of the Src-family kinase Hck structures the HIV-1 Nef dimer for kinase activation and effector recruitment.

John Jeff Alvarado, Sreya Tarafdar, Joanne I Yeh, Thomas E Smithgall

Open access · hybridAbstract read
In one paragraph

Article in The Journal of biological chemistry, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
33citing papers in PubMed, 1 pooled it
2.1field-weighted citation impact, top 13% 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

33 citing papers in PubMed, 1 synthesis or guideline pooled it, 43 citations in OpenAlex.

  1. HIV Genome-Wide Protein Associations: a Review of 30 Years of Research.Microbiology and molecular biology reviews : MMBR · 2016
    Pooled it
  2. Article
  3. Article
  4. Article
  5. Article
  6. Article
  7. Article
  8. Article
  9. Article
  10. Review
  11. Apoptosis regulation by the tyrosine-protein kinase CSK.Frontiers in cell and developmental biology · 2022
    Review
  12. Article
  13. Article
  14. Review
  15. Structural basis of CD4 downregulation by HIV-1 Nef.Nature structural & molecular biology · 2020
    Article
  16. Article
  17. Article
  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

4 authors at 1 institution in 1 country.

John Jeff AlvaradoFrom the Departments of Microbiology and Molecular Genetics and Structural Biology, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania 15219 and.
Sreya TarafdarFrom the Departments of Microbiology and Molecular Genetics and Department of Infectious Diseases and Microbiology, Graduate School of Public Health, University of Pittsburgh, Pittsburgh, Pennsylvania 15261.
Joanne I YehStructural Biology, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania 15219 and jiyeh@pitt.edu.
Thomas E SmithgallFrom the Departments of Microbiology and Molecular Genetics and tsmithga@pitt.edu.
University of Pittsburgh · US

Funding

X-Ray Core P50GM082251 · NIGMS · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI CALERO, GUILLERMO ALBERTO · 2007 to 2018
$48.1M
Small Molecule Inhibitors of HIV Nef SignalingR01AI057083 · NIAID · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI SMITHGALL, THOMAS E. · 2003 to 2019
$5.1M
Structural Biology of HIV-1 Nef with Host Effectors and Small Molecule InhibitorsR01AI102724 · NIAID · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI ALVARADO, JOHN JEFF, SMITHGALL, THOMAS E. · 2013 to 2017
$1.9M
Structural Biology of HIV-1 Nef with Host Effectors and Small Molecule InhibitorsR56AI102724 · NIAID · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI SMITHGALL, THOMAS E. · 2019 to 2019
$468k
NIAID NIH HHS AI057083NIAID NIH HHS AI102724NIAID NIH HHS R01 AI057083NIAID NIH HHS R01 AI102724NIAID NIH HHS R56 AI102724NIGMS NIH HHS P50 GM082251
6 · The paper itself

Abstract

HIV-1 Nef supports high titer viral replication in vivo and is essential for AIDS progression. Nef function depends on interactions with multiple host cell effectors, including Hck and other Src-family kinases. Here we describe the x-ray crystal structure of Nef in complex with the Hck SH3-SH2 regulatory region to a resolution of 1.86 Å. The complex crystallized as a dimer of complexes, with the conserved Nef PXXPXR motif engaging the Hck SH3 domain. A new intercomplex contact was found between SH3 Glu-93, and Nef Arg-105. Mutagenesis of Hck SH3 Glu-93 interfered with Nef·Hck complex formation and kinase activation in cells. The Hck SH2 domains impinge on the N-terminal region of Nef to stabilize a dimer conformation that exposes Asp-123, a residue critical for Nef function. Our results suggest that in addition to serving as a kinase effector for Nef, Hck binding may reorganize the Nef dimer for functional interaction with other signaling partners.

Indexed as

Binding SitesCrystallography, X-RayEnzyme ActivationEscherichia coliGene ExpressionGene Expression RegulationHEK293 CellsHIV-1Host-Pathogen InteractionsHumansModels, Molecularnef Gene Products, Human Immunodeficiency VirusPlasmidsProtein Interaction Domains and MotifsProtein MultimerizationProtein Structure, SecondaryHCK protein, humannef Gene Products, Human Immunodeficiency Virusnef protein, Human immunodeficiency virus 1Proto-Oncogene Proteins c-hckRecombinant ProteinsHck KinaseHuman Immunodeficiency Virus (HIV)SrcSrc Homology 2 Domain (SH2 Domain)Src Homology 3 Domain (SH3 Domain)X-ray Crystallography

Identifiers

PMID25122770
PMCPMC4192505
OpenAlexW1984766771

What OpenQuestion holds

Textmetadata
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.