Evidence map›Paper›PMID 30302011›Full record

ArticleScientific reports2018

Structural Rearrangements Maintain the Glycan Shield of an HIV-1 Envelope Trimer After the Loss of a Glycan.

Roux-Cil Ferreira, Oliver C Grant, Thandeka Moyo, Jeffrey R Dorfman, Robert J Woods, Simon A Travers, Natasha T Wood

Abstract read
In one paragraph

Article in Scientific reports, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.

0numbers the graph read from it
0cells of the map it votes in
15citing 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

15 citing papers in PubMed.

  1. Article
  2. Review
  3. Article
  4. Article
  5. Glycosylation and the global virome.Molecular ecology · 2023
    Article
  6. Article
  7. Article
  8. Article
  9. Review
  10. Glycans in Virus-Host Interactions: A Structural Perspective.Frontiers in molecular biosciences · 2021
    Review
  11. Article
  12. Article
  13. Visualization of the HIV-1 Env glycan shield across scales.Proceedings of the National Academy of Sciences of the United States of America · 2020
    Article
  14. Article
  15. 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

7 authors.

Roux-Cil FerreiraSouth African Medical Research Council Bioinformatics Unit, South African National Bioinformatics Institute, University of the Western Cape, Cape Town, South Africa.
Oliver C GrantComplex Carbohydrate Research Center, University of Georgia, Athens, Georgia, United States.
Thandeka MoyoDivision of Immunology, Department of Pathology, University of Cape Town, Cape Town, South Africa.ORCID http://orcid.org/0000-0002-4269-9281
Jeffrey R DorfmanDivision of Immunology, Department of Pathology, University of Cape Town, Cape Town, South Africa.ORCID http://orcid.org/0000-0001-9938-8911
Robert J WoodsComplex Carbohydrate Research Center, University of Georgia, Athens, Georgia, United States.
Simon A TraversSouth African Medical Research Council Bioinformatics Unit, South African National Bioinformatics Institute, University of the Western Cape, Cape Town, South Africa.
Natasha T WoodUniversity of Cape Town, UCT Computational Biology Group, Department of Integrated Biomedical Sciences, Institute of Infectious Disease and Molecular Medicine, Cape Town, South Africa. wood.natasha@gmail.com.

Funding

TR&D3. Approaches to Proteoglycan Function at Biochemical and Cellular LevelsP41GM103390 · NIGMS · UNIVERSITY OF GEORGIA · PI MOREMEN, KELLEY W. · 2012 to 2019
$14.5M
Tools to enable non-specialists to model glycoconjugates and glycan-protein interactionsU01CA207824 · NCI · UNIVERSITY OF GEORGIA · PI FOLEY, B. LACHELE, WOODS, ROBERT J · 2016 to 2018
$1.7M
NCI NIH HHS U01 CA207824NIGMS NIH HHS P41 GM103390
6 · The paper itself

Abstract

The HIV-1 envelope (Env) glycoprotein is the primary target of the humoral immune response and a critical vaccine candidate. However, Env is densely glycosylated and thereby substantially protected from neutralisation. Importantly, glycan N301 shields V3 loop and CD4 binding site epitopes from neutralising antibodies. Here, we use molecular dynamics techniques to evaluate the structural rearrangements that maintain the protective qualities of the glycan shield after the loss of glycan N301. We examined a naturally occurring subtype C isolate and its N301A mutant; the mutant not only remained protected against neutralising antibodies targeting underlying epitopes, but also exhibited an increased resistance to the VRC01 class of broadly neutralising antibodies. Analysis of this mutant revealed several glycans that were responsible, independently or through synergy, for the neutralisation resistance of the mutant. These data provide detailed insight into the glycan shield's ability to compensate for the loss of a glycan, as well as the cascade of glycan movements on a protomer, starting at the point mutation, that affects the integrity of an antibody epitope located at the edge of the diminishing effect. These results present key, previously overlooked, considerations for HIV-1 Env glycan research and related vaccine studies.

Indexed as

Antibodies, MonoclonalBinding SitesCD4 AntigensEpitopesGlycosylationHIV-1HIV AntibodiesHIV Envelope Protein gp120HIV InfectionsHIV SeropositivityHumansImmunity, HumoralPolysaccharidesProtein ConformationAntibodies, MonoclonalCD4 AntigensEpitopesHIV AntibodiesHIV Envelope Protein gp120Polysaccharides

Identifiers

PMID30302011
PMCPMC6177452

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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.