Evidence map›Paper›PMID 20560796›Full record

ArticleAIDS research and human retroviruses2010

Structural conservation predominates over sequence variability in the crown of HIV type 1's V3 loop.

David Almond, Tetsuya Kimura, XiangPeng Kong, James Swetnam, Susan Zolla-Pazner, Timothy Cardozo

Abstract read
In one paragraph

Article in AIDS research and human retroviruses, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.

0numbers the graph read from it
0cells of the map it votes in
22citing 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

22 citing papers in PubMed.

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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.

David AlmondDepartment of Pharmacology, New York University School of Medicine (NYUSoM), New York, New York 10016, USA.
Tetsuya Kimura
XiangPeng Kong
James Swetnam
Susan Zolla-Pazner
Timothy Cardozo

Funding

Structure-Based Characterization of gp120 Non-V3 Variable Loop EpitopesR01AI084119 · NIAID · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI CARDOZO, TIMOTHY J, KONG, XIANGPENG · 2009 to 2014
$3.2M
NIAID NIH HHS R01 AI084119PHS HHS DPOD004631PHS HHS R01A1084119
6 · The paper itself

Abstract

The diversity of HIV-1 is a confounding problem for vaccine design, as the human immune response appears to favor poor or strain-specific responses to any given HIV-1 virus strain. A significant portion of this diversity is manifested as sequence variability in the loops of HIV-1's surface envelope glycoprotein. Here we show that the most variable sequence positions in the third variable (V3) loop crown cluster to a small zone on the surface of one face of the V3 loop ss-hairpin conformation. These results provide a novel visualization of the gp120 V3 loop, specifically demonstrating a surprising preponderance of conserved three-dimensional structure in a highly sequence-variable region. From a structural point of view, there appears to be less diversity in this region of the HIV-1 "principle neutralizing domain" than previously appreciated.

Indexed as

Conserved SequenceGenetic VariationHIV-1HIV Envelope Protein gp120HIV InfectionsHumansModels, MolecularMutagenesis, Site-DirectedProtein Structure, Tertiarygp120 protein, Human immunodeficiency virus 1HIV Envelope Protein gp120

Identifiers

PMID20560796
PMCPMC2932551

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.