Evidence map›Paper›PMID 26404402›Full record

ArticleNature communications2015

Antibodies to a conformational epitope on gp41 neutralize HIV-1 by destabilizing the Env spike.

Jeong Hyun Lee, Daniel P Leaman, Arthur S Kim, Alba Torrents de la Peña, Kwinten Sliepen, Anila Yasmeen, Ronald Derking, Alejandra Ramos, Steven W de Taeye, Gabriel Ozorowski and 10 more

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 73 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
73citing papers in PubMed, 1 pooled it
5.4field-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

73 citing papers in PubMed, 1 synthesis or guideline pooled it, 99 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. Trial
  3. Trial
  4. Article
  5. Priming of Multiple HIV Neutralizing B Cell Precursors in Humans.medRxiv : the preprint server for health sciences · 2026
    Article
  6. Article
  7. Article
  8. Article
  9. Article
  10. Review
  11. Review
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  14. Article
  15. Article
  16. Review
  17. Review
  18. Multi-perspectives and challenges in identifying B-cell epitopes.Protein science : a publication of the Protein Society · 2023
    Review
  19. Article
  20. Article

13 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

20 authors at 6 institutions in 2 countries.

Jeong Hyun LeeDepartment of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California 92037, USA.
Daniel P LeamanDepartment of Immunology and Microbial Science, The Scripps Research Institute, La Jolla, California 92037, USA.
Arthur S KimDepartment of Immunology and Microbial Science, The Scripps Research Institute, La Jolla, California 92037, USA.
Alba Torrents de la PeñaDepartment of Medicinal Microbiology, Academic Medical Center, 1105 AZ Amsterdam, The Netherlands.
Kwinten SliepenDepartment of Medicinal Microbiology, Academic Medical Center, 1105 AZ Amsterdam, The Netherlands.
Anila YasmeenWeill Medical College of Cornell University, New York, New York 10065, USA.
Ronald DerkingDepartment of Medicinal Microbiology, Academic Medical Center, 1105 AZ Amsterdam, The Netherlands.
Alejandra RamosInternational AIDS Vaccine Initiative Neutralizing Antibody Center and the Collaboration for AIDS Vaccine Discovery (CAVD), The Scripps Research Institute, La Jolla California 92037, USA.
Steven W de TaeyeDepartment of Medicinal Microbiology, Academic Medical Center, 1105 AZ Amsterdam, The Netherlands.
Gabriel OzorowskiDepartment of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California 92037, USA.
Florian KleinLaboratory of Molecular Immunology, The Rockefeller University, New York, New York 10065, USA.
Dennis R BurtonInternational AIDS Vaccine Initiative Neutralizing Antibody Center and the Collaboration for AIDS Vaccine Discovery (CAVD), The Scripps Research Institute, La Jolla California 92037, USA.
Michel C NussenzweigLaboratory of Molecular Immunology, The Rockefeller University, New York, New York 10065, USA.
Pascal PoignardInternational AIDS Vaccine Initiative Neutralizing Antibody Center and the Collaboration for AIDS Vaccine Discovery (CAVD), The Scripps Research Institute, La Jolla California 92037, USA.
John P MooreWeill Medical College of Cornell University, New York, New York 10065, USA.
Per Johan KlasseWeill Medical College of Cornell University, New York, New York 10065, USA.
Rogier W SandersDepartment of Medicinal Microbiology, Academic Medical Center, 1105 AZ Amsterdam, The Netherlands.
Michael B ZwickDepartment of Immunology and Microbial Science, The Scripps Research Institute, La Jolla, California 92037, USA.
Ian A WilsonDepartment of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California 92037, USA.
Andrew B WardDepartment of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California 92037, USA.
Scripps Research Institute · USAcademic Medical Center · NLCornell University · USHoward Hughes Medical Institute · USInternational AIDS Vaccine Initiative · USRockefeller University · US

Funding

Support Component D/Vaccine Discovery, Concept to ClinicUM1AI100663 · NIAID · SCRIPPS RESEARCH INSTITUTE, THE · PI BAROUCH, DAN H. · 2012 to 2018
$131.5M
Structure Determination Core at SSRLU54GM094586 · NIGMS · SCRIPPS RESEARCH INSTITUTE, THE · PI GODZIK, ADAM · 2010 to 2014
$40.1M
Structural studies of native-like SOSIP trimersP01AI110657 · NIAID · WEILL MEDICAL COLL OF CORNELL UNIV · PI MOORE, JOHN P · 2015 to 2024
$35.4M
Trimer Production and Immunogenicity TestingP01AI082362 · NIAID · WEILL MEDICAL COLL OF CORNELL UNIV · PI MOORE, JOHN P · 2009 to 2014
$16.0M
TRD #3: An automated and streamlined pipeline for in-situ molecular microscopyP41GM103310 · NIGMS · SCRIPPS RESEARCH INSTITUTE, THE · PI DE MARCO, ALEX, KIEFT, JEFFREY S · 2012 to 2021
$14.7M
WORKSHOPS AND TRAININGP41RR017573 · NCRR · SCRIPPS RESEARCH INSTITUTE, THE · PI CARRAGHER, BRIDGET OLIVIA · 2002 to 2011
$14.2M
NEUTRALIZATION OF PRIMARY HIV1 VIRUSESR37AI036082 · NIAID · WEILL MEDICAL COLL OF CORNELL UNIV · PI MOORE, JOHN P · 1998 to 2017
$7.0M
Structural Biology of HIV-1 Neutralizing Antibody Targets for Vaccine DesignR01AI084817 · NIAID · SCRIPPS RESEARCH INSTITUTE, THE · PI WILSON, IAN A · 2009 to 2013
$3.2M
Eliciting antibodies to probe native trimeric gp41 for HIV vaccine designR01AI114401 · NIAID · SCRIPPS RESEARCH INSTITUTE, THE · PI ZWICK, MICHAEL B · 2014 to 2018
$2.9M
Selecting HIV recombination libraries for stable Env trimer immunogensR01AI098602 · NIAID · SCRIPPS RESEARCH INSTITUTE, THE · PI ZWICK, MICHAEL B · 2012 to 2016
$2.6M
Structure and dynamics of native HIV-1 envelope trimersR56AI084817 · NIAID · SCRIPPS RESEARCH INSTITUTE, THE · PI WILSON, IAN A · 2015 to 2015
$593k
European Research Council 280829Howard Hughes Medical InstituteNCRR NIH HHS P41 RR017573NCRR NIH HHS RR017573NIAID NIH HHS P01 AI082362NIAID NIH HHS P01 AI110657NIAID NIH HHS R01 AI084817NIAID NIH HHS R01 AI098602NIAID NIH HHS R01 AI114401NIAID NIH HHS R37 AI036082NIAID NIH HHS R56 AI084817NIAID NIH HHS UM1 AI100663NIGMS NIH HHS NIH U54GM094586NIGMS NIH HHS P41 GM103310NIGMS NIH HHS U54 GM094586
6 · The paper itself

Abstract

The recent identification of three broadly neutralizing antibodies (bnAbs) against gp120-gp41 interface epitopes has expanded the targetable surface on the HIV-1 envelope glycoprotein (Env) trimer. By using biochemical, biophysical and computational methods, we map the previously unknown trimer epitopes of two related antibodies, 3BC315 and 3BC176. A cryo-EM reconstruction of a soluble Env trimer bound to 3BC315 Fab at 9.3 Å resolution reveals that the antibody binds between two gp41 protomers, and neutralizes the virus by accelerating trimer decay. In contrast, bnAb 35O22 binding to a partially overlapping quaternary epitope at the gp120-gp41 interface does not induce decay. A conserved gp41-proximal glycan at N88 was also shown to play a role in the binding kinetics of 3BC176 and 3BC315. Finally, our data suggest that the dynamic structure of the Env trimer influences exposure of bnAb epitopes.

Indexed as

Antibodies, NeutralizingComputer SimulationCryoelectron MicroscopyCrystallography, X-RayEpitope MappingEpitopesHEK293 CellsHIV-1HIV AntibodiesHIV Envelope Protein gp120HIV Envelope Protein gp41HumansImmunoglobulin Fab FragmentsImmunoglobulin GModels, MolecularProtein ConformationAntibodies, NeutralizingEpitopesHIV AntibodiesHIV Envelope Protein gp120HIV Envelope Protein gp41Immunoglobulin Fab FragmentsImmunoglobulin G

Identifiers

PMID26404402
PMCPMC4586043
OpenAlexW2259177282

What OpenQuestion holds

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LicenceCC BY
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.