Evidence map›Paper›PMID 37620323›Full record

ArticleNature communications2023

Molecular architecture and conservation of an immature human endogenous retrovirus.

Anna-Sophia Krebs, Hsuan-Fu Liu, Ye Zhou, Juan S Rey, Lev Levintov, Juan Shen, Andrew Howe, Juan R Perilla, Alberto Bartesaghi, Peijun Zhang

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
13citing papers in PubMed, 1 pooled it
5.6field-weighted citation impact, top 5% 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

13 citing papers in PubMed, 1 synthesis or guideline pooled it, 14 citations in OpenAlex.

  1. Pooled it
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  13. Cryo-electron tomography to study viral infection.Biochemical Society transactions · 2023
    Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

10 authors at 4 institutions in 3 countries.

Anna-Sophia Krebs *Division of Structural Biology, Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, OX3 7BN, UK.ORCID http://orcid.org/0000-0001-6244-9899
Hsuan-Fu Liu *Department of Biochemistry, Duke University School of Medicine, Durham, NC, 27710, USA.ORCID http://orcid.org/0000-0001-9302-7648
Ye Zhou *Department of Computer Science, Duke University, Durham, NC, 27708, USA.ORCID http://orcid.org/0000-0002-0489-3614
Juan S ReyDepartment of Chemistry and Biochemistry, University of Delaware, Newark, DE, 19716, USA.ORCID http://orcid.org/0000-0003-2274-3748
Lev LevintovDepartment of Chemistry and Biochemistry, University of Delaware, Newark, DE, 19716, USA.
Juan ShenDivision of Structural Biology, Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, OX3 7BN, UK.
Andrew HoweDiamond Light Source, Harwell Science and Innovation Campus, Didcot, OX11 0DE, UK.ORCID http://orcid.org/0000-0003-2187-7672
Juan R PerillaDepartment of Chemistry and Biochemistry, University of Delaware, Newark, DE, 19716, USA. jperilla@udel.edu.ORCID http://orcid.org/0000-0003-1171-6816
Alberto BartesaghiDepartment of Biochemistry, Duke University School of Medicine, Durham, NC, 27710, USA. alberto.bartesaghi@duke.edu.
Peijun ZhangDivision of Structural Biology, Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, OX3 7BN, UK. peijun.zhang@strubi.ox.ac.uk.ORCID http://orcid.org/0000-0003-1803-691X
Centre for Human Genetics · GBDuke University · USUniversity of Delaware · USDiamond Light Source · GB

Funding

Project 3. IntegrationU54AI170791 · NIAID · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI Peter Cherepanov · 2022 to 2026
$30.6M
Mechanisms and Consequences of Reverse Transcription in HIV-1 CoresR01AI157843 · NIAID · VANDERBILT UNIVERSITY MEDICAL CENTER · PI AIKEN, CHRISTOPHER R · 2021 to 2024
$2.8M
A Computational Platform for In-Situ Structure Determination at Near-Atomic Resolution using Cryo-Electron TomographyR01GM141223 · NIGMS · DUKE UNIVERSITY · PI BARTESAGHI, ALBERTO · 2021 to 2024
$1.5M
NIAID NIH HHS R01 AI157843NIAID NIH HHS U54 AI170791NIGMS NIH HHS R01 GM141223Wellcome Trust
6 · The paper itself

Abstract

The human endogenous retrovirus K (HERV-K) is the most recently acquired endogenous retrovirus in the human genome and is activated and expressed in many cancers and amyotrophic lateral sclerosis. We present the immature HERV-K capsid structure at 3.2 Å resolution determined from native virus-like particles using cryo-electron tomography and subtomogram averaging. The structure shows a hexamer unit oligomerized through a 6-helix bundle, which is stabilized by a small molecule analogous to IP6 in immature HIV-1 capsid. The HERV-K immature lattice is assembled via highly conserved dimer and trimer interfaces, as detailed through all-atom molecular dynamics simulations and supported by mutational studies. A large conformational change mediated by the linker between the N-terminal and the C-terminal domains of CA occurs during HERV-K maturation. Comparison between HERV-K and other retroviral immature capsid structures reveals a highly conserved mechanism for the assembly and maturation of retroviruses across genera and evolutionary time.

Indexed as

Amyotrophic Lateral SclerosisEndogenous RetrovirusesBiological EvolutionCapsidCapsid ProteinsHumansCapsid Proteins

Identifiers

PMID37620323
PMCPMC10449913
OpenAlexW4386126739

What OpenQuestion holds

Textmetadata
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.