Evidence map›Paper›PMID 40060702›Full record

ArticlebioRxiv : the preprint server for biology2025

Structural Plasticity of RRE Stem-Loop II Modulates Nuclear Export of HIV-1 RNA.

Manju Ojha, Lucia Hudson, Amanda Photenhauer, Trinity Zang, Lauren Lerew, Şölen Ekesan, Jason Daniels, Megan Nguyen, Hardik Paudyal, Darrin M York and 4 more

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

14 authors.

Manju OjhaDepartment of Chemistry and Biochemistry, University of Maryland Baltimore County; Baltimore, MD, USA.
Lucia HudsonDepartment of Chemistry and Biochemistry, University of Maryland Baltimore County; Baltimore, MD, USA.
Amanda PhotenhauerLife Sciences Institute, University of Michigan; Ann Arbor, MI, USA.
Trinity ZangLaboratory of Retrovirology, The Rockefeller University, New York, NY, USA.
Lauren LerewDepartment of Chemistry and Chemical Biology, Laboratory for Biomolecular Simulation Research, and Institute for Quantitative Biomedicine, Rutgers University; Piscataway, NJ, USA.
Şölen EkesanDepartment of Chemistry and Chemical Biology, Laboratory for Biomolecular Simulation Research, and Institute for Quantitative Biomedicine, Rutgers University; Piscataway, NJ, USA.
Jason DanielsDepartment of Chemistry and Biochemistry, University of Maryland Baltimore County; Baltimore, MD, USA.
Megan NguyenDepartment of Chemistry and Biochemistry, University of Maryland Baltimore County; Baltimore, MD, USA.
Hardik PaudyalDepartment of Chemistry and Biochemistry, University of Maryland Baltimore County; Baltimore, MD, USA.
Darrin M YorkDepartment of Chemistry and Chemical Biology, Laboratory for Biomolecular Simulation Research, and Institute for Quantitative Biomedicine, Rutgers University; Piscataway, NJ, USA.
Melanie D OhiLife Sciences Institute, University of Michigan; Ann Arbor, MI, USA.
Jan MarchantDepartment of Chemistry and Biochemistry, University of Maryland Baltimore County; Baltimore, MD, USA.
Paul D BieniaszLaboratory of Retrovirology, The Rockefeller University, New York, NY, USA.
Deepak KoiralaDepartment of Chemistry and Biochemistry, University of Maryland Baltimore County; Baltimore, MD, USA.ORCID 0000-0001-6424-3173

Funding

X-ray Scattering Technology CoreP30GM133893 · NIGMS · BROOKHAVEN SCIENCE ASSOC-BROOKHAVEN LAB · PI Vivian Stojanoff · 2019 to 2026
$38.6M
Center for Structural Biology of HIV RNAU54AI170660 · NIAID · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI ALICE TELESNITSKY · 2022 to 2026
$32.1M
Multi-Scale Quantum Models for Ribozyme CatalysisR01GM062248 · NIGMS · UNIVERSITY OF MINNESOTA TWIN CITIES · PI Darrin M York · 2001 to 2026
$7.1M
Graduate Training at The Chemistry Biology InterfaceT32GM066706 · NIGMS · UNIVERSITY OF MARYLAND BALTIMORE COUNTY · PI SELEY-RADTKE, KATHERINE L, SMITH, AARON T · 2004 to 2023
$3.3M
NIAID NIH HHS U54 AI170660NIGMS NIH HHS P30 GM133893NIGMS NIH HHS R01 GM062248NIGMS NIH HHS T32 GM066706
6 · The paper itself

Abstract

The Rev Response Element (RRE) forms an oligomeric complex with the viral protein Rev to facilitate the nuclear export of intron-retaining viral RNAs during the late phase of HIV-1 infection. However, our structural understanding of this crucial virological process remains limited. In this study, we determined several crystal structures of an intact RRE stem-loop II in two distinct conformations, performed negative-staining electron microscopy and molecular dynamics simulations, and revealed that this three-way junction RNA exhibits remarkable structural plasticity. Through

Identifiers

PMID40060702
PMCPMC11888186

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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.