Evidence map›Paper›PMID 38553453›Full record

ArticleNature communications2024

Hairpin trimer transition state of amyloid fibril.

Levent Sari, Sofia Bali, Lukasz A Joachimiak, Milo M Lin

Abstract read
In one paragraph

Article in Nature communications, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.

0numbers the graph read from it
0cells of the map it votes in
12citing 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

12 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

4 authors.

Levent SariGreen Center for Systems Biology, University of Texas Southwestern Medical Center, Dallas, TX, USA.ORCID http://orcid.org/0000-0003-4622-1864
Sofia BaliMolecular Biophysics Graduate Program, University of Texas Southwestern Medical Center, Dallas, TX, USA.ORCID http://orcid.org/0000-0002-4046-7081
Lukasz A JoachimiakCenter for Alzheimer's and Neurodegenerative Diseases, Peter O'Donnell Jr. Brain Institute, University of Texas Southwestern Medical Center, Dallas, TX, USA.ORCID http://orcid.org/0000-0003-3061-5850
Milo M LinGreen Center for Systems Biology, University of Texas Southwestern Medical Center, Dallas, TX, USA. Milo.Lin@UTSouthwestern.edu.ORCID http://orcid.org/0000-0001-8680-2685

Funding

Discovering interpretable mechanisms explaining high dimensional biomolecular dataR35GM150897 · NIGMS · UT SOUTHWESTERN MEDICAL CENTER · PI Milo Lin · 2023 to 2026
$1.6M
Structural profiling of tauopathy seedsRF1AG076459 · NIA · UT SOUTHWESTERN MEDICAL CENTER · PI JOACHIMIAK, LUKASZ A. · 2023 to 2023
$1.2M
Inhibiting fibrillation of Tau through changes in local intramolecular interactionsF31NS127513 · NINDS · UT SOUTHWESTERN MEDICAL CENTER · PI BALI, SOFIA · 2022 to 2023
$77k
NIA NIH HHS RF1 AG076459NIGMS NIH HHS R35 GM150897NINDS NIH HHS F31 NS127513
6 · The paper itself

Abstract

Protein fibril self-assembly is a universal transition implicated in neurodegenerative diseases. Although fibril structure/growth are well characterized, fibril nucleation is poorly understood. Here, we use a computational-experimental approach to resolve fibril nucleation. We show that monomer hairpin content quantified from molecular dynamics simulations is predictive of experimental fibril formation kinetics across a tau motif mutant library. Hairpin trimers are predicted to be fibril transition states; one hairpin spontaneously converts into the cross-beta conformation, templating subsequent fibril growth. We designed a disulfide-linked dimer mimicking the transition state that catalyzes fibril formation, measured by ThT fluorescence and TEM, of wild-type motif - which does not normally fibrillize. A dimer compatible with extended conformations but not the transition-state fails to nucleate fibril at any concentration. Tau repeat domain simulations show how long-range interactions sequester this motif in a mutation-dependent manner. This work implies that different fibril morphologies could arise from disease-dependent hairpin seeding from different loci.

Indexed as

AmyloidMolecular Dynamics SimulationAmyloid beta-PeptidesProtein ConformationProtein Structure, SecondaryAmyloidAmyloid beta-Peptides

Identifiers

PMID38553453
PMCPMC10980705

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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.