Evidence map›Paper›PMID 41959090›Full record

ArticlebioRxiv : the preprint server for biology2026

De novo Folding Mechanisms of Lasso Peptides.

Song Yin, Xuenan Mi, Susanna E Barrett, Douglas A Mitchell, Diwakar Shukla

Abstract readPreprint
In one paragraph

Article in bioRxiv : the preprint server for biology, 2026. 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

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

5 authors.

Song YinDepartment of Chemical and Biomolecular Engineering, University of Illinois Urbana-Champaign, Urbana, IL 61801, United States.ORCID 0009-0004-8169-9913
Xuenan MiCenter for Biophysics and Quantitative Biology, University of Illinois Urbana-Champaign, Urbana, IL 61801, United States.ORCID 0009-0001-5237-4712
Susanna E BarrettCarl. R Woese Institute for Genomic Biology, University of Illinois Urbana-Champaign, Urbana, IL 61801, United States.ORCID 0000-0003-3149-6654
Douglas A MitchellDepartment of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN 37232, United States.ORCID 0000-0002-9564-0953
Diwakar ShuklaDepartment of Chemical and Biomolecular Engineering, University of Illinois Urbana-Champaign, Urbana, IL 61801, United States.ORCID 0000-0003-4079-5381

Funding

Elucidating sequence, structural and dynamic basis of the functional regulation of membrane proteinsR35GM142745 · NIGMS · UNIVERSITY OF ILLINOIS AT URBANA-CHAMPAIGN · PI SHUKLA, DIWAKAR · 2021 to 2025
$1.8M
Discovery and Engineering of RiPP Natural ProductsR35GM158411 · NIGMS · VANDERBILT UNIVERSITY · PI Douglas Alan Mitchell · 2025 to 2026
$1.2M
Machine learning of time-series single-cell drug screening to elucidate HIV latency control mechanismsR21AI167693 · NIAID · UNIVERSITY OF ILLINOIS AT URBANA-CHAMPAIGN · PI SHUKLA, DIWAKAR · 2022 to 2023
$403k
NIAID NIH HHS R21 AI167693NIGMS NIH HHS R35 GM142745NIGMS NIH HHS R35 GM158411
6 · The paper itself

Abstract

Lasso peptides adopt a distinctive [1]rotaxane conformation, yet the principles governing the folding of this kinetically trapped structure have remained elusive. Here, we integrated extensive molecular dynamics simulations and deep learning to elucidate the

Indexed as

Deep LearningDe novo foldingLasso peptidesMacrocyclic peptidesMolecular dynamicsMulti-Ensemble Markov ModelsRiPP biosynthesis

Identifiers

PMID41959090
PMCPMC13060267

What OpenQuestion holds

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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.