Evidence map›Paper›PMID 41115907›Full record

ArticleNature communications2025

Large protein-like leader peptides engage differently with RiPP halogenases and lanthionine synthetases.

Fnu Vidya, Youran Luo, Hongwei Wu, Wilfred A van der Donk, Andrew C McShan, Vinayak Agarwal

Abstract read
In one paragraph

Article in Nature communications, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing 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

4 citing papers in PubMed.

  1. Article
  2. Article
  3. Peptide Prenylation Follows Divergent Substrate Engagement Rules.Journal of the American Chemical Society · 2025
    Article
  4. Article
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

6 authors.

Fnu VidyaSchool of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA, USA.
Youran LuoDepartment of Chemistry and Howard Hughes Medical Institute, University of Illinois at Urbana-Champaign, Urbana, IL, USA.
Hongwei WuSchool of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA, USA.ORCID http://orcid.org/0000-0002-8687-3843
Wilfred A van der DonkDepartment of Chemistry and Howard Hughes Medical Institute, University of Illinois at Urbana-Champaign, Urbana, IL, USA.ORCID http://orcid.org/0000-0002-5467-7071
Andrew C McShanSchool of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA, USA. andrew.mcshan@chemistry.gatech.edu.ORCID http://orcid.org/0000-0002-3212-9867
Vinayak AgarwalSchool of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA, USA. vagarwal@gatech.edu.ORCID http://orcid.org/0000-0002-2517-589X

Funding

Posttranslational Modifications during Natural Product BiosynthesisR37GM058822 · NIGMS · UNIVERSITY OF ILLINOIS AT URBANA-CHAMPAIGN · PI VAN DER DONK, WILFRED A. · 2016 to 2025
$2.9M
Halogenation Biochemistry in Human and Environmental HealthR35GM142882 · NIGMS · GEORGIA INSTITUTE OF TECHNOLOGY · PI AGARWAL, VINAYAK · 2021 to 2025
$1.9M
NIGMS NIH HHS R35 GM142882NIGMS NIH HHS R37 GM058822U.S. Department of Health & Human Services | NIH | National Institute of General Medical Sciences (NIGMS) R35GM142882U.S. Department of Health & Human Services | NIH | National Institute of General Medical Sciences (NIGMS) R37GM058822
6 · The paper itself

Abstract

The biosynthesis of ribosomally synthesized and post-translationally modified peptides (RiPPs) involves binding of the N-terminal leader region of precursor peptides to peptide-modifying enzymes and subsequent modification of the C-terminal core. Canonical RiPP leaders are short and unstructured. However, atypical RiPP leaders called nitrile hydratase-like leader peptides (NHLPs) are longer and structured. The sequence and structural divergence dictate that the NHLPs engage with peptide modifying enzymes using binding modes that are distinct from that for the canonical short leader peptides. Here, we investigate the molecular basis of NHLP engagement with class II lanthionine synthetases (LanMs). Using genome mining, we identify a LanM that is selective for the NHLP while modifying diverse core peptides. The solution NMR structure of the NHLP reveals a rigid tertiary fold. Biochemically verified computational models support a bimodal mechanism for NHLP binding to LanMs. Findings developed here illuminate unique protein-protein interaction modalities that guide RiPP biosynthesis.

Indexed as

Bacterial ProteinsHydro-LyasesLigasesPeptidesProtein Processing, Post-TranslationalAlanineAmino Acid SequenceModels, MolecularProtein BindingRibosomesSulfidesAlanineBacterial ProteinsHydro-LyaseslanthionineLigasesnitrile hydratasePeptidesSulfides

Identifiers

PMID41115907
PMCPMC12537861

What OpenQuestion holds

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LicenceCC BY-NC-ND
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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.