Evidence map›Paper›PMID 33947858›Full record

ArticleNature communications2021

Structures of a non-ribosomal peptide synthetase condensation domain suggest the basis of substrate selectivity.

Thierry Izoré, Y T Candace Ho, Joe A Kaczmarski, Athina Gavriilidou, Ka Ho Chow, David L Steer, Robert J A Goode, Ralf B Schittenhelm, Julien Tailhades, Manuela Tosin and 5 more

Abstract read
In one paragraph

Article in Nature communications, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.

0numbers the graph read from it
0cells of the map it votes in
37citing 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

37 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

15 authors.

Thierry Izoré *Department of Biochemistry and Molecular Biology, The Monash Biomedicine Discovery Institute, Monash University, Clayton, VIC, Australia. thierry.izore@monash.edu.
Y T Candace Ho *Department of Biochemistry and Molecular Biology, The Monash Biomedicine Discovery Institute, Monash University, Clayton, VIC, Australia.
Joe A KaczmarskiResearch School of Chemistry, The Australian National University, Acton, ACT, Australia.ORCID 0000-0001-8549-0122
Athina GavriilidouInterfaculty Institute of Microbiology and Infection Medicine Tübingen, Microbiology/Biotechnology, University of Tübingen, Tübingen, Germany.
Ka Ho ChowSchool of Chemistry and Molecular Biosciences, The University of Queensland, St Lucia, QLD, Australia.
David L SteerDepartment of Biochemistry and Molecular Biology, The Monash Biomedicine Discovery Institute, Monash University, Clayton, VIC, Australia.
Robert J A GoodeDepartment of Biochemistry and Molecular Biology, The Monash Biomedicine Discovery Institute, Monash University, Clayton, VIC, Australia.ORCID 0000-0002-3028-8928
Ralf B SchittenhelmDepartment of Biochemistry and Molecular Biology, The Monash Biomedicine Discovery Institute, Monash University, Clayton, VIC, Australia.ORCID 0000-0001-8738-1878
Julien TailhadesDepartment of Biochemistry and Molecular Biology, The Monash Biomedicine Discovery Institute, Monash University, Clayton, VIC, Australia.
Manuela TosinDepartment of Chemistry, University of Warwick, Coventry, UK.
Gregory L ChallisDepartment of Biochemistry and Molecular Biology, The Monash Biomedicine Discovery Institute, Monash University, Clayton, VIC, Australia.ORCID 0000-0001-5976-3545
Elizabeth H KrenskeSchool of Chemistry and Molecular Biosciences, The University of Queensland, St Lucia, QLD, Australia.ORCID 0000-0003-1911-0501
Nadine ZiemertGerman Centre for Infection Research (DZIF), Partnersite Tübingen, Tübingen, Germany.ORCID 0000-0002-7264-1857
Colin J JacksonARC Centre of Excellence for Innovations in Peptide and Protein Science, Clayton, VIC, Australia.ORCID 0000-0001-6150-3822
Max J CryleDepartment of Biochemistry and Molecular Biology, The Monash Biomedicine Discovery Institute, Monash University, Clayton, VIC, Australia. max.cryle@monash.edu.ORCID 0000-0002-9739-6157

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Non-ribosomal peptide synthetases are important enzymes for the assembly of complex peptide natural products. Within these multi-modular assembly lines, condensation domains perform the central function of chain assembly, typically by forming a peptide bond between two peptidyl carrier protein (PCP)-bound substrates. In this work, we report structural snapshots of a condensation domain in complex with an aminoacyl-PCP acceptor substrate. These structures allow the identification of a mechanism that controls access of acceptor substrates to the active site in condensation domains. The structures of this complex also allow us to demonstrate that condensation domain active sites do not contain a distinct pocket to select the side chain of the acceptor substrate during peptide assembly but that residues within the active site motif can instead serve to tune the selectivity of these central biosynthetic domains.

Indexed as

Catalytic DomainAmino AcidsAmino Acid SequenceChromatography, High Pressure LiquidCoenzyme ACrystallography, X-RayGene ExpressionModels, MolecularMolecular Docking SimulationMolecular Dynamics SimulationMutationPeptidesPeptide SynthasesProtein DomainsProtein Structure, TertiarySequence AlignmentAmino AcidsCoenzyme Anon-ribosomal peptide synthasePeptidesPeptide SynthasesSiderophores

Identifiers

PMID33947858
PMCPMC8097023

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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.