Evidence map›Paper›PMID 28000660›Full record

ArticleNature communications2016

A crotonyl-CoA reductase-carboxylase independent pathway for assembly of unusual alkylmalonyl-CoA polyketide synthase extender units.

Lauren Ray, Timothy R Valentic, Takeshi Miyazawa, David M Withall, Lijiang Song, Jacob C Milligan, Hiroyuki Osada, Shunji Takahashi, Shiou-Chuan Tsai, Gregory L Challis

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.

0numbers the graph read from it
0cells of the map it votes in
13citing papers in PubMed
3.1field-weighted citation impact, top 9% of its field
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

13 citing papers in PubMed, 31 citations in OpenAlex.

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  8. Development of a Pantetheine Force Field Library for Molecular Modeling.Journal of chemical information and modeling · 2021
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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

10 authors at 4 institutions in 3 countries.

Lauren RayDepartment of Chemistry, University of Warwick, Coventry CV4 7AL, UK.
Timothy R ValenticDepartments of Molecular Biology and Biochemistry, Chemistry, and Pharmaceutical Sciences, University of California, Irvine, California 92697, USA.
Takeshi MiyazawaChemical Biology Research Group, RIKEN Center for Sustainable Resource Science, Saitama 351-0198, Japan.
David M WithallDepartment of Chemistry, University of Warwick, Coventry CV4 7AL, UK.
Lijiang SongDepartment of Chemistry, University of Warwick, Coventry CV4 7AL, UK.
Jacob C MilliganDepartments of Molecular Biology and Biochemistry, Chemistry, and Pharmaceutical Sciences, University of California, Irvine, California 92697, USA.
Hiroyuki OsadaChemical Biology Research Group, RIKEN Center for Sustainable Resource Science, Saitama 351-0198, Japan.
Shunji TakahashiChemical Biology Research Group, RIKEN Center for Sustainable Resource Science, Saitama 351-0198, Japan.
Shiou-Chuan TsaiDepartments of Molecular Biology and Biochemistry, Chemistry, and Pharmaceutical Sciences, University of California, Irvine, California 92697, USA.
Gregory L ChallisDepartment of Chemistry, University of Warwick, Coventry CV4 7AL, UK.
University of Warwick · GBUniversity of California, Irvine · USSaitama University · JPRIKEN Center for Sustainable Resource Science · JP

Funding

The Molecular Basis of Regio-Specificity in Fungal Polyketide SynthaseR01GM100305 · NIGMS · UNIVERSITY OF CALIFORNIA-IRVINE · PI BURKART, MICHAEL D., TSAI, SHIOU-CHUAN · 2012 to 2015
$1.6M
The Ketoreduction and Cyclization of Aromatic Polyketide BiosynthesisR01GM076330 · NIGMS · UNIVERSITY OF CALIFORNIA-IRVINE · PI TSAI, SHIOU-CHUAN · 2007 to 2011
$1.3M
NIGMS NIH HHS R01 GM076330NIGMS NIH HHS R01 GM100305
6 · The paper itself

Abstract

Type I modular polyketide synthases assemble diverse bioactive natural products. Such multienzymes typically use malonyl and methylmalonyl-CoA building blocks for polyketide chain assembly. However, in several cases more exotic alkylmalonyl-CoA extender units are also known to be incorporated. In all examples studied to date, such unusual extender units are biosynthesized via reductive carboxylation of α, β-unsaturated thioesters catalysed by crotonyl-CoA reductase/carboxylase (CCRC) homologues. Here we show using a chemically-synthesized deuterium-labelled mechanistic probe, and heterologous gene expression experiments that the unusual alkylmalonyl-CoA extender units incorporated into the stambomycin family of polyketide antibiotics are assembled by direct carboxylation of medium chain acyl-CoA thioesters. X-ray crystal structures of the unusual β-subunit of the acyl-CoA carboxylase (YCC) responsible for this reaction, alone and in complex with hexanoyl-CoA, reveal the molecular basis for substrate recognition, inspiring the development of methodology for polyketide bio-orthogonal tagging via incorporation of 6-azidohexanoic acid and 8-nonynoic acid into novel stambomycin analogues.

Indexed as

Acyl-CoA DehydrogenasesAcyl Coenzyme AAmino Acid SequenceBacterial ProteinsCarbon-Carbon LigasesCrystallography, X-RayModels, MolecularMolecular StructurePolyketidesPolyketide SynthasesProtein ConformationSequence Homology, Amino AcidStreptomycesSubstrate Specificityacyl-CoA carboxylaseacyl-CoA dehydrogenase (NADP+)Acyl-CoA DehydrogenasesAcyl Coenzyme ABacterial ProteinsCarbon-Carbon Ligasesmethylmalonyl-coenzyme APolyketidesPolyketide Synthases

Identifiers

PMID28000660
PMCPMC5187497
OpenAlexW2564750092

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

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.