Evidence map›Paper›PMID 25824639›Full record

ArticleNature communications2015

Structural basis for full-spectrum inhibition of translational functions on a tRNA synthetase.

Pengfei Fang, Xue Yu, Seung Jae Jeong, Adam Mirando, Kaige Chen, Xin Chen, Sunghoon Kim, Christopher S Francklyn, Min Guo

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.

0numbers the graph read from it
0cells of the map it votes in
46citing papers in PubMed
4.4field-weighted citation impact, top 5% 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

46 citing papers in PubMed, 89 citations in OpenAlex.

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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

9 authors at 3 institutions in 2 countries.

Pengfei FangDepartment of Cancer Biology, Scripps Research Institute, Scripps Florida, 130 Scripps Way, Jupiter, Florida 33458, USA.
Xue YuDepartment of Cancer Biology, Scripps Research Institute, Scripps Florida, 130 Scripps Way, Jupiter, Florida 33458, USA.
Seung Jae JeongMedicinal Bioconvergence Research Center, Seoul National University, Seoul 151-742, Korea.
Adam MirandoDepartment of Biochemistry, University of Vermont College of Medicine, 89 Beaumont Avenue, Burlington, Vermont 05405, USA.
Kaige ChenDepartment of Cancer Biology, Scripps Research Institute, Scripps Florida, 130 Scripps Way, Jupiter, Florida 33458, USA.
Xin ChenDepartment of Cancer Biology, Scripps Research Institute, Scripps Florida, 130 Scripps Way, Jupiter, Florida 33458, USA.
Sunghoon KimMedicinal Bioconvergence Research Center, Seoul National University, Seoul 151-742, Korea.
Christopher S FrancklynDepartment of Biochemistry, University of Vermont College of Medicine, 89 Beaumont Avenue, Burlington, Vermont 05405, USA.
Min GuoDepartment of Cancer Biology, Scripps Research Institute, Scripps Florida, 130 Scripps Way, Jupiter, Florida 33458, USA.
Scripps Research Institute · USSeoul National University · KRUniversity of Vermont · US

Funding

X-ray Absorption Spectroscopy (XAS) pp.711-759P41GM103393 · NIGMS · STANFORD UNIVERSITY · PI HODGSON, KEITH O · 2012 to 2019
$30.6M
Structure and Mechanism of Class II tRNA SynthetasesR01GM054899 · NIGMS · UNIVERSITY OF VERMONT &ST AGRIC COLLEGE · PI FRANCKLYN, CHRISTOPHER S · 1997 to 2017
$5.7M
ENVIRONMENTAL PATHOLOGY TRAINING PROGRAMT32ES007122 · NIEHS · UNIVERSITY OF VERMONT &ST AGRIC COLLEGE · PI VAN DER VLIET, ALBERT · 1985 to 2012
$4.2M
Structural and Functional Studies of LysRS in Mast Cell ActivationR01GM100136 · NIGMS · SCRIPPS FLORIDA · PI KODADEK, THOMAS J. · 2012 to 2016
$1.9M
Development of Assays for Inhibitors of LysRS in Mast Cell ActivationR01GM106134 · NIGMS · SCRIPPS FLORIDA · PI GUO, MIN · 2013 to 2015
$1.1M
NIEHS NIH HHS T32 ES007122NIEHS NIH HHS T32 ES007122-23NIGMS NIH HHS GM100136NIGMS NIH HHS GM106134NIGMS NIH HHS GM54899NIGMS NIH HHS P41 GM103393NIGMS NIH HHS P41GM103393NIGMS NIH HHS R01 GM054899NIGMS NIH HHS R01 GM100136NIGMS NIH HHS R01 GM106134
6 · The paper itself

Abstract

The polyketide natural product borrelidin displays antibacterial, antifungal, antimalarial, anticancer, insecticidal and herbicidal activities through the selective inhibition of threonyl-tRNA synthetase (ThrRS). How borrelidin simultaneously attenuates bacterial growth and suppresses a variety of infections in plants and animals is not known. Here we show, using X-ray crystal structures and functional analyses, that a single molecule of borrelidin simultaneously occupies four distinct subsites within the catalytic domain of bacterial and human ThrRSs. These include the three substrate-binding sites for amino acid, ATP and tRNA associated with aminoacylation, and a fourth 'orthogonal' subsite created as a consequence of binding. Thus, borrelidin competes with all three aminoacylation substrates, providing a potent and redundant mechanism to inhibit ThrRS during protein synthesis. These results highlight a surprising natural design to achieve the quadrivalent inhibition of translation through a highly conserved family of enzymes.

Indexed as

Transfer RNA AminoacylationAmino Acid SequenceBinding SitesCatalytic DomainCrystallography, X-RayEscherichia coliEscherichia coli ProteinsFatty AlcoholsHumansOrganisms, Genetically ModifiedThreonine-tRNA LigaseYeastsborrelidinEscherichia coli ProteinsFatty AlcoholsThreonine-tRNA Ligase

Identifiers

PMID25824639
PMCPMC4389257
OpenAlexW2106528306

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.