Evidence map›Paper›PMID 24117400›Full record

ArticleACS chemical biology2014

Structural basis of the promiscuous inhibitor susceptibility of Escherichia coli LpxC.

Chul-Jin Lee, Xiaofei Liang, Ramesh Gopalaswamy, Javaria Najeeb, Eugene D Ark, Eric J Toone, Pei Zhou

Abstract read
In one paragraph

Article in ACS chemical biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.

0numbers the graph read from it
0cells of the map it votes in
20citing papers in PubMed
2.0field-weighted citation impact, top 15% 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

20 citing papers in PubMed, 32 citations in OpenAlex.

  1. Article
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  9. Review
  10. Article
  11. Structural basis of the UDP-diacylglucosamine pyrophosphohydrolase LpxH inhibition by sulfonyl piperazine antibiotics.Proceedings of the National Academy of Sciences of the United States of America · 2020
    Article
  12. Article
  13. Structure, inhibition, and regulation of essential lipid A enzymes.Biochimica et biophysica acta. Molecular and cell biology of lipids · 2017
    Review
  14. Article
  15. Article
  16. Review
  17. Review
  18. Article
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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

7 authors at 4 institutions in 1 country.

Chul-Jin LeeDepartment of Biochemistry, Duke University Medical Center , Durham, North Carolina 27710, United States.
Xiaofei Liang
Ramesh Gopalaswamy
Javaria Najeeb
Eugene D Ark
Eric J Toone
Pei Zhou
Duke University · USDuke Medical Center · USDuke University Hospital · USTrinity College · US

Funding

Women's Cancer Research ProgramP30CA014236 · NCI · DUKE UNIVERSITY · PI DONNA NIEDZWIECKI · 1985 to 2026
$174.8M
BIOSYNTHESIS AND FUNCTION OF LIPOPOLYSACCHARIDESR01GM051310 · NIGMS · DUKE UNIVERSITY · PI ZHOU, PEI · 1994 to 2013
$8.1M
Structure and Mechanism of LpxC in Lipid A BiosynthesisR01AI055588 · NIAID · DUKE UNIVERSITY · PI ZHOU, PEI · 2003 to 2012
$3.0M
NCI NIH HHS P30 CA014236NIAID NIH HHS AI055588NIAID NIH HHS R01 AI055588NIGMS NIH HHS GM-51310NIGMS NIH HHS R01 GM051310
6 · The paper itself

Abstract

The LpxC enzyme in the lipid A biosynthetic pathway is one of the most promising and clinically unexploited antibiotic targets for treatment of multidrug-resistant Gram-negative infections. Progress in medicinal chemistry has led to the discovery of potent LpxC inhibitors with a variety of chemical scaffolds and distinct antibiotic profiles. The vast majority of these compounds, including the nanomolar inhibitors L-161,240 and BB-78485, are highly effective in suppressing the activity of Escherichia coli LpxC (EcLpxC) but not divergent orthologs such as Pseudomonas aeruginosa LpxC (PaLpxC) in vitro. The molecular basis for such promiscuous inhibition of EcLpxC has remained poorly understood. Here, we report the crystal structure of EcLpxC bound to L-161,240, providing the first molecular insight into L-161,240 inhibition. Additionally, structural analysis of the EcLpxC/L-161,240 complex together with the EcLpxC/BB-78485 complex reveals an unexpected backbone flipping of the Insert I βa-βb loop in EcLpxC in comparison with previously reported crystal structures of EcLpxC complexes with l-threonyl-hydroxamate-based broad-spectrum inhibitors. Such a conformational switch, which has only been observed in EcLpxC but not in divergent orthologs such as PaLpxC, results in expansion of the active site of EcLpxC, enabling it to accommodate LpxC inhibitors with a variety of head groups, including compounds containing single (R- or S-enantiomers) or double substitutions at the neighboring Cα atom of the hydroxamate warhead group. These results highlight the importance of understanding inherent conformational plasticity of target proteins in lead optimization.

Indexed as

AmidohydrolasesAnti-Bacterial AgentsCrystallography, X-RayEscherichia coliModels, MolecularNaphthalenesOxazolesProtein BindingProtein ConformationSulfonamidesAmidohydrolasesAnti-Bacterial AgentsBB-78485L 161240NaphthalenesOxazolesSulfonamidesUDP-3-O-acyl-N-acetylglucosamine deacetylase

Identifiers

PMID24117400
PMCPMC3947053
OpenAlexW2094228352

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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.