Evidence map›Paper›PMID 24347283›Full record

ArticleProtein science : a publication of the Protein Society2014

Three-dimensional structure of a sugar N-formyltransferase from Francisella tularensis.

Alex L Zimmer, James B Thoden, Hazel M Holden

Open access · bronzeAbstract read
In one paragraph

Article in Protein science : a publication of the Protein Society, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.

0numbers the graph read from it
0cells of the map it votes in
18citing papers in PubMed
0.9field-weighted citation impact, top 29% 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

18 citing papers in PubMed, 21 citations in OpenAlex.

  1. Mutation ofMicrobiology (Reading, England) · 2024
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  2. Article
  3. Review
  4. Article
  5. Biochemical analysis of a sugar 4,6-dehydratase from Acanthamoeba polyphaga Mimivirus.Protein science : a publication of the Protein Society · 2020
    Article
  6. Misannotations of the genes encoding sugar N-formyltransferases.Protein science : a publication of the Protein Society · 2020
    Article
  7. Investigation of a sugar N-formyltransferase from the plant pathogen Pantoea ananatis.Protein science : a publication of the Protein Society · 2019
    Article
  8. PvdF of pyoverdin biosynthesis is a structurally unique NArchives of biochemistry and biophysics · 2019
    Article
  9. Article
  10. Article
  11. Article
  12. Article
  13. Enzymes required for the biosynthesis of N-formylated sugars.Current opinion in structural biology · 2016
    Review
  14. Article
  15. Article
  16. Molecular structure of an N-formyltransferase from Providencia alcalifaciens O30.Protein science : a publication of the Protein Society · 2015
    Article
  17. Article
  18. Comparative review of Francisella tularensis and Francisella novicida.Frontiers in cellular and infection microbiology · 2014
    Review
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

3 authors at 1 institution in 1 country.

Alex L ZimmerDepartment of Biochemistry, University of Wisconsin, Madison, Wisconsin, 53706.
James B Thoden
Hazel M Holden
University of Wisconsin–Madison · US

Funding

X-ray Studies of Sugar-Modifying EnzymesR01DK047814 · NIDDK · UNIVERSITY OF WISCONSIN-MADISON · PI HOLDEN, HAZEL M. · 1994 to 2015
$4.3M
X-ray Studies of Sugar-Modifying EnzymesR56DK047814 · NIDDK · UNIVERSITY OF WISCONSIN-MADISON · PI HOLDEN, HAZEL · 2006 to 2006
$88k
NIDDK NIH HHS DK47814NIDDK NIH HHS R01 DK047814
6 · The paper itself

Abstract

N-formylated sugars have been observed on the O-antigens of such pathogenic Gram-negative bacteria as Campylobacter jejuni and Francisella tularensis. Until recently, however, little was known regarding the overall molecular architectures of the N-formyltransferases that are required for the biosynthesis of these unusual sugars. Here we demonstrate that the protein encoded by the wbtj gene from F. tularensis is an N-formyltransferase that functions on dTDP-4-amino-4,6-dideoxy-d-glucose as its substrate. The enzyme, hereafter referred to as WbtJ, demonstrates a strict requirement for N(10) -formyltetrahydrofolate as its carbon source. In addition to the kinetic analysis, the three-dimensional structure of the enzyme was solved in the presence of dTDP-sugar ligands to a nominal resolution of 2.1 Å. Each subunit of the dimeric enzyme is dominated by a "core" domain defined by Met 1 to Ser 185. This core motif harbors the active site residues. Following the core domain, the last 56 residues fold into two α-helices and a β-hairpin motif. The hairpin motif is responsible primarily for the subunit:subunit interface, which is characterized by a rather hydrophobic pocket. From the study presented here, it is now known that WbtJ functions on C-4' amino sugars. Another enzyme recently investigated in the laboratory, WlaRD, formylates only C-3' amino sugars. Strikingly, the quaternary structures of WbtJ and WlaRD are remarkably different. In addition, there are several significant variations in the side chains that line their active site pockets, which may be important for substrate specificity. Details concerning the kinetic and structural properties of WbtJ are presented.

Indexed as

Amino Acid MotifsBacterial ProteinsCatalytic DomainCrystallography, X-RayDeoxy SugarsFormyltetrahydrofolatesFrancisella tularensisHydroxymethyl and Formyl TransferasesModels, MolecularProtein Structure, QuaternaryProtein Structure, SecondaryProtein Structure, TertiarySubstrate SpecificityThymine NucleotidesBacterial ProteinsDeoxy SugarsdTDP-4-amino-4,6-dideoxy-glucoseFormyltetrahydrofolatesHydroxymethyl and Formyl TransferasesThymine Nucleotides4,6-dideoxy-4-formamido-d-glucosebacterial sugar biosynthesisformylated sugarslipopolysaccharideN-formyltransferaseO-antigenprotein structure

Identifiers

PMID24347283
PMCPMC3945835
OpenAlexW1828989278

What OpenQuestion holds

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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.