Evidence map›Paper›PMID 19483088›Full record

ArticleThe Journal of biological chemistry2009

Structural and functional analysis of Campylobacter jejuni PseG: a udp-sugar hydrolase from the pseudaminic acid biosynthetic pathway.

Erumbi S Rangarajan, Ariane Proteau, Qizhi Cui, Susan M Logan, Zhanna Potetinova, Dennis Whitfield, Enrico O Purisima, Miroslaw Cygler, Allan Matte, Traian Sulea and 1 more

Open access · hybridAbstract read
In one paragraph

Article in The Journal of biological chemistry, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.

0numbers the graph read from it
0cells of the map it votes in
10citing papers in PubMed
0.4field-weighted citation impact, top 37% 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

10 citing papers in PubMed, 24 citations in OpenAlex.

  1. Article
  2. ThemBio · 2020
    Article
  3. Review
  4. Article
  5. Article
  6. Review
  7. Article
  8. Article
  9. Carbohydrate force fields.Wiley interdisciplinary reviews. Computational molecular science · 2012
    Article
  10. Variability in docking success rates due to dataset preparation.Journal of computer-aided molecular design · 2012
    Article
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

11 authors at 4 institutions in 2 countries.

Erumbi S RangarajanDepartment of Biochemistry, McGill University, Montreal, Quebec H3G 1V6, Canada.
Ariane Proteau
Qizhi Cui
Susan M Logan
Zhanna Potetinova
Dennis Whitfield
Enrico O Purisima
Miroslaw Cygler
Allan Matte
Traian Sulea
Ian C Schoenhofen
Institute for Biological Sciences · CANational Academies of Sciences, Engineering, and Medicine · USBiotechnology Research Institute · CAMcGill University · CA

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Flagella of the bacteria Helicobacter pylori and Campylobacter jejuni are important virulence determinants, whose proper assembly and function are dependent upon glycosylation at multiple positions by sialic acid-like sugars, such as 5,7-diacetamido-3,5,7,9-tetradeoxy-l-glycero-l-manno-nonulosonic acid (pseudaminic acid (Pse)). The fourth enzymatic step in the pseudaminic acid pathway, the hydrolysis of UDP-2,4-diacetamido-2,4,6-trideoxy-beta-l-altropyranose to generate 2,4-diacetamido-2,4,6-trideoxy-l-altropyranose, is performed by the nucleotide sugar hydrolase PseG. To better understand the molecular basis of the PseG catalytic reaction, we have determined the crystal structures of C. jejuni PseG in apo-form and as a complex with its UDP product at 1.8 and 1.85 A resolution, respectively. In addition, molecular modeling was utilized to provide insight into the structure of the PseG-substrate complex. This modeling identifies a His(17)-coordinated water molecule as the putative nucleophile and suggests the UDP-sugar substrate adopts a twist-boat conformation upon binding to PseG, enhancing the exposure of the anomeric bond cleaved and favoring inversion at C-1. Furthermore, based on these structures a series of amino acid substitution derivatives were constructed, altering residues within the active site, and each was kinetically characterized to examine its contribution to PseG catalysis. In conjunction with structural comparisons, the almost complete inactivation of the PseG H17F and H17L derivatives suggests that His(17) functions as an active site base, thereby activating the nucleophilic water molecule for attack of the anomeric C-O bond of the UDP-sugar. As the PseG structure reveals similarity to those of glycosyltransferase family-28 members, in particular that of Escherichia coli MurG, these findings may also be of relevance for the mechanistic understanding of this important enzyme family.

Indexed as

Biosynthetic PathwaysBacterial Outer Membrane ProteinsBinding SitesBiocatalysisCampylobacter jejuniComputer SimulationCrystallography, X-RayHelicobacter pyloriKineticsModels, MolecularMutant ProteinsN-AcetylglucosaminyltransferasesPhosphoric Monoester HydrolasesProtein Structure, SecondarySequence Homology, Amino AcidStructure-Activity Relationship5,7-diacetamido-3,5,7,9-tetradeoxynonulosonic acidBacterial Outer Membrane ProteinsMutant ProteinsN-AcetylglucosaminyltransferasesPhosphoric Monoester HydrolasesSugar AcidsUDP-2,4-diacetamido-2,4,6-trideoxy-L-altrose hydrolase, Campylobacter jejuniUDP-N-acetylglucosamine-N-acetylmuramyl-(pentapeptide)pyrophosphoryl-undecaprenol N-acetylglucosamine transferaseUridine Diphosphate Sugars

Identifiers

PMID19483088
PMCPMC2742864
OpenAlexW2027535553

What OpenQuestion holds

Textmetadata
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.