Evidence map›Paper›PMID 25172507›Full record

ArticleThe Journal of biological chemistry2014

Crystal structure of the ectoine hydroxylase, a snapshot of the active site.

Astrid Höppner, Nils Widderich, Michael Lenders, Erhard Bremer, Sander H J Smits

Open access · hybridAbstract read
In one paragraph

Article in The Journal of biological chemistry, 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
1.8field-weighted citation impact, top 17% 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, 38 citations in OpenAlex.

  1. Article
  2. Article
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  4. Genome analysis of the salt-resistant Paludifilum halophilum DSM 102817World journal of microbiology & biotechnology · 2021
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  17. Divergent non-heme iron enzymes in the nogalamycin biosynthetic pathway.Proceedings of the National Academy of Sciences of the United States of America · 2016
    Article
  18. Review
  19. Article
  20. 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

5 authors at 3 institutions in 1 country.

Astrid HöppnerFrom the X-ray Facility and Crystal Farm, Heinrich-Heine-University at Düsseldorf, D-40225 Düsseldorf.
Nils Widderichthe Department of Biology, Laboratory for Microbiology, Philipps-University at Marburg, D-35043 Marburg, the Max Planck Institute for Terrestrial Microbiology, Emeritus Group R. K. Thauer, D-35043 Marburg.
Michael Lendersthe Institute of Biochemistry, Heinrich-Heine-University at Düsseldorf, D-40225 Düsseldorf, and.
Erhard Bremerthe Department of Biology, Laboratory for Microbiology, Philipps-University at Marburg, D-35043 Marburg, the LOEWE-Center for Synthetic Microbiology, Philipps-University at Marburg, D-35043 Marburg, Germany bremer@staff.uni-marburg.de.
Sander H J Smitsthe Institute of Biochemistry, Heinrich-Heine-University at Düsseldorf, D-40225 Düsseldorf, and Sander.Smits@hhu.de.
Heinrich Heine University Düsseldorf · DELoewe Center for Synthetic Microbiology · DEMax Planck Institute for Terrestrial Microbiology · DE

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Ectoine and its derivative 5-hydroxyectoine are compatible solutes that are widely synthesized by bacteria to cope physiologically with osmotic stress. They also serve as chemical chaperones and maintain the functionality of macromolecules. 5-Hydroxyectoine is produced from ectoine through a stereo-specific hydroxylation, an enzymatic reaction catalyzed by the ectoine hydroxylase (EctD). The EctD protein is a member of the non-heme-containing iron(II) and 2-oxoglutarate-dependent dioxygenase superfamily and is evolutionarily well conserved. We studied the ectoine hydroxylase from the cold-adapted marine ultra-microbacterium Sphingopyxis alaskensis (Sa) and found that the purified SaEctD protein is a homodimer in solution. We determined the SaEctD crystal structure in its apo-form, complexed with the iron catalyst, and in a form that contained iron, the co-substrate 2-oxoglutarate, and the reaction product of EctD, 5-hydroxyectoine. The iron and 2-oxoglutarate ligands are bound within the EctD active site in a fashion similar to that found in other members of the dioxygenase superfamily. 5-Hydroxyectoine, however, is coordinated by EctD in manner different from that found in high affinity solute receptor proteins operating in conjunction with microbial import systems for ectoines. Our crystallographic analysis provides a detailed view into the active site of the ectoine hydroxylase and exposes an intricate network of interactions between the enzyme and its ligands that collectively ensure the hydroxylation of the ectoine substrate in a position- and stereo-specific manner.

Indexed as

Catalytic DomainAmino Acids, DiaminoAmino Acid SequenceBacteriaBacterial ProteinsChromatography, GelChromatography, High Pressure LiquidCrystallography, X-RayIronKetoglutaric AcidsMixed Function OxygenasesModels, MolecularMolecular Sequence DataMutagenesisMutant ProteinsProtein MultimerizationAmino Acids, DiaminoBacterial ProteinshydroxyectoineIronKetoglutaric AcidsMixed Function OxygenasesMutant ProteinsRecombinant Fusion ProteinsSolutionsBiosynthesisChemical BiologyCrystal StructureDioxygenaseEnzymesEnzyme Structure

Identifiers

PMID25172507
PMCPMC4207974
OpenAlexW1988595013

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.