Evidence map›Paper›PMID 31463593›Full record

ArticleJournal of biological inorganic chemistry : JBIC : a publication of the Society of Biological Inorganic Chemistry2019

The asymmetric function of Dph1-Dph2 heterodimer in diphthamide biosynthesis.

Min Dong, Emily E Dando, Ilana Kotliar, Xiaoyang Su, Boris Dzikovski, Jack H Freed, Hening Lin

Open access · greenAbstract read
In one paragraph

Article in Journal of biological inorganic chemistry : JBIC : a publication of the Society of Biological Inorganic Chemistry, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.

0numbers the graph read from it
0cells of the map it votes in
12citing papers in PubMed
3.5field-weighted citation impact, top 7% 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

12 citing papers in PubMed, 35 citations in OpenAlex.

  1. Article
  2. Article
  3. Biomolecules · 2023
    Article
  4. Yeast geneMicrobial cell (Graz, Austria) · 2023
    Article
  5. Article
  6. Article
  7. Article
  8. Review
  9. Article
  10. Review
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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 3 institutions in 2 countries.

Min DongDepartment of Chemistry and Chemical Biology, Cornell University, Ithaca, NY, 14853, USA.
Emily E DandoDepartment of Chemistry and Chemical Biology, Cornell University, Ithaca, NY, 14853, USA.
Ilana KotliarDepartment of Chemistry and Chemical Biology, Cornell University, Ithaca, NY, 14853, USA.
Xiaoyang SuDepartment of Chemistry and Chemical Biology, Cornell University, Ithaca, NY, 14853, USA.
Boris DzikovskiDepartment of Chemistry and Chemical Biology, Cornell University, Ithaca, NY, 14853, USA.
Jack H FreedDepartment of Chemistry and Chemical Biology, Cornell University, Ithaca, NY, 14853, USA.
Hening LinDepartment of Chemistry and Chemical Biology, Cornell University, Ithaca, NY, 14853, USA. hl379@cornell.edu.ORCID 0000-0002-0255-2701
Cornell University · USHoward Hughes Medical Institute · USTianjin University · CN

Funding

TR&D 4 for ACERT, 2017-2021 funding periodP41GM103521 · NIGMS · CORNELL UNIVERSITY · PI FREED, JACK H · 2012 to 2021
$11.7M
Diphthamide biosynthesisR01GM088276 · NIGMS · CORNELL UNIVERSITY · PI LIN, HENING · 2009 to 2017
$2.5M
Electron Spin Relaxation in Model MembranesR01GM123779 · NIGMS · CORNELL UNIVERSITY · PI FREED, JACK H · 2017 to 2020
$2.1M
NIGMS NIH HHS GM088276NIGMS NIH HHS P41GM103251NIGMS NIH HHS P41 GM103521NIGMS NIH HHS R01 GM088276NIGMS NIH HHS R01 GM123779
6 · The paper itself

Abstract

Diphthamide, the target of diphtheria toxin, is a post-translationally modified histidine residue found in archaeal and eukaryotic translation elongation factor 2 (EF2). In the first step of diphthamide biosynthesis, a [4Fe-4S] cluster-containing radical SAM enzyme, Dph1-Dph2 heterodimer in eukaryotes or Dph2 homodimer in archaea, cleaves S-adenosylmethionine and transfers the 3-amino-3-carboxypropyl group to EF2. It was demonstrated previously that for the archaeal Dph2 homodimer, only one [4Fe-4S] cluster is necessary for the in vitro activity. Here, we demonstrate that for the eukaryotic Dph1-Dph2 heterodimer, the [4Fe-4S] cluster-binding cysteine residues in each subunit are required for diphthamide biosynthesis to occur in vivo. Furthermore, our in vitro reconstitution experiments with Dph1-Dph2 mutants suggested that the Dph1 cluster serves a catalytic role, while the Dph2 cluster facilitates the reduction of the Dph1 cluster by the physiological reducing system Dph3/Cbr1/NADH. Our results reveal the asymmetric functional roles of the Dph1-Dph2 heterodimer and may help to understand how the Fe-S clusters in radical SAM enzymes are reduced in biology.

Indexed as

Amino Acid SequenceArchaeal ProteinsHistidineIron-Sulfur ProteinsMutationProtein MultimerizationPyrococcus horikoshiiS-AdenosylmethionineArchaeal ProteinsdiphthamideHistidineIron-Sulfur ProteinsS-AdenosylmethionineDiphthamide biosynthesisIron–sulfur clusterRadical SAM enzyme

Identifiers

PMID31463593
PMCPMC6893874
OpenAlexW2970906232

What OpenQuestion holds

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LicenceTDM
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.