Evidence map›Paper›PMID 25724653›Full record

ArticleThe Journal of biological chemistry2015

Ancestral AlaX editing enzymes for control of genetic code fidelity are not tRNA-specific.

Eva Maria Novoa, Oscar Vargas-Rodriguez, Stefanie Lange, Yuki Goto, Hiroaki Suga, Karin Musier-Forsyth, Lluís Ribas de Pouplana

Open access · hybridAbstract read
In one paragraph

Article in The Journal of biological chemistry, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.

0numbers the graph read from it
0cells of the map it votes in
15citing papers in PubMed
1.1field-weighted citation impact, top 23% 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

15 citing papers in PubMed, 19 citations in OpenAlex.

  1. Article
  2. Review
  3. Article
  4. Review
  5. Article
  6. Article
  7. Article
  8. Article
  9. The central role of tRNA in genetic code expansion.Biochimica et biophysica acta. General subjects · 2017
    Review
  10. Rewiring protein synthesis: From natural to synthetic amino acids.Biochimica et biophysica acta. General subjects · 2017
    Review
  11. Conformational and chemical selection by aProceedings of the National Academy of Sciences of the United States of America · 2017
    Article
  12. Article
  13. Review
  14. Article
  15. 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

7 authors at 4 institutions in 3 countries.

Eva Maria NovoaFrom the Institute for Research in Biomedicine, c/ Baldiri Reixac 10, 08028 Barcelona, Catalonia, Spain.
Oscar Vargas-Rodriguezthe Department of Chemistry and Biochemistry, Center for RNA Biology, Ohio State University, Columbus, Ohio 43210.
Stefanie LangeFrom the Institute for Research in Biomedicine, c/ Baldiri Reixac 10, 08028 Barcelona, Catalonia, Spain.
Yuki Gotothe Department of Chemistry, Graduate School of Science, University of Tokyo, Tokyo 113-0033, Japan, and.
Hiroaki Sugathe Department of Chemistry, Graduate School of Science, University of Tokyo, Tokyo 113-0033, Japan, and.
Karin Musier-Forsyththe Department of Chemistry and Biochemistry, Center for RNA Biology, Ohio State University, Columbus, Ohio 43210.
Lluís Ribas de PouplanaFrom the Institute for Research in Biomedicine, c/ Baldiri Reixac 10, 08028 Barcelona, Catalonia, Spain, the Catalan Institution for Research and Advanced Studies, Passeig Lluís Companys 23, 08010 Barcelona, Catalonia, Spain lluis.ribas@irbbarcelona.org.
Institute for Research in Biomedicine · ESThe Ohio State University · USThe University of Tokyo · JPTokyo University of Science · JP

Funding

CLASS II AMINOACYL-TRNA SYNTHETASE SUBSTRATE RECOGNITIONR01GM049928 · NIGMS · UNIVERSITY OF MINNESOTA TWIN CITIES · PI MUSIER-FORSYTH, KARIN M · 1996 to 2012
$4.0M
Translational quality control by trans-editing domainsR01GM113656 · NIGMS · OHIO STATE UNIVERSITY · PI MUSIER-FORSYTH, KARIN M · 2015 to 2018
$1.1M
NIGMS NIH HHS R01 GM049928NIGMS NIH HHS R01 GM113656
6 · The paper itself

Abstract

Accurate protein synthesis requires the hydrolytic editing of tRNAs incorrectly aminoacylated by aminoacyl-tRNA synthetases (ARSs). Recognition of cognate tRNAs by ARS is less error-prone than amino acid recognition, and, consequently, editing domains are generally believed to act only on the tRNAs cognate to their related ARSs. For example, the AlaX family of editing domains, including the editing domain of alanyl-tRNA synthetase and the related free-standing trans-editing AlaX enzymes, are thought to specifically act on tRNA(Ala), whereas the editing domains of threonyl-tRNA synthetases are specific for tRNA(Thr). Here we show that, contrary to this belief, AlaX-S, the smallest of the extant AlaX enzymes, deacylates Ser-tRNA(Thr) in addition to Ser-tRNA(Ala) and that a single residue is important to determine this behavior. Our data indicate that promiscuous forms of AlaX are ancestral to tRNA-specific AlaXs. We propose that former AlaX domains were used to maintain translational fidelity in earlier stages of genetic code evolution when mis-serylation of several tRNAs was possible.

Indexed as

Genetic CodeAmino Acid SequenceAmino Acyl-tRNA SynthetasesArchaeal ProteinsEscherichia coliEvolution, MolecularModels, MolecularMolecular Sequence DataNucleic Acid ConformationPhylogenyProtein BiosynthesisProtein Structure, TertiaryPyrococcus abyssiPyrococcus horikoshiiRecombinant ProteinsRNA EditingAmino Acyl-tRNA SynthetasesArchaeal ProteinsRecombinant ProteinsRNA, TransferAlaXAminoacyl tRNA SynthetaseGenetic CodeMistranslationphylogeneticsProofreadingProtein EvolutionRNA EditingtRNA

Identifiers

PMID25724653
PMCPMC4400357
OpenAlexW2027340117

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.