Evidence map›Paper›PMID 32569745›Full record

ArticleJournal of molecular biology2020

Overcoming Near-Cognate Suppression in a Release Factor 1-Deficient Host with an Improved Nitro-Tyrosine tRNA Synthetase.

Jenna N Beyer, Parisa Hosseinzadeh, Ilana Gottfried-Lee, Elise M Van Fossen, Phillip Zhu, Riley M Bednar, P Andrew Karplus, Ryan A Mehl, Richard B Cooley

Abstract read
In one paragraph

Article in Journal of molecular biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.

0numbers the graph read from it
0cells of the map it votes in
27citing papers in PubMed
–field-weighted citation impact
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

27 citing papers in PubMed.

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  17. High-yield recombinant bacterial expression ofProtein science : a publication of the Protein Society · 2023
    Article
  18. Article
  19. Generating EfficientACS chemical biology · 2022
    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

9 authors.

Jenna N BeyerOregon State University, Department of Biochemistry and Biophysics, 2011 Agricultural and Life Sciences, Corvallis, OR 97331, USA.
Parisa HosseinzadehDepartment of Biochemistry, Institute for Protein Design, University of Washington, Molecular Engineering and Sciences Building, 4000 15th Ave NE, Seattle, WA 98195, USA.
Ilana Gottfried-LeeOregon State University, Department of Biochemistry and Biophysics, 2011 Agricultural and Life Sciences, Corvallis, OR 97331, USA.
Elise M Van FossenOregon State University, Department of Biochemistry and Biophysics, 2011 Agricultural and Life Sciences, Corvallis, OR 97331, USA.
Phillip ZhuOregon State University, Department of Biochemistry and Biophysics, 2011 Agricultural and Life Sciences, Corvallis, OR 97331, USA.
Riley M BednarOregon State University, Department of Biochemistry and Biophysics, 2011 Agricultural and Life Sciences, Corvallis, OR 97331, USA.
P Andrew KarplusOregon State University, Department of Biochemistry and Biophysics, 2011 Agricultural and Life Sciences, Corvallis, OR 97331, USA.
Ryan A MehlOregon State University, Department of Biochemistry and Biophysics, 2011 Agricultural and Life Sciences, Corvallis, OR 97331, USA.
Richard B CooleyOregon State University, Department of Biochemistry and Biophysics, 2011 Agricultural and Life Sciences, Corvallis, OR 97331, USA. Electronic address: rick.cooley@oregonstate.edu.

Funding

Equipment supplement: Defining Roles Of NitroTyrosine In Disease Via Genetic Code ExpansionR01GM114653 · NIGMS · OREGON STATE UNIVERSITY · PI MEHL, RYAN A · 2015 to 2024
$2.6M
Development of an improved core technology for efficient genetic code expansion in biomedical researchR01GM131168 · NIGMS · OREGON STATE UNIVERSITY · PI MEHL, RYAN A · 2019 to 2021
$1.1M
Ion Mobility Time-of-flight Mass Spectrometry SystemS10RR025628 · NCRR · OREGON STATE UNIVERSITY · PI MAIER, CLAUDIA S, STEVENS, JAN FREDERIK · 2009 to 2009
$440k
Advancing genetic code expansion with Rosetta computational design: improving machinery for bioorthogonal amino acidsF32GM120791 · NIGMS · UNIVERSITY OF WASHINGTON · PI HOSSEINZADEH, PARISA · 2016 to 2018
$170k
NCRR NIH HHS S10 RR025628NIGMS NIH HHS F32 GM120791NIGMS NIH HHS R01 GM114653NIGMS NIH HHS R01 GM131168
6 · The paper itself

Abstract

Genetic code expansion (GCE) technologies incorporate non-canonical amino acids (ncAAs) into proteins at amber stop codons. To avoid unwanted truncated protein and improve ncAA-protein yields, genomically recoded strains of Escherichia coli lacking Release Factor 1 (RF1) are becoming increasingly popular expression hosts for GCE applications. In the absence of RF1, however, endogenous near-cognate amber suppressing tRNAs can lead to contaminating protein forms with natural amino acids in place of the ncAA. Here, we show that a second-generation amino-acyl tRNA synthetase (aaRS)/tRNA

Indexed as

Amino Acyl-tRNA SynthetasesCatalytic DomainCodon, TerminatorComputer SimulationCrystallography, X-RayEscherichia coliEscherichia coli ProteinsGenetic EngineeringModels, MolecularMutationPeptide Termination FactorsProtein BindingProtein ConformationTyrosine3-nitrotyrosineAmino Acyl-tRNA SynthetasesCodon, TerminatorEscherichia coli ProteinsPeptide Termination FactorsprfA protein, E coliTyrosinegenetic code expansionnear-cognate suppressionnitro-tyrosineRelease Factor 1tRNA synthetase

Identifiers

PMID32569745
PMCPMC7665880

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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.