Evidence map›Paper›PMID 21926996›Full record

ArticleNature chemical biology2011

RF1 knockout allows ribosomal incorporation of unnatural amino acids at multiple sites.

David B F Johnson, Jianfeng Xu, Zhouxin Shen, Jeffrey K Takimoto, Matthew D Schultz, Robert J Schmitz, Zheng Xiang, Joseph R Ecker, Steven P Briggs, Lei Wang

Abstract read
In one paragraph

Article in Nature chemical biology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 163 papers.

0numbers the graph read from it
0cells of the map it votes in
163citing 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

163 citing papers in PubMed.

  1. Ribosome engineering enhances genetic code expansion inSynthetic and systems biotechnology · 2027
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  13. BeyondChemical reviews · 2025
    Review
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  20. Review

103 more citing papers are in PubMed but not listed here.

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

10 authors.

David B F JohnsonThe Jack H. Skirball Center for Chemical Biology and Proteomics, The Salk Institute for Biological Studies, La Jolla, California, USA.
Jianfeng Xu
Zhouxin Shen
Jeffrey K Takimoto
Matthew D Schultz
Robert J Schmitz
Zheng Xiang
Joseph R Ecker
Steven P Briggs
Lei Wang

Funding

Genetically Encoding Novel Amino Acids to Investigate Wnt Signaling in C. elegansDP2OD004744 · OD · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI WANG, LEI · 2008 to 2009
$3.0M
Genome-wide transcription factor mapping in Arabidopsis thalianaF32HG004830 · NHGRI · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI SCHMITZ, ROBERT J. · 2003 to 2010
$143k
NHGRI NIH HHS F32 HG004830NHGRI NIH HHS F32-HG004830NIH HHS 1DP2OD004744-01NIH HHS DP2 OD004744
6 · The paper itself

Abstract

Stop codons have been exploited for genetic incorporation of unnatural amino acids (Uaas) in live cells, but their low incorporation efficiency, which is possibly due to competition from release factors, limits the power and scope of this technology. Here we show that the reportedly essential release factor 1 (RF1) can be knocked out from Escherichia coli by 'fixing' release factor 2 (RF2). The resultant strain JX33 is stable and independent, and it allows UAG to be reassigned from a stop signal to an amino acid when a UAG-decoding tRNA-synthetase pair is introduced. Uaas were efficiently incorporated at multiple UAG sites in the same gene without translational termination in JX33. We also found that amino acid incorporation at endogenous UAG codons is dependent on RF1 and mRNA context, which explains why E. coli tolerates apparent global suppression of UAG. JX33 affords a unique autonomous host for synthesizing and evolving new protein functions by enabling Uaa incorporation at multiple sites.

Indexed as

Amino AcidsAmino Acid SequenceCodon, TerminatorEscherichia coliEscherichia coli ProteinsGene DeletionGene Expression Regulation, BacterialGenomicsModels, MolecularPeptide Termination FactorsProtein BiosynthesisRibosomesAmino AcidsCodon, TerminatorEscherichia coli ProteinsPeptide Termination FactorsprfA protein, E coli

Identifiers

PMID21926996
PMCPMC3201715

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Registered trials

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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.