Versatility of Synthetic tRNAs in Genetic Code Expansion
Abstract
Transfer RNA (tRNA) is a dynamic molecule used by all forms of life as a key component of the translation apparatus. Each tRNA is highly processed, structured, and modified, to accurately deliver amino acids to the ribosome for protein synthesis. The tRNA molecule is a critical component in synthetic biology methods for the synthesis of proteins designed to contain non-canonical amino acids (ncAAs). The multiple interactions and maturation requirements of a tRNA pose engineering challenges, but also offer tunable features. Major advances in the field of genetic code expansion have repeatedly demonstrated the central importance of suppressor tRNAs for efficient incorporation of ncAAs. Here we review the current status of two fundamentally different translation systems (TSs), selenocysteine (Sec)- and pyrrolysine (Pyl)-TSs. Idiosyncratic requirements of each of these TSs mandate how their tRNAs are adapted and dictate the techniques used to select or identify the best synthetic variants.
- Authors:
-
- Yale Univ., New Haven, CT (United States)
- Publication Date:
- Research Org.:
- Yale Univ., New Haven, CT (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC), Basic Energy Sciences (BES). Chemical Sciences, Geosciences, and Biosciences Division; National Science Foundation (NSF); National Institutes of Health (NIH)
- OSTI Identifier:
- 1610398
- Grant/Contract Number:
- FG02-98ER20311; CHE-1740549; R35GM122560
- Resource Type:
- Accepted Manuscript
- Journal Name:
- Genes
- Additional Journal Information:
- Journal Volume: 9; Journal Issue: 11; Journal ID: ISSN 2073-4425
- Publisher:
- MDPI
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; genetic code expansion; transfer RNA; synthetic biology; non-canonical amino acids; selenocysteine
Citation Formats
Hoffman, Kyle, Crnković, Ana, and Söll, Dieter. Versatility of Synthetic tRNAs in Genetic Code Expansion. United States: N. p., 2018.
Web. doi:10.3390/genes9110537.
Hoffman, Kyle, Crnković, Ana, & Söll, Dieter. Versatility of Synthetic tRNAs in Genetic Code Expansion. United States. https://doi.org/10.3390/genes9110537
Hoffman, Kyle, Crnković, Ana, and Söll, Dieter. Wed .
"Versatility of Synthetic tRNAs in Genetic Code Expansion". United States. https://doi.org/10.3390/genes9110537. https://www.osti.gov/servlets/purl/1610398.
@article{osti_1610398,
title = {Versatility of Synthetic tRNAs in Genetic Code Expansion},
author = {Hoffman, Kyle and Crnković, Ana and Söll, Dieter},
abstractNote = {Transfer RNA (tRNA) is a dynamic molecule used by all forms of life as a key component of the translation apparatus. Each tRNA is highly processed, structured, and modified, to accurately deliver amino acids to the ribosome for protein synthesis. The tRNA molecule is a critical component in synthetic biology methods for the synthesis of proteins designed to contain non-canonical amino acids (ncAAs). The multiple interactions and maturation requirements of a tRNA pose engineering challenges, but also offer tunable features. Major advances in the field of genetic code expansion have repeatedly demonstrated the central importance of suppressor tRNAs for efficient incorporation of ncAAs. Here we review the current status of two fundamentally different translation systems (TSs), selenocysteine (Sec)- and pyrrolysine (Pyl)-TSs. Idiosyncratic requirements of each of these TSs mandate how their tRNAs are adapted and dictate the techniques used to select or identify the best synthetic variants.},
doi = {10.3390/genes9110537},
journal = {Genes},
number = 11,
volume = 9,
place = {United States},
year = {Wed Nov 07 00:00:00 EST 2018},
month = {Wed Nov 07 00:00:00 EST 2018}
}
Web of Science
Works referenced in this record:
Universal rules and idiosyncratic features in tRNA identity
journal, November 1998
- Giege, R.; Sissler, M.; Florentz, C.
- Nucleic Acids Research, Vol. 26, Issue 22
Evolving Mistranslating tRNAs Through a Phenotypically Ambivalent Intermediate in Saccharomyces cerevisiae
journal, June 2017
- Berg, Matthew D.; Hoffman, Kyle S.; Genereaux, Julie
- Genetics, Vol. 206, Issue 4
Nuclear surveillance and degradation of hypomodified initiator tRNAMet in S. cerevisiae
journal, June 2004
- Kadaba, S.
- Genes & Development, Vol. 18, Issue 11
Efficient Expression of Glutathione Peroxidase with Chimeric tRNA in Amber-less Escherichia coli
journal, August 2017
- Fan, Zhenlin; Song, Jian; Guan, Tuchen
- ACS Synthetic Biology, Vol. 7, Issue 1, p. 249-257
The amino-terminal domain of pyrrolysyl-tRNA synthetase is dispensable in vitro but required for in vivo activity
journal, June 2007
- Herring, Stephanie; Ambrogelly, Alexandre; Gundllapalli, Sarath
- FEBS Letters, Vol. 581, Issue 17
Generation of influenza A viruses as live but replication-incompetent virus vaccines
journal, December 2016
- Si, L.; Xu, H.; Zhou, X.
- Science, Vol. 354, Issue 6316
Engineering the elongation factor Tu for efficient selenoprotein synthesis
journal, July 2014
- Haruna, Ken-ichi; Alkazemi, Muhammad H.; Liu, Yuchen
- Nucleic Acids Research, Vol. 42, Issue 15, p. 9976-9983
Recoding the Genetic Code with Selenocysteine
journal, November 2013
- Bröcker, Markus J.; Ho, Joanne M. L.; Church, George M.
- Angewandte Chemie International Edition, Vol. 53, Issue 1, p. 319-323
Genetically Incorporating Two Distinct Post-translational Modifications into One Protein Simultaneously
journal, January 2018
- Venkat, Sumana; Sturges, Jourdan; Stahman, Alleigh
- ACS Synthetic Biology, Vol. 7, Issue 2
Identity of Prokaryotic and Eukaryotic tRNA Asp for Aminoacylation by Aspartyl-tRNA Synthetase from Thermus thermophilus †
journal, January 1996
- Becker, Hubert Dominique; Giegé, Richard; Kern, Daniel
- Biochemistry, Vol. 35, Issue 23
Two conserved sequence blocks within eukaryotic tRNA genes are major promoter elements
journal, December 1981
- Galli, Gabriella; Hofstetter, Hans; Birnstiel, Max L.
- Nature, Vol. 294, Issue 5842
Reassignment of a rare sense codon to a non-canonical amino acid in Escherichia coli
journal, August 2015
- Mukai, Takahito; Yamaguchi, Atsushi; Ohtake, Kazumasa
- Nucleic Acids Research, Vol. 43, Issue 16
Uniform Binding of Aminoacyl-tRNAs to Elongation Factor Tu by Thermodynamic Compensation
journal, October 2001
- LaRiviere, Frederick J.; Wolfson, Alexey D.; Uhlenbeck, Olke C.
- Science, Vol. 294, Issue 5540, p. 165-168
Identification and characterization of a selenoprotein family containing a diselenide bond in a redox motif
journal, August 2007
- Shchedrina, V. A.; Novoselov, S. V.; Malinouski, M. Yu.
- Proceedings of the National Academy of Sciences, Vol. 104, Issue 35, p. 13919-13924
Natural and synthetic selenoproteins
journal, October 2014
- Metanis, Norman; Hilvert, Donald
- Current Opinion in Chemical Biology, Vol. 22
Eight base changes are sufficient to convert a leucine-inserting tRNA into a serine-inserting tRNA.
journal, June 1992
- Normanly, J.; Ollick, T.; Abelson, J.
- Proceedings of the National Academy of Sciences, Vol. 89, Issue 12
Unique Characteristics of the Pyrrolysine System in the 7th Order of Methanogens: Implications for the Evolution of a Genetic Code Expansion Cassette
journal, January 2014
- Borrel, Guillaume; Gaci, Nadia; Peyret, Pierre
- Archaea, Vol. 2014, p. 1-11
Rewiring Translation for Elongation Factor Tu-Dependent Selenocysteine Incorporation
journal, November 2012
- Aldag, Caroline; Bröcker, Markus J.; Hohn, Michael J.
- Angewandte Chemie, Vol. 125, Issue 5
Crystal structure of an mRNA-binding fragment of Moorella thermoacetica elongation factor SelB
journal, August 2002
- Selmer, M.
- The EMBO Journal, Vol. 21, Issue 15
Pyrrolysyl-tRNA synthetase–tRNAPyl structure reveals the molecular basis of orthogonality
journal, December 2008
- Nozawa, Kayo; O’Donoghue, Patrick; Gundllapalli, Sarath
- Nature, Vol. 457, Issue 7233, p. 1163-1167
tRNA residues evolved to promote translational accuracy
journal, February 2013
- Shepotinovskaya, I.; Uhlenbeck, O. C.
- RNA, Vol. 19, Issue 4
tRNA Modifications: Impact on Structure and Thermal Adaptation
journal, April 2017
- Lorenz, Christian; Lünse, Christina; Mörl, Mario
- Biomolecules, Vol. 7, Issue 4
Continuous directed evolution of aminoacyl-tRNA synthetases
journal, October 2017
- Bryson, David I.; Fan, Chenguang; Guo, Li-Tao
- Nature Chemical Biology, Vol. 13, Issue 12
Domain Structure of the Prokaryotic Selenocysteine-specific Elongation Factor SelB
journal, October 1996
- Kromayer, M.; Wilting, R.; Tormay, P.
- Journal of Molecular Biology, Vol. 262, Issue 4
Contributions of discrete tRNA Ser domains to aminoacylation by E.coli seryl-tRNA synthetase: a kinetic analysis using model RNA substrates
journal, January 1993
- Sampson, Jeffrey R.; Saks, Margaret E.
- Nucleic Acids Research, Vol. 21, Issue 19
Expanding the genetic code of Drosophila melanogaster
journal, August 2012
- Bianco, Ambra; Townsley, Fiona M.; Greiss, Sebastian
- Nature Chemical Biology, Vol. 8, Issue 9
The yeast rapid tRNA decay pathway competes with elongation factor 1A for substrate tRNAs and acts on tRNAs lacking one or more of several modifications
journal, August 2012
- Dewe, J. M.; Whipple, J. M.; Chernyakov, I.
- RNA, Vol. 18, Issue 10
Identification and characterization of phosphoseryl-tRNA[Ser]Sec kinase
journal, August 2004
- Carlson, B. A.; Xu, X. -M.; Kryukov, G. V.
- Proceedings of the National Academy of Sciences, Vol. 101, Issue 35
Crystal structures reveal an elusive functional domain of pyrrolysyl-tRNA synthetase
journal, October 2017
- Suzuki, Tateki; Miller, Corwin; Guo, Li-Tao
- Nature Chemical Biology, Vol. 13, Issue 12
Collaboration of tRNA modifications and elongation factor eEF1A in decoding and nonsense suppression
text, January 2018
- Klassen, Roland; Schaffrath, Raffael
- Universität Kassel
Efficient Multisite Unnatural Amino Acid Incorporation in Mammalian Cells via Optimized Pyrrolysyl tRNA Synthetase/tRNA Expression and Engineered eRF1
journal, October 2014
- Schmied, Wolfgang H.; Elsässer, Simon J.; Uttamapinant, Chayasith
- Journal of the American Chemical Society, Vol. 136, Issue 44
Facile Recoding of Selenocysteine in Nature
journal, March 2016
- Mukai, Takahito; Englert, Markus; Tripp, H. James
- Angewandte Chemie International Edition, Vol. 55, Issue 17, p. 5337-5341
Expanded Cellular Amino Acid Pools Containing Phosphoserine, Phosphothreonine, and Phosphotyrosine
journal, March 2014
- Steinfeld, Justin B.; Aerni, Hans R.; Rogulina, Svetlana
- ACS Chemical Biology, Vol. 9, Issue 5
tRNA biology charges to the front
journal, September 2010
- Phizicky, E. M.; Hopper, A. K.
- Genes & Development, Vol. 24, Issue 17
Polyspecific pyrrolysyl-tRNA synthetases from directed evolution
journal, November 2014
- Guo, Li-Tao; Wang, Yane-Shih; Nakamura, Akiyoshi
- Proceedings of the National Academy of Sciences, Vol. 111, Issue 47
Eukaryotic selenoprotein synthesis: Mechanistic insight incorporating new factors and new functions for old factors
journal, January 2008
- Squires, Jeffrey E.; Berry, Marla J.
- IUBMB Life, Vol. 60, Issue 4
tRNA Pyl : Structure, function, and applications
journal, September 2017
- Tharp, Jeffery M.; Ehnbom, Andreas; Liu, Wenshe R.
- RNA Biology, Vol. 15, Issue 4-5
Engineering an Automaturing Transglutaminase with Enhanced Thermostability by Genetic Code Expansion with Two Codon Reassignments
journal, July 2018
- Ohtake, Kazumasa; Mukai, Takahito; Iraha, Fumie
- ACS Synthetic Biology, Vol. 7, Issue 9
A Facile Strategy for Selective Incorporation of Phosphoserine into Histones
journal, March 2013
- Lee, Sangsik; Oh, Seunghee; Yang, Aerin
- Angewandte Chemie International Edition, Vol. 52, Issue 22
Transcription of eukaryotic genes with impaired internal promoters: the use of a yeast tRNA gene as promoter
journal, December 1991
- Otter, Charlotta A.; Straby, Kerstin B.
- Journal of Biotechnology, Vol. 21, Issue 3
Antideterminants present in minihelix(Sec) hinder its recognition by prokaryotic elongation factor Tu.
journal, February 1996
- Rudinger, J.; Hillenbrandt, R.; Sprinzl, M.
- The EMBO Journal, Vol. 15, Issue 3
Biosynthesis of selenocysteine on its tRNA in eukaryotes
journal, April 2007
- Xu, Xue‐Ming; Carlson, Bradley A.; Mix, Heiko
- The FASEB Journal, Vol. 21, Issue 5
Playing with the Molecules of Life
journal, January 2018
- Young, Douglas D.; Schultz, Peter G.
- ACS Chemical Biology, Vol. 13, Issue 4
PylSn and the Homologous N-terminal Domain of Pyrrolysyl-tRNA Synthetase Bind the tRNA That Is Essential for the Genetic Encoding of Pyrrolysine
journal, July 2012
- Jiang, Ruisheng; Krzycki, Joseph A.
- Journal of Biological Chemistry, Vol. 287, Issue 39
The pathway to GTPase activation of elongation factor SelB on the ribosome
journal, November 2016
- Fischer, Niels; Neumann, Piotr; Bock, Lars V.
- Nature, Vol. 540, Issue 7631, p. 80-85
Designer tRNAs for efficient incorporation of non-canonical amino acids by the pyrrolysine system in mammalian cells
journal, November 2017
- Serfling, Robert; Lorenz, Christian; Etzel, Maja
- Nucleic Acids Research, Vol. 46, Issue 1
Playing with the Molecules of Life
journal, January 2018
- Young, Douglas D.; Schultz, Peter G.
- ACS Chemical Biology, Vol. 13, Issue 4
Mutagenesis of selC , the gene for the selenocysteine-insertlng tRNA-species in E.coli : effects on in vivo function
journal, January 1990
- Baron, Christian; Heider, Johann; Böck, August
- Nucleic Acids Research, Vol. 18, Issue 23
Distribution and frequencies of post-transcriptional modifications in tRNAs
journal, December 2014
- Machnicka, Magdalena A.; Olchowik, Anna; Grosjean, Henri
- RNA Biology, Vol. 11, Issue 12
Transfer RNAs with novel cloverleaf structures
journal, October 2016
- Mukai, Takahito; Vargas-Rodriguez, Oscar; Englert, Markus
- Nucleic Acids Research
An aminoacyl-tRNA synthetase that specifically activates pyrrolysine
journal, August 2004
- Polycarpo, C.; Ambrogelly, A.; Berube, A.
- Proceedings of the National Academy of Sciences, Vol. 101, Issue 34, p. 12450-12454
Specificity of Pyrrolysyl-tRNA Synthetase for Pyrrolysine and Pyrrolysine Analogs
journal, January 2009
- Li, Wen-Tai; Mahapatra, Anirban; Longstaff, David G.
- Journal of Molecular Biology, Vol. 385, Issue 4
Specificity of Pyrrolysyl-tRNA Synthetase for Pyrrolysine and Pyrrolysine Analogs
journal, January 2009
- Li, Wen-Tai; Mahapatra, Anirban; Longstaff, David G.
- Journal of Molecular Biology, Vol. 385, Issue 4
Evolving tRNASec for Efficient Canonical Incorporation of Selenocysteine
journal, December 2014
- Thyer, Ross; Robotham, Scott A.; Brodbelt, Jennifer S.
- Journal of the American Chemical Society, Vol. 137, Issue 1, p. 46-49
Efficient genetic encoding of phosphoserine and its nonhydrolyzable analog
journal, June 2015
- Rogerson, Daniel T.; Sachdeva, Amit; Wang, Kaihang
- Nature Chemical Biology, Vol. 11, Issue 7
SerRS-tRNA Sec complex structures reveal mechanism of the first step in selenocysteine biosynthesis
journal, October 2015
- Wang, Caiyan; Guo, Yu; Tian, Qingnan
- Nucleic Acids Research
An Improved System for the Generation and Analysis of Mutant Proteins Containing Unnatural Amino Acids in Saccharomyces cerevisiae
journal, August 2007
- Chen, Shawn; Schultz, Peter G.; Brock, Ansgar
- Journal of Molecular Biology, Vol. 371, Issue 1, p. 112-122
Transcription of eukaryotic genes with impaired internal promoters: the use of a yeast tRNA gene as promoter
journal, December 1991
- Otter, Charlotta A.; Straby, Kerstin B.
- Journal of Biotechnology, Vol. 21, Issue 3
Distribution and frequencies of post-transcriptional modifications in tRNAs
dataset, January 2014
- Machnicka, Magdalena A.; Olchowik, Anna; Grosjean, Henri
- Taylor & Francis
Identification of a novel translation factor necessary for the incorporation of selenocysteine into protein
journal, November 1989
- Forchhammer, Karl; Leinfelder, Walfred; Böck, August
- Nature, Vol. 342, Issue 6248
Translation system engineering in Escherichia coli enhances non-canonical amino acid incorporation into proteins: Translation system engineering in Escherichia coli
journal, February 2017
- Gan, Rui; Perez, Jessica G.; Carlson, Erik D.
- Biotechnology and Bioengineering, Vol. 114, Issue 5
An integrated, structure- and energy-based view of the genetic code
journal, July 2016
- Grosjean, Henri; Westhof, Eric
- Nucleic Acids Research, Vol. 44, Issue 17
Mutants of Escherichia coli initiator tRNA that suppress amber codons in Saccharomyces cerevisiae and are aminoacylated with tyrosine by yeast extracts.
journal, December 1991
- Lee, C. P.; RajBhandary, U. L.
- Proceedings of the National Academy of Sciences, Vol. 88, Issue 24
Internal control regions for transcription of eukaryotic tRNA genes.
journal, November 1981
- Sharp, S.; DeFranco, D.; Dingermann, T.
- Proceedings of the National Academy of Sciences, Vol. 78, Issue 11
Understanding the Sequence Specificity of tRNA Binding to Elongation Factor Tu using tRNA Mutagenesis
journal, March 2009
- Schrader, Jared M.; Chapman, Stephen J.; Uhlenbeck, Olke C.
- Journal of Molecular Biology, Vol. 386, Issue 5, p. 1255-1264
Nanoarchaeum equitans creates functional tRNAs from separate genes for their 5′- and 3′-halves
journal, February 2005
- Randau, Lennart; Münch, Richard; Hohn, Michael J.
- Nature, Vol. 433, Issue 7025
Expanding the genetic code of Drosophila melanogaster
journal, August 2012
- Bianco, Ambra; Townsley, Fiona M.; Greiss, Sebastian
- Nature Chemical Biology, Vol. 8, Issue 9
Mutually orthogonal pyrrolysyl-tRNA synthetase/tRNA pairs
journal, May 2018
- Willis, Julian C. W.; Chin, Jason W.
- Nature Chemistry, Vol. 10, Issue 8
Only one nucleotide insertion to the long variable arm confers an efficient serine acceptor activity upon Saccharomyces cerevisiae tRNALeu in vitro
journal, May 1997
- Himeno, Hyouta; Yoshida, Shukuko; Soma, Akiko
- Journal of Molecular Biology, Vol. 268, Issue 4
A synthetic tRNA for EF-Tu mediated selenocysteine incorporation in vivo and in vitro
journal, July 2015
- Miller, Corwin; Bröcker, Markus J.; Prat, Laure
- FEBS Letters, Vol. 589, Issue 17, p. 2194-2199
Natural and synthetic selenoproteins
journal, October 2014
- Metanis, Norman; Hilvert, Donald
- Current Opinion in Chemical Biology, Vol. 22
Adding New Chemistries to the Genetic Code
journal, June 2010
- Liu, Chang C.; Schultz, Peter G.
- Annual Review of Biochemistry, Vol. 79, Issue 1, p. 413-444
Polyspecific pyrrolysyl-tRNA synthetases from directed evolution
journal, November 2014
- Guo, Li-Tao; Wang, Yane-Shih; Nakamura, Akiyoshi
- Proceedings of the National Academy of Sciences, Vol. 111, Issue 47
Rewriting the Genetic Code
journal, September 2017
- Mukai, Takahito; Lajoie, Marc J.; Englert, Markus
- Annual Review of Microbiology, Vol. 71, Issue 1
Eukaryotic selenoprotein synthesis: Mechanistic insight incorporating new factors and new functions for old factors
journal, January 2008
- Squires, Jeffrey E.; Berry, Marla J.
- IUBMB Life, Vol. 60, Issue 4
Crystal structures reveal an elusive functional domain of pyrrolysyl-tRNA synthetase
journal, October 2017
- Suzuki, Tateki; Miller, Corwin; Guo, Li-Tao
- Nature Chemical Biology, Vol. 13, Issue 12
Effects of Heterologous tRNA Modifications on the Production of Proteins Containing Noncanonical Amino Acids
journal, February 2018
- Crnković, Ana; Vargas-Rodriguez, Oscar; Merkuryev, Anna
- Bioengineering, Vol. 5, Issue 1
Pyrrolysyl-tRNA synthetase: An ordinary enzyme but an outstanding genetic code expansion tool
journal, June 2014
- Wan, Wei; Tharp, Jeffery M.; Liu, Wenshe R.
- Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, Vol. 1844, Issue 6
Rapid tRNA Decay Can Result from Lack of Nonessential Modifications
journal, January 2006
- Alexandrov, Andrei; Chernyakov, Irina; Gu, Weifeng
- Molecular Cell, Vol. 21, Issue 1
Conversion of aminoacylation specificity from tRNATyr to tRNASer in vitro
journal, January 1990
- Himeno, Hyouta; Hasegawa, Tsunemi; Ueda, Takuya
- Nucleic Acids Research, Vol. 18, Issue 23, p. 6815-6819
RNA-dependent conversion of phosphoserine forms selenocysteine in eukaryotes and archaea
journal, December 2006
- Yuan, J.; Palioura, S.; Salazar, J. C.
- Proceedings of the National Academy of Sciences, Vol. 103, Issue 50, p. 18923-18927
A Versatile Platform for Single- and Multiple-Unnatural Amino Acid Mutagenesis in Escherichia coli
journal, February 2013
- Chatterjee, Abhishek; Sun, Sophie B.; Furman, Jennifer L.
- Biochemistry, Vol. 52, Issue 10
Transfer RNA Misidentification Scrambles Sense Codon Recoding
journal, September 2013
- Krishnakumar, Radha; Prat, Laure; Aerni, Hans-Rudolf
- ChemBioChem, Vol. 14, Issue 15
A Facile Strategy for Selective Incorporation of Phosphoserine into Histones
journal, March 2013
- Lee, Sangsik; Oh, Seunghee; Yang, Aerin
- Angewandte Chemie, Vol. 125, Issue 22
Relaxation of a transfer RNA specificity by removal of modified nucleotides
journal, April 1990
- Perret, Véronique; Garcia, Angela; Grosjean, Henri
- Nature, Vol. 344, Issue 6268
Methanomethylophilus alvus Mx1201 provides basis for mutual orthogonal pyrrolysyl tRNA/aminoacyl-tRNA synthetase pairs in mammalian cells.
dataset, January 2018
- Elsässer, Simon
- Mendeley
Elongation Factor Tu Mutants Expand Amino Acid Tolerance of Protein Biosynthesis System
journal, November 2007
- Doi, Yoshio; Ohtsuki, Takashi; Shimizu, Yoshihiro
- Journal of the American Chemical Society, Vol. 129, Issue 46
Discrimination between glutaminyl-tRNA synthetase and seryl-tRNA synthetase involves nucleotides in the acceptor helix of tRNA.
journal, September 1988
- Rogers, M. J.; Soll, D.
- Proceedings of the National Academy of Sciences, Vol. 85, Issue 18
Pyrrolysine is not hardwired for cotranslational insertion at UAG codons
journal, February 2007
- Ambrogelly, A.; Gundllapalli, S.; Herring, S.
- Proceedings of the National Academy of Sciences, Vol. 104, Issue 9, p. 3141-3146
Evolutionary tuning impacts the design of bacterial tRNAs for the incorporation of unnatural amino acids by ribosomes
journal, October 2018
- Uhlenbeck, Olke C.; Schrader, Jared M.
- Current Opinion in Chemical Biology, Vol. 46
Universal rules and idiosyncratic features in tRNA identity
journal, November 1998
- Giege, R.; Sissler, M.; Florentz, C.
- Nucleic Acids Research, Vol. 26, Issue 22
Evolving Mistranslating tRNAs Through a Phenotypically Ambivalent Intermediate in Saccharomyces cerevisiae
journal, June 2017
- Berg, Matthew D.; Hoffman, Kyle S.; Genereaux, Julie
- Genetics, Vol. 206, Issue 4
Nuclear surveillance and degradation of hypomodified initiator tRNAMet in S. cerevisiae
journal, June 2004
- Kadaba, S.
- Genes & Development, Vol. 18, Issue 11
Antideterminants present in minihelix(Sec) hinder its recognition by prokaryotic elongation factor Tu.
journal, February 1996
- Rudinger, J.; Hillenbrandt, R.; Sprinzl, M.
- The EMBO Journal, Vol. 15, Issue 3
Expanding and Reprogramming the Genetic Code of Cells and Animals
journal, June 2014
- Chin, Jason W.
- Annual Review of Biochemistry, Vol. 83, Issue 1
Two conserved sequence blocks within eukaryotic tRNA genes are major promoter elements
journal, December 1981
- Galli, Gabriella; Hofstetter, Hans; Birnstiel, Max L.
- Nature, Vol. 294, Issue 5842
Engineering the elongation factor Tu for efficient selenoprotein synthesis
journal, July 2014
- Haruna, Ken-ichi; Alkazemi, Muhammad H.; Liu, Yuchen
- Nucleic Acids Research, Vol. 42, Issue 15, p. 9976-9983
Facile Recoding of Selenocysteine in Nature
journal, March 2016
- Mukai, Takahito; Englert, Markus; Tripp, H. James
- Angewandte Chemie International Edition, Vol. 55, Issue 17, p. 5337-5341
Expanded Cellular Amino Acid Pools Containing Phosphoserine, Phosphothreonine, and Phosphotyrosine
journal, March 2014
- Steinfeld, Justin B.; Aerni, Hans R.; Rogulina, Svetlana
- ACS Chemical Biology, Vol. 9, Issue 5
Identity of Prokaryotic and Eukaryotic tRNA Asp for Aminoacylation by Aspartyl-tRNA Synthetase from Thermus thermophilus †
journal, January 1996
- Becker, Hubert Dominique; Giegé, Richard; Kern, Daniel
- Biochemistry, Vol. 35, Issue 23
A Facile Strategy for Selective Incorporation of Phosphoserine into Histones
journal, March 2013
- Lee, Sangsik; Oh, Seunghee; Yang, Aerin
- Angewandte Chemie International Edition, Vol. 52, Issue 22
Collaboration of tRNA modifications and elongation factor eEF1A in decoding and nonsense suppression
journal, August 2018
- Klassen, Roland; Schaffrath, Raffael
- Scientific Reports, Vol. 8, Issue 1
Recoding the Genetic Code with Selenocysteine
journal, November 2013
- Bröcker, Markus J.; Ho, Joanne M. L.; Church, George M.
- Angewandte Chemie International Edition, Vol. 53, Issue 1, p. 319-323
Efficient Expression of Glutathione Peroxidase with Chimeric tRNA in Amber-less Escherichia coli
journal, August 2017
- Fan, Zhenlin; Song, Jian; Guan, Tuchen
- ACS Synthetic Biology, Vol. 7, Issue 1, p. 249-257
The Human SepSecS-tRNASec Complex Reveals the Mechanism of Selenocysteine Formation
journal, July 2009
- Palioura, S.; Sherrer, R. L.; Steitz, T. A.
- Science, Vol. 325, Issue 5938, p. 321-325
RNA-dependent conversion of phosphoserine forms selenocysteine in eukaryotes and archaea
journal, December 2006
- Yuan, J.; Palioura, S.; Salazar, J. C.
- Proceedings of the National Academy of Sciences, Vol. 103, Issue 50, p. 18923-18927
The yeast rapid tRNA decay pathway competes with elongation factor 1A for substrate tRNAs and acts on tRNAs lacking one or more of several modifications
journal, August 2012
- Dewe, J. M.; Whipple, J. M.; Chernyakov, I.
- RNA, Vol. 18, Issue 10
Methanomethylophilus alvus Mx1201 Provides Basis for Mutual Orthogonal Pyrrolysyl tRNA/Aminoacyl-tRNA Synthetase Pairs in Mammalian Cells
journal, September 2018
- Meineke, Birthe; Heimgärtner, Johannes; Lafranchi, Lorenzo
- ACS Chemical Biology, Vol. 13, Issue 11
Identification and characterization of phosphoseryl-tRNA[Ser]Sec kinase
journal, August 2004
- Carlson, B. A.; Xu, X. -M.; Kryukov, G. V.
- Proceedings of the National Academy of Sciences, Vol. 101, Issue 35
Generation of influenza A viruses as live but replication-incompetent virus vaccines
journal, December 2016
- Si, L.; Xu, H.; Zhou, X.
- Science, Vol. 354, Issue 6316
A Semi-Rationally Engineered Bacterial Pyrrolysyl-tRNA Synthetase Genetically Encodes Phenyl Azide Chemistry
journal, June 2018
- Fladischer, Patrik; Weingartner, Alexandra; Blamauer, Johannes
- Biotechnology Journal, Vol. 14, Issue 3
Contributions of discrete tRNA Ser domains to aminoacylation by E.coli seryl-tRNA synthetase: a kinetic analysis using model RNA substrates
journal, January 1993
- Sampson, Jeffrey R.; Saks, Margaret E.
- Nucleic Acids Research, Vol. 21, Issue 19
Characterization of mSelB, a novel mammalian elongation factor for selenoprotein translation
journal, September 2000
- Fagegaltier, D.
- The EMBO Journal, Vol. 19, Issue 17
Mutually orthogonal pyrrolysyl-tRNA synthetase/tRNA pairs
journal, May 2018
- Willis, Julian C. W.; Chin, Jason W.
- Nature Chemistry, Vol. 10, Issue 8
The 2.9 A crystal structure of T. thermophilus seryl-tRNA synthetase complexed with tRNA(Ser)
journal, March 1994
- Biou, V.; Yaremchuk, A.; Tukalo, M.
- Science, Vol. 263, Issue 5152, p. 1404-1410
Expanding the Genetic Code of an Animal
journal, September 2011
- Greiss, Sebastian; Chin, Jason W.
- Journal of the American Chemical Society, Vol. 133, Issue 36
Changing the identity of a transfer RNA
journal, May 1986
- Normanly, Jennifer; Ogden, Richard C.; Horvath, Suzanna J.
- Nature, Vol. 321, Issue 6067, p. 213-219
Rewriting the Genetic Code
journal, September 2017
- Mukai, Takahito; Lajoie, Marc J.; Englert, Markus
- Annual Review of Microbiology, Vol. 71, Issue 1
Pyrrolysyl-tRNA synthetase–tRNAPyl structure reveals the molecular basis of orthogonality
journal, December 2008
- Nozawa, Kayo; O’Donoghue, Patrick; Gundllapalli, Sarath
- Nature, Vol. 457, Issue 7233, p. 1163-1167
Collaboration of tRNA modifications and elongation factor eEF1A in decoding and nonsense suppression
text, January 2018
- Klassen, Roland; Schaffrath, Raffael
- Universität Kassel
Effects of Heterologous tRNA Modifications on the Production of Proteins Containing Noncanonical Amino Acids
journal, February 2018
- Crnković, Ana; Vargas-Rodriguez, Oscar; Merkuryev, Anna
- Bioengineering, Vol. 5, Issue 1
Why Nature Chose Selenium
journal, February 2016
- Reich, Hans J.; Hondal, Robert J.
- ACS Chemical Biology, Vol. 11, Issue 4
An Expanded Eukaryotic Genetic Code
journal, August 2003
- Chin, Jason W.; Cropp, T. Ashton; Anderson, J. Christopher
- Science, Vol. 301, Issue 5635, p. 964-967
Rewiring Translation for Elongation Factor Tu-Dependent Selenocysteine Incorporation
journal, November 2012
- Aldag, Caroline; Bröcker, Markus J.; Hohn, Michael J.
- Angewandte Chemie, Vol. 125, Issue 5
Preparation of Selenoinsulin as a Long-Lasting Insulin Analogue
journal, April 2017
- Arai, Kenta; Takei, Toshiki; Okumura, Masaki
- Angewandte Chemie International Edition, Vol. 56, Issue 20
Rationally evolving tRNA Pyl for efficient incorporation of noncanonical amino acids
journal, August 2015
- Fan, Chenguang; Xiong, Hai; Reynolds, Noah M.
- Nucleic Acids Research, Vol. 43, Issue 22
Tertiary structure of bacterial selenocysteine tRNA
journal, May 2013
- Itoh, Y.; Sekine, S.-i.; Suetsugu, S.
- Nucleic Acids Research, Vol. 41, Issue 13, p. 6729-6738
tRNA residues evolved to promote translational accuracy
journal, February 2013
- Shepotinovskaya, I.; Uhlenbeck, O. C.
- RNA, Vol. 19, Issue 4
Pyrrolysyl-tRNA synthetase: An ordinary enzyme but an outstanding genetic code expansion tool
journal, June 2014
- Wan, Wei; Tharp, Jeffery M.; Liu, Wenshe R.
- Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, Vol. 1844, Issue 6
Rewiring Translation for Elongation Factor Tu-Dependent Selenocysteine Incorporation
journal, November 2012
- Aldag, Caroline; Bröcker, Markus J.; Hohn, Michael J.
- Angewandte Chemie International Edition, Vol. 52, Issue 5, p. 1441-1445
Genetically Incorporating Two Distinct Post-translational Modifications into One Protein Simultaneously
journal, January 2018
- Venkat, Sumana; Sturges, Jourdan; Stahman, Alleigh
- ACS Synthetic Biology, Vol. 7, Issue 2
An Improved System for the Generation and Analysis of Mutant Proteins Containing Unnatural Amino Acids in Saccharomyces cerevisiae
journal, August 2007
- Chen, Shawn; Schultz, Peter G.; Brock, Ansgar
- Journal of Molecular Biology, Vol. 371, Issue 1, p. 112-122
Evolution of multiple, mutually orthogonal prolyl-tRNA synthetase/tRNA pairs for unnatural amino acid mutagenesis in Escherichia coli
journal, August 2012
- Chatterjee, A.; Xiao, H.; Schultz, P. G.
- Proceedings of the National Academy of Sciences, Vol. 109, Issue 37
Decameric SelA•tRNASec Ring Structure Reveals Mechanism of Bacterial Selenocysteine Formation
journal, April 2013
- Itoh, Y.; Brocker, M. J.; Sekine, S.-i.
- Science, Vol. 340, Issue 6128, p. 75-78
Threading the Needle: Getting Selenocysteine Into Proteins
journal, April 2010
- Donovan, Jesse; Copeland, Paul R.
- Antioxidants & Redox Signaling, Vol. 12, Issue 7
Mutants of Escherichia coli initiator tRNA that suppress amber codons in Saccharomyces cerevisiae and are aminoacylated with tyrosine by yeast extracts.
journal, December 1991
- Lee, C. P.; RajBhandary, U. L.
- Proceedings of the National Academy of Sciences, Vol. 88, Issue 24
Distribution and frequencies of post-transcriptional modifications in tRNAs
journal, December 2014
- Machnicka, Magdalena A.; Olchowik, Anna; Grosjean, Henri
- RNA Biology, Vol. 11, Issue 12
Switching recognition of two tRNA synthetases with an amino acid swap in a designed peptide
journal, March 1995
- Auld, D.; Schimmel, P.
- Science, Vol. 267, Issue 5206
Rationally evolving tRNA Pyl for efficient incorporation of noncanonical amino acids
journal, August 2015
- Fan, Chenguang; Xiong, Hai; Reynolds, Noah M.
- Nucleic Acids Research, Vol. 43, Issue 22
Rapid tRNA Decay Can Result from Lack of Nonessential Modifications
journal, January 2006
- Alexandrov, Andrei; Chernyakov, Irina; Gu, Weifeng
- Molecular Cell, Vol. 21, Issue 1
Elongation Factor Tu Mutants Expand Amino Acid Tolerance of Protein Biosynthesis System
journal, November 2007
- Doi, Yoshio; Ohtsuki, Takashi; Shimizu, Yoshihiro
- Journal of the American Chemical Society, Vol. 129, Issue 46
Evolution of multiple, mutually orthogonal prolyl-tRNA synthetase/tRNA pairs for unnatural amino acid mutagenesis in Escherichia coli
journal, August 2012
- Chatterjee, A.; Xiao, H.; Schultz, P. G.
- Proceedings of the National Academy of Sciences, Vol. 109, Issue 37
Relaxation of a transfer RNA specificity by removal of modified nucleotides
journal, April 1990
- Perret, Véronique; Garcia, Angela; Grosjean, Henri
- Nature, Vol. 344, Issue 6268
Nuclear RNA surveillance in Saccharomyces cerevisiae: Trf4p-dependent polyadenylation of nascent hypomethylated tRNA and an aberrant form of 5S rRNA
journal, March 2006
- Kadaba, S.
- RNA, Vol. 12, Issue 3
Switching recognition of two tRNA synthetases with an amino acid swap in a designed peptide
journal, March 1995
- Auld, D.; Schimmel, P.
- Science, Vol. 267, Issue 5206
Transfer RNA Misidentification Scrambles Sense Codon Recoding
journal, September 2013
- Krishnakumar, Radha; Prat, Laure; Aerni, Hans-Rudolf
- ChemBioChem, Vol. 14, Issue 15
A Versatile Platform for Single- and Multiple-Unnatural Amino Acid Mutagenesis in Escherichia coli
journal, February 2013
- Chatterjee, Abhishek; Sun, Sophie B.; Furman, Jennifer L.
- Biochemistry, Vol. 52, Issue 10
Role of modifications in tyrosine transfer RNA: A modified base affecting ribosome binding
journal, January 1969
- Gefter, Malcolm L.; Russell, Richard L.
- Journal of Molecular Biology, Vol. 39, Issue 1
Characterization of mSelB, a novel mammalian elongation factor for selenoprotein translation
journal, September 2000
- Fagegaltier, D.
- The EMBO Journal, Vol. 19, Issue 17
Domain Structure of the Prokaryotic Selenocysteine-specific Elongation Factor SelB
journal, October 1996
- Kromayer, M.; Wilting, R.; Tormay, P.
- Journal of Molecular Biology, Vol. 262, Issue 4
Continuous directed evolution of aminoacyl-tRNA synthetases
journal, October 2017
- Bryson, David I.; Fan, Chenguang; Guo, Li-Tao
- Nature Chemical Biology, Vol. 13, Issue 12
Expanding the Genetic Code of an Animal
journal, September 2011
- Greiss, Sebastian; Chin, Jason W.
- Journal of the American Chemical Society, Vol. 133, Issue 36
The 2.9 A crystal structure of T. thermophilus seryl-tRNA synthetase complexed with tRNA(Ser)
journal, March 1994
- Biou, V.; Yaremchuk, A.; Tukalo, M.
- Science, Vol. 263, Issue 5152, p. 1404-1410
Identification of a novel translation factor necessary for the incorporation of selenocysteine into protein
journal, November 1989
- Forchhammer, Karl; Leinfelder, Walfred; Böck, August
- Nature, Vol. 342, Issue 6248
Biosynthesis of selenocysteine on its tRNA in eukaryotes
journal, April 2007
- Xu, Xue‐Ming; Carlson, Bradley A.; Mix, Heiko
- The FASEB Journal, Vol. 21, Issue 5
Internal control regions for transcription of eukaryotic tRNA genes.
journal, November 1981
- Sharp, S.; DeFranco, D.; Dingermann, T.
- Proceedings of the National Academy of Sciences, Vol. 78, Issue 11
Nanoarchaeum equitans creates functional tRNAs from separate genes for their 5′- and 3′-halves
journal, February 2005
- Randau, Lennart; Münch, Richard; Hohn, Michael J.
- Nature, Vol. 433, Issue 7025
Understanding the Sequence Specificity of tRNA Binding to Elongation Factor Tu using tRNA Mutagenesis
journal, March 2009
- Schrader, Jared M.; Chapman, Stephen J.; Uhlenbeck, Olke C.
- Journal of Molecular Biology, Vol. 386, Issue 5, p. 1255-1264
Engineering an Automaturing Transglutaminase with Enhanced Thermostability by Genetic Code Expansion with Two Codon Reassignments
journal, July 2018
- Ohtake, Kazumasa; Mukai, Takahito; Iraha, Fumie
- ACS Synthetic Biology, Vol. 7, Issue 9
Eight base changes are sufficient to convert a leucine-inserting tRNA into a serine-inserting tRNA.
journal, June 1992
- Normanly, J.; Ollick, T.; Abelson, J.
- Proceedings of the National Academy of Sciences, Vol. 89, Issue 12
Adding New Chemistries to the Genetic Code
journal, June 2010
- Liu, Chang C.; Schultz, Peter G.
- Annual Review of Biochemistry, Vol. 79, Issue 1, p. 413-444
Translation system engineering in Escherichia coli enhances non-canonical amino acid incorporation into proteins: Translation system engineering in Escherichia coli
journal, February 2017
- Gan, Rui; Perez, Jessica G.; Carlson, Erik D.
- Biotechnology and Bioengineering, Vol. 114, Issue 5
tRNA biology charges to the front
journal, September 2010
- Phizicky, E. M.; Hopper, A. K.
- Genes & Development, Vol. 24, Issue 17
Evolving tRNASec for Efficient Canonical Incorporation of Selenocysteine
journal, December 2014
- Thyer, Ross; Robotham, Scott A.; Brodbelt, Jennifer S.
- Journal of the American Chemical Society, Vol. 137, Issue 1, p. 46-49
A synthetic tRNA for EF-Tu mediated selenocysteine incorporation in vivo and in vitro
journal, July 2015
- Miller, Corwin; Bröcker, Markus J.; Prat, Laure
- FEBS Letters, Vol. 589, Issue 17, p. 2194-2199
SerRS-tRNA Sec complex structures reveal mechanism of the first step in selenocysteine biosynthesis
journal, October 2015
- Wang, Caiyan; Guo, Yu; Tian, Qingnan
- Nucleic Acids Research
Preparation of Selenoinsulin as a Long-Lasting Insulin Analogue
journal, April 2017
- Arai, Kenta; Takei, Toshiki; Okumura, Masaki
- Angewandte Chemie International Edition, Vol. 56, Issue 20
Biosynthesis of Selenocysteine on Its tRNA in Eukaryotes
journal, December 2006
- Xu, Xue-Ming; Carlson, Bradley A; Mix, Heiko
- PLoS Biology, Vol. 5, Issue 1, Article No. e4
Uniform Binding of Aminoacyl-tRNAs to Elongation Factor Tu by Thermodynamic Compensation
journal, October 2001
- LaRiviere, Frederick J.; Wolfson, Alexey D.; Uhlenbeck, Olke C.
- Science, Vol. 294, Issue 5540, p. 165-168
An aminoacyl-tRNA synthetase that specifically activates pyrrolysine
journal, August 2004
- Polycarpo, C.; Ambrogelly, A.; Berube, A.
- Proceedings of the National Academy of Sciences, Vol. 101, Issue 34, p. 12450-12454
Chemical and Conformational Diversity of Modified Nucleosides Affects tRNA Structure and Function
journal, March 2017
- Väre, Ville; Eruysal, Emily; Narendran, Amithi
- Biomolecules, Vol. 7, Issue 4
An integrated, structure- and energy-based view of the genetic code
journal, July 2016
- Grosjean, Henri; Westhof, Eric
- Nucleic Acids Research, Vol. 44, Issue 17
The Human SepSecS-tRNASec Complex Reveals the Mechanism of Selenocysteine Formation
journal, July 2009
- Palioura, S.; Sherrer, R. L.; Steitz, T. A.
- Science, Vol. 325, Issue 5938, p. 321-325
Efficient Multisite Unnatural Amino Acid Incorporation in Mammalian Cells via Optimized Pyrrolysyl tRNA Synthetase/tRNA Expression and Engineered eRF1
journal, October 2014
- Schmied, Wolfgang H.; Elsässer, Simon J.; Uttamapinant, Chayasith
- Journal of the American Chemical Society, Vol. 136, Issue 44
Mutagenesis of selC , the gene for the selenocysteine-insertlng tRNA-species in E.coli : effects on in vivo function
journal, January 1990
- Baron, Christian; Heider, Johann; Böck, August
- Nucleic Acids Research, Vol. 18, Issue 23
Why Nature Chose Selenium
journal, February 2016
- Reich, Hans J.; Hondal, Robert J.
- ACS Chemical Biology, Vol. 11, Issue 4
An Evolved Methanomethylophilus alvus Pyrrolysyl-tRNA Synthetase/tRNA Pair Is Highly Active and Orthogonal in Mammalian Cells
journal, September 2018
- Beránek, Václav; Willis, Julian C. W.; Chin, Jason W.
- Biochemistry, Vol. 58, Issue 5
The pathway to GTPase activation of elongation factor SelB on the ribosome
journal, November 2016
- Fischer, Niels; Neumann, Piotr; Bock, Lars V.
- Nature, Vol. 540, Issue 7631, p. 80-85
Identification and characterization of a selenoprotein family containing a diselenide bond in a redox motif
journal, August 2007
- Shchedrina, V. A.; Novoselov, S. V.; Malinouski, M. Yu.
- Proceedings of the National Academy of Sciences, Vol. 104, Issue 35, p. 13919-13924
Isopentenyladenosine deficient tRNA from an antisuppressor mutant of Saccharomyces cerevisiae
journal, January 1978
- Laten, Howard; Gorman, John; Bock, Robert M.
- Nucleic Acids Research, Vol. 5, Issue 11
Efficient genetic encoding of phosphoserine and its nonhydrolyzable analog
journal, June 2015
- Rogerson, Daniel T.; Sachdeva, Amit; Wang, Kaihang
- Nature Chemical Biology, Vol. 11, Issue 7
The length of the aminoacyl-acceptor stem of the selenocysteine-specific tRNA(Sec) of Escherichia coli is the determinant for binding to elongation factors SELB or Tu.
journal, October 1991
- Baron, C.; Böck, A.
- Journal of Biological Chemistry, Vol. 266, Issue 30
Works referencing / citing this record:
Translational recoding: canonical translation mechanisms reinterpreted
journal, September 2019
- Rodnina, Marina V.; Korniy, Natalia; Klimova, Mariia
- Nucleic Acids Research, Vol. 48, Issue 3
Synthetic Tyrosine tRNA Molecules with Noncanonical Secondary Structures
journal, December 2018
- Sakamoto, Kensaku; Hayashi, Akiko
- International Journal of Molecular Sciences, Vol. 20, Issue 1