An in vitro evolved precursor tRNA with aminoacylation activity
Open accessAbstract
A set of catalysts for aminoacyl-tRNA synthesis is an essential component for translation. The RNA world hypothesis postulates that RNA catalysts could have played this role. Here we show an in vitro evolved precursor tRNA consisting of two domains, a catalytic 5'-leader sequence and an aminoacyl-acceptor tRNA. The 5'-leader sequence domain selectively self-charges phenylalanine on the 3'-terminus of the tRNA domain. This cis-acting ribozyme is susceptible to RNase P RNA, generating the corresponding 5'-leader segment and the mature tRNA. Moreover, the 5'-leader segment is able to aminoacylate the mature tRNA in trans. Mutational studies have revealed that C(74) and C(75) at the tRNA aminoacyl-acceptor end form base pairs with G71 and G70 of the trans-acting ribozyme. Such Watson-Crick base pairing with tRNA has been observed in RNase P RNA and 23S rRNA, suggesting that all three ribozymes use a similar mechanism for the recognition of the aminoacyl-acceptor end. Our demonstrations indicate that catalytic precursor tRNAs could have provided the foundations for the genetic coding system in the proto-translation system.
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Artificial selections have identified ribozymes capable of aminoacylating their own sequence or other sequences (and tRNAs) in trans at specific sites, using a variety of activated amino acids or modified precursors.
“Artificial selections have identified ribozymes capable of aminoacylating their own sequence or other sequences (and tRNAs) in trans at specific sites, using a variety of activated amino acids or modified precursors (Figure 3A) [180–185].”
From The RNA world as a model system to study the origin of life (2015) · cites this paper as [183]
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Cites
The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme
Guerrier-Takada, C., Gardiner, K., Marsh, T., Pace, N., & Altman, S. (1983) · Cell · doi:10.1016/0092-8674(83)90117-4 · Cited by 2,684 · see citing works
The origin of the genetic code
Crick, F. H. C. (1968) · Journal of Molecular Biology · doi:10.1016/0022-2836(68)90392-6 · Cited by 2,320 · see citing works
The Structural Basis of Ribosome Activity in Peptide Bond Synthesis
Nissen, P., Hansen, J., Ban, N., Moore, P. B., & Steitz, T. A. (2000) · Science · doi:10.1126/science.289.5481.920 · Cited by 2,269 · see citing works
Compilation of tRNA sequences and sequences of tRNA genes
Sprinzl, M. (2004) · Nucleic Acids Research · doi:10.1093/nar/gki012 · Cited by 1,916 · see citing works
In Vitro Selection of Functional Nucleic Acids
Wilson, D. S., & Szostak, J. W. (1999) · Annual Review of Biochemistry · doi:10.1146/annurev.biochem.68.1.611 · Cited by 1,209 · see citing works
Isolation of New Ribozymes from a Large Pool of Random Sequences
Bartel, D. P., & Szostak, J. W. (1993) · Science · doi:10.1126/science.7690155 · Cited by 900 · see citing works
DIVERSITY OF OLIGONUCLEOTIDE FUNCTIONS
Gold, L., Polisky, B. A., Uhlenbeck, O. C., & Yarus, M. (1995) · Annual Review of Biochemistry · doi:10.1146/annurev.bi.64.070195.003555 · Cited by 809 · see citing works
Compilation of tRNA sequences and sequences of tRNA genes
Sprinzl, M. (1998) · Nucleic Acids Research · doi:10.1093/nar/26.1.148 · Cited by 750 · see citing works
Unusual Resistance of Peptidyl Transferase to Protein Extraction Procedures
Noller, H. F., Hoffarth, V., & Zimniak, L. (1992) · Science · doi:10.1126/science.1604315 · Cited by 728 · see citing works
A simple structural feature is a major determinant of the identity of a transfer RNA
Hou, Y., & SCHIMMEL, P. R. (1988) · Nature · doi:10.1038/333140a0 · Cited by 604 · see citing works
SCHIMMEL, P. R. (1987) · Annual Review of Biochemistry · doi:10.1146/annurev.bi.56.070187.001013 · Cited by 546 · see citing works
A Computational Screen for Methylation Guide snoRNAs in Yeast
Lowe, T. M., & Eddy, S. R. (1999) · Science · doi:10.1126/science.283.5405.1168 · Cited by 467 · see citing works
RIBONUCLEASE P: Unity and Diversity in a tRNA Processing Ribozyme
Frank, D. N., & Pace, N. R. (1998) · Annual Review of Biochemistry · doi:10.1146/annurev.biochem.67.1.153 · Cited by 465 · see citing works
An operational RNA code for amino acids and possible relationship to genetic code.
SCHIMMEL, P. R., Giegé, R., Moras, D., & Yokoyama, S. (1993) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.90.19.8763 · Cited by 418 · see citing works
Aminoacyl-RNA Synthesis Catalyzed by an RNA
Illangasekare, M., Sánchez, G., Nickles, T., & Yarus, M. (1995) · Science · doi:10.1126/science.7530860 · Cited by 347 · see citing works
Weiner, A. M., & Maizels, N. (1987) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.84.21.7383 · Cited by 334 · see citing works
Structural and functional considerations of the aminoacylation reaction
Arnez, J. G. (1997) · Trends in Biochemical Sciences · doi:10.1016/s0968-0004(97)01052-9 · Cited by 305 · see citing works
Peptide bond formation by in vitro selected ribozymes
Zhang, B., & Cech, T. R. (1997) · Nature · doi:10.1038/36375 · Cited by 299 · see citing works
Famulok, M. (1994) · Journal of the American Chemical Society · doi:10.1021/ja00084a010 · Cited by 287 · see citing works
Blueprint for a cell - the nature and origin of life
(1991) · Choice Reviews Online · doi:10.5860/choice.28-5078 · Cited by 273 · see citing works
The molecular basis for the genetic code.
Woese, C. R., Dugre, D. H., Saxinger, W. C., & Dugre, S. A. (1966) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.55.4.966 · Cited by 270 · see citing works
Model Substrates for an RNA Enzyme
McClain, W. H., Guerrier-Takada, C., & Altman, S. (1987) · Science · doi:10.1126/science.2443980 · Cited by 270 · see citing works
A base pair between tRNA and 23S rRNA in the peptidyl transferase centre of the ribosome
Samaha, R. R., Green, R., & Noller, H. F. (1995) · Nature · doi:10.1038/377309a0 · Cited by 245 · see citing works
Ribozyme-catalysed amino-acid transfer reactions
Lohse, P. A., & Szostak, J. W. (1996) · Nature · doi:10.1038/381442a0 · Cited by 242 · see citing works
Base pairing between Escherichia coli RNase P RNA and its substrate.
Kirsebom, L. A., & Svärd, S. G. (1994) · The EMBO Journal · doi:10.1002/j.1460-2075.1994.tb06814.x · Cited by 206 · see citing works
A Specific Amino Acid Binding Site Composed of RNA
Yarus, M. (1988) · Science · doi:10.1126/science.3381099 · Cited by 202 · see citing works
Aminoacyl Esterase Activity of the Tetrahymena Ribozyme
Piccirilli, J. A., McConnell, T., Zaug, A. J., Noller, H. F., & Cech, T. R. (1992) · Science · doi:10.1126/science.1604316 · Cited by 198 · see citing works
Ribozyme-catalyzed tRNA aminoacylation
Lee (2000) · Nature Structural Biology · doi:10.1038/71225 · Cited by 191 · see citing works
Self-citationLiu, D. R., Magliery, T. J., Pastrnak, M., & Schultz, P. G. (1997) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.94.19.10092 · Cited by 184 · see citing works
Amplification, mutation and selection of catalytic RNA
Joyce, G. F. (1989) · Gene · doi:10.1016/0378-1119(89)90033-4 · Cited by 182 · see citing works
Transfer RNA recognition by aminoacyl-tRNA synthetases
Beuning, P. J., & Musier‐Forsyth, K. (1999) · Biopolymers · doi:10.1002/(sici)1097-0282(1999)52:1 · Cited by 164 · see citing works
Aminoacyl-tRNA synthesis: divergent routes to a common goal
Ibba, M., Curnow, A. W., & Söll, D. G. (1997) · Trends in Biochemical Sciences · doi:10.1016/s0968-0004(96)20033-7 · Cited by 144 · see citing works
Coding coenzyme handles: a hypothesis for the origin of the genetic code.
Szathmáry, E. (1993) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.90.21.9916 · Cited by 135 · see citing works
The Chemical Synthesis of Amino Acyl Adenylates
Berg, P. (1958) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(18)64713-1 · Cited by 132 · see citing works
An RNA pocket for an aliphatic hydrophobe
Majerfeld, I. H., & Yarus, M. (1994) · Nature Structural & Molecular Biology · doi:10.1038/nsb0594-287 · Cited by 119 · see citing works
Parameters for the molecular recognition of transfer RNAs
SCHIMMEL, P. R. (1989) · Biochemistry · doi:10.1021/bi00433a001 · Cited by 118 · see citing works
RNA–ligand chemistry: A testable source for the genetic code
YARUS, M. (2000) · RNA · doi:10.1017/s1355838200002569 · Cited by 113 · see citing works
Caprara, M. G., Lehnert, V., Lambowitz, A. M., & Westhof, É. (1996) · Cell · doi:10.1016/s0092-8674(00)81807-3 · Cited by 111 · see citing works
A novel ribozyme with ester transferase activity
Jenne, A., & Famulok, M. (1998) · Chemistry & Biology · doi:10.1016/s1074-5521(98)90084-9 · Cited by 97 · see citing works
Blueprint for a cell: The nature and origin of life
Weiner, A. (1991) · Cell · doi:10.1016/0092-8674(91)90519-5 · Cited by 85 · see citing works
Busch, S., Kirsebom, L. A., Notbohm, H., & Hartmann, R. K. (2000) · Journal of Molecular Biology · doi:10.1006/jmbi.2000.3789 · Cited by 81 · see citing works
Green, R., Samaha, R. R., & Noller, H. F. (1997) · Journal of Molecular Biology · doi:10.1006/jmbi.1996.0780 · Cited by 76 · see citing works
Specific, rapid synthesis of Phe-RNA by RNA
Illangasekare, M., & Yarus, M. (1999) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.96.10.5470 · Cited by 75 · see citing works
Anticodon-independent aminoacylation of an RNA minihelix with valine.
Frugier, M., Florentz, C., & Giegé, R. (1992) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.89.9.3990 · Cited by 75 · see citing works
Genetic code origins: tRNAs older than their synthetases?
de Pouplana, L. R., Turner, R. J., Steer, B. A., & SCHIMMEL, P. R. (1998) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.95.19.11295 · Cited by 72 · see citing works
Reverse transcriptase reads through a 2′–5′ linkage and a 2′-thiphosphate in a template
Lorsch, J. R., Bartel, D. P., & Szostak, J. W. (1995) · Nucleic Acids Research · doi:10.1093/nar/23.15.2811 · Cited by 69 · see citing works
Structural and Kinetic Characterization of an Acyl Transferase Ribozyme
Suga, H., Lohse, P. A., & Szostak, J. W. (1998) · Journal of the American Chemical Society · doi:10.1021/ja972472s · Cited by 62 · see citing works
Self-citationThe scene of a frozen accident
Ellington, A. D., KHRAPOV, M., & Shaw, C. A. (2000) · RNA · doi:10.1017/s1355838200000224 · Cited by 45 · see citing works
Guilt by association: The arginine case revisited
Knight, R. D., & Landweber, L. F. (2000) · RNA · doi:10.1017/s1355838200000145 · Cited by 43 · see citing works
Discriminating among the discriminator bases of tRNAs
Hou, Y. (1997) · Chemistry & Biology · doi:10.1016/s1074-5521(97)90252-0 · Cited by 38 · see citing works
Rapid selection of aminoacyl-tRNAs based on biotinylation of -NH2 group of charged amino acids
Pütz, J., Wientges, J., Schwienhorst, A., Sissler, M., Giegé, R., & Florentz, C. (1997) · Nucleic Acids Research · doi:10.1093/nar/25.9.1862 · Cited by 34 · see citing works
Diversity of Oligonucleotide Functions
Gold, L. (1995) · Annual Review of Biochemistry · doi:10.1146/annurev.biochem.64.1.763 · Cited by 34 · see citing works
When protein engineering confronts the tRNA world
SCHIMMEL, P. R., & Söll, D. G. (1997) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.94.19.10007 · Cited by 20 · see citing works
Selection of Viral RNA-Derived tRNA-Like Structures with Improved Valylation Activities
Wientges, J., Pütz, J., Giegé, R., Florentz, C., & Schwienhorst, A. (2000) · Biochemistry · doi:10.1021/bi992852l · Cited by 15 · see citing works
Synthesis of small RNA transcripts with discrete 5' and 3' ends.
Ziehler, W. A., & Engelke, D. R. (1996) · PubMed · doi:10.2144/19962004622 · Cited by 11 · see citing works
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The antiquity of RNA-based evolution.
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Goto, Y., Katoh, T., & Suga, H. (2011) · Nature Protocols · doi:10.1038/nprot.2011.331 · Cited by 477 · see citing works
Self-citationGopinath, S. C. B. (2006) · Analytical and Bioanalytical Chemistry · doi:10.1007/s00216-006-0826-2 · Cited by 394 · see citing works
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Self-citationIncorporation of Nonnatural Amino Acids Into Proteins
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The RNA world as a model system to study the origin of life
Pressman, A., Blanco, C., & Chen, I. A. (2015) · Current Biology · doi:10.1016/j.cub.2015.06.016 · Cited by 225 · see citing works
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White, S. H., & von HEIJNE, G. (2008) · Annual Review of Biophysics · doi:10.1146/annurev.biophys.37.032807.125904 · Cited by 201 · see citing works
Ribozyme Catalysis of Metabolism in the RNA World
Chen, X., Li, N., & Ellington, A. D. (2007) · Chemistry & Biodiversity · doi:10.1002/cbdv.200790055 · Cited by 196 · see citing works
A RaPID way to discover nonstandard macrocyclic peptide modulators of drug targets
Passioura, T., & Suga, H. (2017) · Chemical Communications · doi:10.1039/c6cc06951g · Cited by 194 · see citing works
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Self-citationModulation of the Rate of Peptidyl Transfer on the Ribosome by the Nature of Substrates
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Structural basis of specific tRNA aminoacylation by a small in vitro selected ribozyme
Xiao, H., Murakami, H., Suga, H., & Ferré-D’Amaré, A. R. (2008) · Nature · doi:10.1038/nature07033 · Cited by 154 · see citing works
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Synthesis of Polyester by Means of Genetic Code Reprogramming
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Self-citationRibozymes and Riboswitches: Modulation of RNA Function by Small Molecules
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Self-citationThe Expanding View of RNA and DNA Function
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Coevolution Theory of the Genetic Code at Age Forty: Pathway to Translation and Synthetic Life
Wong, J., Ng, S.-K., Mat, W.-K., Hu, T., & Xue, H. (2016) · Life · doi:10.3390/life6010012 · Cited by 93 · see citing works
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Self-citationFlexizymes: Their Evolutionary History and the Origin of Catalytic Function
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Self-citationExpanding the limits of the second genetic code with ribozymes
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Ribosomal synthesis and folding of peptide-helical aromatic foldamer hybrids
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Self-citationMüller, U. F. (2006) · Cellular and Molecular Life Sciences · doi:10.1007/s00018-006-6047-1 · Cited by 79 · see citing works
Using a solid-phase ribozyme aminoacylation system to reprogram the genetic code
Murakami, H., Kourouklis, D., & Suga, H. (2003) · Chemistry & Biology · doi:10.1016/j.chembiol.2003.10.010 · Cited by 80 · see citing works
Self-citationAn orthogonal ribosome-tRNA pair via engineering of the peptidyl transferase center
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Self-citationRapid and simple ribozymic aminoacylation using three conserved nucleotides
Chumachenko, N. V., Novikov, Y., & Yarus, M. (2009) · Journal of the American Chemical Society · doi:10.1021/ja809419f · Cited by 68 · see citing works
Inhibited cell growth and protein functional changes from an editing-defective tRNA synthetase
Bacher, J. M., de Crécy‐Lagard, V., & SCHIMMEL, P. R. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0409064102 · Cited by 73 · see citing works
Evolutionary origins and directed evolution of RNA
Ellington, A. D., Chen, X., Robertson, M. P., & Syrett, H. A. (2008) · The International Journal of Biochemistry & Cell Biology · doi:10.1016/j.biocel.2008.08.015 · Cited by 68 · see citing works
Synthetic biology with RNA motifs
Saito, H., & Inoue, T. (2008) · The International Journal of Biochemistry & Cell Biology · doi:10.1016/j.biocel.2008.08.017 · Cited by 60 · see citing works
Self-citationÖjemalm, K., Higuchi, T., Jiang, Y., Langel, Ü., Nilsson, I., White, S. H., Suga, H., & von HEIJNE, G. (2011) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1100120108 · Cited by 55 · see citing works
Self-citationPrimordial Genetics: Phenotype of the Ribocyte
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Amino acid substrates impose polyamine, eIF5A, or hypusine requirement for peptide synthesis
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Silverman, S. K. (2009) · Springer eBooks · doi:10.1007/978-0-387-73711-9_3 · Cited by 52 · see citing works
A Ribozyme Exclusively Aminoacylates the 3‘-Hydroxyl Group of the tRNA Terminal Adenosine
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Self-citationVerma, S. K., Jäger, S., Thum, O., & Famulok, M. (2003) · The Chemical Record · doi:10.1002/tcr.10047 · Cited by 43 · see citing works
Concurrent molecular recognition of the amino acid and tRNA by a ribozyme.
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Terasaka, N., Iwane, Y., Geiermann, A., Goto, Y., & Suga, H. (2015) · International Journal of Molecular Sciences · doi:10.3390/ijms16036513 · Cited by 31 · see citing works
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Self-citationThe RNA origin of transfer RNA aminoacylation and beyond
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Balke, D., Wichert, C., Appel, B., & Müller, S. (2014) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-014-5528-7 · Cited by 13 · see citing works
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Ogawa, A., Namba, Y., & Gakumasawa, M. (2016) · Organic & Biomolecular Chemistry · doi:10.1039/c5ob02533h · Cited by 10 · see citing works
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Wang, T., Liang, C., Xu, H., An, Y., Xiao, S., Zheng, M., Liu, L., & Nie, L. (2020) · World Journal of Microbiology and Biotechnology · doi:10.1007/s11274-020-02837-y · Cited by 10 · see citing works
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Self-citationWang, T.-P., Su, Y.-C., Chen, Y., Liou, Y.-M., Lin, K.-L., Wang, E.-C., Hwang, L., Wang, Y., & Chen, Y. (2011) · Biochemistry · doi:10.1021/bi201585d · Cited by 9 · see citing works
Fitness Landscapes, Error Thresholds, and Cofactors in Aptamer Evolution
Kun, Á., Maurel, M., Mauro Santos, A., & Szathmáry, E. (2006) · Wiley eBooks · doi:10.1002/3527608192.ch3 · Cited by 9 · see citing works
- Authors
- Saito, H., Kourouklis, D., & Suga, H.
- Affiliations
- University at Buffalo, State University of New York (US)
- Corresponding author
- Suga, Hiroaki
- Venue
- The EMBO Journal
- Published
- 2001-04-02
- Volume
- 20
- Issue
- 7
- Pages
- 1797-1806
- ISSN
- 0261-4189 (ISSN-L)
- 1460-2075
- PMC
- PMC145511
- OpenAlex
- W2029181479
- Cited by
- 145
- References
- 55
- Citations by year
- 2026: 2 · 2025: 2 · 2024: 8 · 2023: 7 · 2022: 4 · 2021: 5 · 2020: 6 · 2019: 6 · 2018: 4 · 2017: 9 · 2016: 5 · 2015: 5 · 2014: 4 · 2013: 2 · 2012: 2
- FWCI
- 2.56
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- The EMBO Journal (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Funders
- National Institutes of Health
- Japan Society for the Promotion of Science
- National Institute of General Medical Sciences (GM-59159, R01GM059159)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA and protein synthesis mechanisms
- Physical Sciences › Physics and Astronomy › Astronomy and Astrophysics › Origins and Evolution of Life
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA modifications and cancer
- Keywords
- aminoacyl-tRNA synthetase, in vitro evolution, ribozymes, RNA world, aminoacylation, trans-acting ribozyme, RNase P RNA, Watson-Crick base pairing, origin of translation, origin of the genetic code
- MeSH terms
- Acylation, Base Sequence, Endoribonucleases, Molecular Sequence Data, Nucleic Acid Conformation, RNA Precursors, Mutagenesis, RNA, Catalytic, Ribonuclease P
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