» Articles » PMID: 21930591

Evolutionary Optimization of Speed and Accuracy of Decoding on the Ribosome

Overview
Specialty Biology
Date 2011 Sep 21
PMID 21930591
Citations 79
Authors
Affiliations
Soon will be listed here.
Abstract

Speed and accuracy of protein synthesis are fundamental parameters for the fitness of living cells, the quality control of translation, and the evolution of ribosomes. The ribosome developed complex mechanisms that allow for a uniform recognition and selection of any cognate aminoacyl-tRNA (aa-tRNA) and discrimination against any near-cognate aa-tRNA, regardless of the nature or position of the mismatch. This review describes the principles of the selection-kinetic partitioning and induced fit-and discusses the relationship between speed and accuracy of decoding, with a focus on bacterial translation. The translational machinery apparently has evolved towards high speed of translation at the cost of fidelity.

Citing Articles

Translational error in mice increases with ageing in an organ-dependent manner.

Bottger E, Santhosh Kumar H, Steiner A, Sotirakis E, Thiam K, Isnard Petit P Nat Commun. 2025; 16(1):2069.

PMID: 40021653 PMC: 11871305. DOI: 10.1038/s41467-025-57203-z.


The Expanding Universe of Extensions and Tails: Ribosomal Proteins and Histones in RNA and DNA Complex Signaling and Dynamics.

Timsit Y Genes (Basel). 2025; 16(1).

PMID: 39858592 PMC: 11764897. DOI: 10.3390/genes16010045.


Ribosomal computing: implementation of the computational method.

Chatterjee P, Ghosal P, Shit S, Biswas A, Mallik S, Allabun S BMC Bioinformatics. 2024; 25(1):321.

PMID: 39358680 PMC: 11448306. DOI: 10.1186/s12859-024-05945-w.


Single-Molecule Studies of Cognate and Near-Cognate Elongation in an Eukaryotic Translation System.

Fritsch C, Bhattacharya A, Ng M, Li H, Nelson P, Cooperman B bioRxiv. 2024; .

PMID: 39257735 PMC: 11383654. DOI: 10.1101/2024.08.29.609187.


Fitness benefits of a synonymous substitution in an ancient EF-Tu gene depend on the genetic background.

McGrath K, Russell S, Fer E, Garmendia E, Hosgel A, Baltrus D J Bacteriol. 2024; 206(2):e0032923.

PMID: 38289064 PMC: 10882980. DOI: 10.1128/jb.00329-23.


References
1.
Villa E, Sengupta J, Trabuco L, LeBarron J, Baxter W, Shaikh T . Ribosome-induced changes in elongation factor Tu conformation control GTP hydrolysis. Proc Natl Acad Sci U S A. 2009; 106(4):1063-8. PMC: 2613361. DOI: 10.1073/pnas.0811370106. View

2.
Gromadski K, Wieden H, Rodnina M . Kinetic mechanism of elongation factor Ts-catalyzed nucleotide exchange in elongation factor Tu. Biochemistry. 2002; 41(1):162-9. DOI: 10.1021/bi015712w. View

3.
Stockbridge R, Lewis Jr C, Yuan Y, Wolfenden R . Impact of temperature on the time required for the establishment of primordial biochemistry, and for the evolution of enzymes. Proc Natl Acad Sci U S A. 2010; 107(51):22102-5. PMC: 3009776. DOI: 10.1073/pnas.1013647107. View

4.
Thomas L, Dix D, Thompson R . Codon choice and gene expression: synonymous codons differ in their ability to direct aminoacylated-transfer RNA binding to ribosomes in vitro. Proc Natl Acad Sci U S A. 1988; 85(12):4242-6. PMC: 280403. DOI: 10.1073/pnas.85.12.4242. View

5.
Gromadski K, Rodnina M . Streptomycin interferes with conformational coupling between codon recognition and GTPase activation on the ribosome. Nat Struct Mol Biol. 2004; 11(4):316-22. DOI: 10.1038/nsmb742. View