4.8 Review

The tRNA identity landscape for aminoacylation and beyond

Related references

Note: Only part of the references are listed.
Article Biochemistry & Molecular Biology

Recognition of tRNAIle with a UAU anticodon by isoleucyl-tRNA synthetase in lactic acid bacteria

Gakuto Uesugi et al.

Summary: In eubacteria, the AUA codon is translated by tRNA(Ile2) with lysidine at the wobble position. Lactobacillus casei can charge tRNA(Ile2)(UAU) with isoleucine, but Lactobacillus plantarum cannot. Ala18 and Gly19 in L. casei IleRS are critical for recognition of tRNA(Ile2)(UAU).

FEBS JOURNAL (2022)

Article Biochemistry & Molecular Biology

Commonality and diversity in tRNA substrate recognition in t6A biogenesis by eukaryotic KEOPSs

Jin-Tao Wang et al.

Summary: This study reveals the crucial role of t(6)A modification in tRNA(Ile) aminoacylation and codon decoding, as well as the commonality and diversity in substrate recognition by eukaryotic KEOPS.

NUCLEIC ACIDS RESEARCH (2022)

Article Biochemistry & Molecular Biology

MODOMICS: a database of RNA modification pathways. 2021 update

Pietro Boccaletto et al.

Summary: MODOMICS database, established since 2006, has evolved from containing basic chemical structures of modified ribonucleosides to a comprehensive resource with new functionalities such as a catalog of RNA modifications linked to human diseases. The database, which is extensively linked to RCSB Protein Data Bank, provides users with an enhanced tool for research on RNA modification.

NUCLEIC ACIDS RESEARCH (2022)

Article Multidisciplinary Sciences

Switching a conflicted bacterial DTD-tRNA code is essential for the emergence of mitochondria

Jotin Gogoi et al.

Summary: Mitochondria, formed through an endosymbiotic event, integrated components from two distinct ancestors and novel eukaryotic elements for successful evolution and survival. This study identified two key switches in the translational machinery that enable the compatibility and survival of disparate elements. Additionally, the study revealed a unique code transition in the mito-tRNA(Gly) discriminator element during the bacteria-to-mitochondria transition.

SCIENCE ADVANCES (2022)

Article Biochemistry & Molecular Biology

Required Elements in tRNA for Methylation by the Eukaryotic tRNA (Guanine-N2-) Methyltransferase (Trm11-Trm112 Complex)

Yu Nishida et al.

Summary: The Saccharomyces cerevisiae Trm11-Trm112 complex methylates the 2-amino group of guanosine at position 10 in tRNA, and this study investigates the elements required for methylation. The results show that precursor tRNA, tRNA with a special structure, and tRNA lacking the CCA terminus or regular-size variable region are not substrates for Trm11-Trm112. Additionally, the G10-C25 base pair is necessary for methylation, and Trm11-Trm112 also recognizes the anticodon-loop. The study provides insights into the m(2)G10 modification pattern of S. cerevisiae class I tRNAs and identifies Trm11-Trm112 binding sites.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2022)

Article Biochemistry & Molecular Biology

Evolutionary Adjustment of tRNA Identity Rules in Bacillariophyta for Recognition by an Aminoacyl-tRNA Synthetase Adds a Facet to the Origin of Diatoms

Gabor L. Igloi

Summary: Error-free protein synthesis relies on precise recognition by aminoacyl-tRNA synthetases of their cognate tRNAs. Identity elements tend to cluster in certain regions of tRNA, but some organisms, like Diatoms, have unique patterns.

JOURNAL OF MOLECULAR EVOLUTION (2022)

Article Biochemistry & Molecular Biology

The tRNA discriminator base defines the mutual orthogonality of two distinct pyrrolysyl-tRNA synthetase/tRNA(Pyl) pairs in the same organism

Haolin Zhang et al.

Summary: This study identified two mutually orthogonal PyIRS/tRNA(Pyl) pairs in a halophilic methanogen,and demonstrated that they can simultaneously decode different codons for the incorporation of distinct non-canonical amino acids.

NUCLEIC ACIDS RESEARCH (2022)

Article Biochemistry & Molecular Biology

Eukaryotic tRNA sequences present conserved and amino acid-specific structural signatures

Eric Westhof et al.

Summary: Metazoan organisms have highly conserved tRNA sequence motifs, despite the presence of a large number of tRNA genes. Non-Watson-Crick base pairs, especially GoU pairs, play important roles in the structure and function of tRNAs.

NUCLEIC ACIDS RESEARCH (2022)

Review Biochemistry & Molecular Biology

Chiral proofreading during protein biosynthesis and its evolutionary implications

Pradeep Kumar et al.

Summary: Homochirality is essential for the proper functioning of biomacromolecules in all life forms. DTD enzyme plays a role in maintaining homochirality by removing mistakenly attached D-amino acids during protein synthesis. The activity of DTD is modulated by discriminator base in tRNA, which protects the correct pairing of tRNA.

FEBS LETTERS (2022)

Article Multidisciplinary Sciences

Crystal structure of the Ate1 arginyl-tRNA-protein transferase and arginylation of N-degron substrates

Bong Heon Kim et al.

Summary: This study presents the crystal structure of the Ate1 R-transferase from Kluyveromyces lactis, which consists of two domains that recognize the acidic N-terminal residue of an acceptor substrate, the Arg residue of Arg-tRNA(Arg), and a segment of the tRNA(Arg) moiety. The active site of the enzyme is located between the two domains. The study also suggests potential binding sites of Ate1 and analyzes the inhibition of Ate1's N-terminal arginylation activity by hemin, which induces disulfide-mediated oligomerization of Ate1. These findings contribute to the understanding of the R-transferase and the Arg/N-degron pathway.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2022)

Article Biochemistry & Molecular Biology

Ancestral archaea expanded the genetic code with pyrrolysine

Li -Tao Guo et al.

Summary: The pyrrolysyl-tRNA synthetase (PylRS) is a major route to install noncanonical amino acids into proteins in living cells due to its tolerance for diverse amino acid substrates and orthogonality in multiple organisms. A novel class of PylRS enzymes was identified in a subset of methanogenic archaea, lacking the N-terminal tRNA-binding domain yet remaining active and orthogonal in bacteria and eukaryotes. Molecular phylogeny analysis revealed the coevolutionary history of PylRS and tRNAPyl, with the emergence of tRNAPyl sequences containing unique discriminator bases that may enable further genetic code expansion efforts.

JOURNAL OF BIOLOGICAL CHEMISTRY (2022)

Article Plant Sciences

PlantRNA 2.0: an updated database dedicated to tRNAs of photosynthetic eukaryotes

Valerie Cognat et al.

Summary: PlantRNA is a comprehensive database of tRNA gene sequences retrieved from various photosynthetic organisms, covering the entire phylogenetic tree. The database includes a large number of accurately annotated tRNA genes and provides detailed biological information.

PLANT JOURNAL (2022)

Article Multidisciplinary Sciences

Structural basis for shape-selective recognition and aminoacylation of a D-armless human mitochondrial tRNA

Bernhard Kuhle et al.

Summary: This study reports the structures of a mitochondrial aaRS-tRNA complex and reveals the unique mechanism of substrate recognition and aminoacylation in severely degenerated mtRNA(Ser(GCU)). The findings provide a molecular framework to understand the principles of mito-nuclear co-evolution and specialized mechanisms of tRNA recognition in mammalian mitochondrial gene expression.

NATURE COMMUNICATIONS (2022)

Review Biochemistry & Molecular Biology

Transfer RNAs: diversity in form and function

Matthew D. Berg et al.

Summary: tRNA, as the adaptor that decodes mRNA into protein, plays a central role in biology studies. Their structures and functions are more complex than just participating in protein synthesis. Through over 60 years of research, tRNAs have been revealed to be a diverse group of molecules impacting cell biology, physiology, disease, and synthetic biology.

RNA BIOLOGY (2021)

Article Biochemistry & Molecular Biology

Structural diversity and phylogenetic distribution of valyl tRNA-like structures in viruses

Madeline E. Sherlock et al.

Summary: Viruses often utilize specifically folded RNA elements to interact with host and viral proteins, with TLSval being an example. Research has confirmed the structural diversity and functional characteristics of TLSval through bioinformatic and biochemical investigations.
Article Biochemistry & Molecular Biology

Coding triplets in the tRNA acceptor-TψC arm and their role in present and past tRNA recognition

Ilana Agmon et al.

Summary: The recognition and evolution mechanism between key components of the translation system, such as tRNAs, synthetases, and elongation factors, are crucial for understanding how genetic information is translated into proteins. Statistical analysis of bacterial tRNA sequences indicates that certain coding triplets preceding the tRNA 3' end are highly conserved and play important roles in the recognition by elongation factors and synthetases. These coding triplets are suggested to have ancient origins and were likely involved in the aminoacylation of prebiotic tRNAs and the establishment of the canonical codon set.

FEBS LETTERS (2021)

Review Genetics & Heredity

RNA modifications as a common denominator between tRNA and mRNA

Ofri Levi et al.

Summary: Recent studies emphasize RNA modifications as a novel mechanism to coordinate the expression and function of different genes, discussing the functional significance of modifications present in both tRNA and mRNA in RNA regulation, and suggesting that common features between RNA types will expand the understanding of connecting tRNA processes and mRNA regulation.

CURRENT GENETICS (2021)

Review Biochemistry & Molecular Biology

Human transfer RNA modopathies: diseases caused by aberrations in transfer RNA modifications

Takeshi Chujo et al.

Summary: tRNA molecules play crucial roles in protein synthesis, and aberrations in tRNA modifications can lead to tRNA modopathies, which manifest as dysfunctions of the brain and/or kidney, mitochondrial diseases, and cancer. However, the molecular mechanisms linking aberrant tRNA modifications to diseases remain largely unknown.

FEBS JOURNAL (2021)

Review Biochemistry & Molecular Biology

The molecular pathology of pathogenic mitochondrial tRNA variants

Uwe Richter et al.

Summary: Mitochondrial diseases are a group of clinically and genetically heterogeneous disorders caused by pathogenic variants in either the nuclear or mitochondrial genome. This review focuses on the most common pathogenic mt-tRNA variants, exploring their clinical manifestations, molecular pathologies, and potential molecular mechanisms of disease. Additionally, the role of mitochondrial-nuclear crosstalk in the manifestation of mt-tRNA-associated disease and the potential for developing treatment options are discussed.

FEBS LETTERS (2021)

Article Biochemistry & Molecular Biology

Evolutionary repair reveals an unexpected role of the tRNA modification m1G37 in aminoacylation

Ben E. Clifton et al.

Summary: This study investigated the essential function of tRNA modification m(1)G37 introduced by TrmD in bacteria. Experimental evolution of trmD mutant strains of E. coli revealed that the loss of m(1)G37 could be tolerated due to rapid recovery of growth rate via duplication or mutation of the proline-tRNA ligase gene proS. The inefficient aminoacylation of tRNA(Pro) was identified as the main reason for growth defects in trmD mutant strains, and proS was suggested to act as a gatekeeper of translational accuracy.

NUCLEIC ACIDS RESEARCH (2021)

Review Cell Biology

The expanding world of tRNA modifications and their disease relevance

Tsutomu Suzuki

Summary: tRNAs undergo heavy post-transcriptional modifications, which play crucial roles in accurate codon recognition and reading frame maintenance during protein synthesis. Recent studies have shown that tRNA modifications can be dynamically altered in response to cellular and environmental stresses, and deficiencies in tRNA modification can lead to mitochondrial diseases, neurological disorders, and cancer.

NATURE REVIEWS MOLECULAR CELL BIOLOGY (2021)

Article Multidisciplinary Sciences

A viral RNA hijacks host machinery using dynamic conformational changes of a tRNA-like structure

Steve L. Bonilla et al.

Summary: Viruses utilize multifunctional structured RNAs to manipulate host biochemistry, and cryo-EM has revealed the structure of viral transfer RNA-like structures and their interactions with enzymes, demonstrating the noncanonical interactions used by viruses to bind host machinery.

SCIENCE (2021)

Article Cell Biology

Molecular basis of glycyl-tRNAGly acetylation by TacT from Salmonella Typhimurium

Yuka Yashiro et al.

Summary: The bacterial toxin TacT specifically acetylates Gly-tRNA(Gly), promoting persister formation, by recognizing discriminator U73 and G71 in tRNA(Gly) isoacceptors. This specific acetylation of aminoacyl-tRNAs by TacT provides insights for drug design targeting Salmonella.

CELL REPORTS (2021)

Article Biochemistry & Molecular Biology

An expanded class of histidine-accepting viral tRNA-like structures

Conner J. Langeberg et al.

Summary: Structured RNA elements like TLSHis are commonly found in viral RNA genomes and play critical roles during viral infection. This study identified new examples of TLSHis, validated their structure models, and expanded our understanding of how diverse RNA sequences achieve tRNA-like structure and function. These results lay the groundwork for high-resolution structural studies of tRNA mimicry by histidine-accepting TLSs.
Article Biochemistry & Molecular Biology

New substrates and determinants for tRNA recognition of RNA methyltransferase DNMT2/TRDMT1

Huari Li et al.

Summary: The study demonstrates that DNMT2/TRDMT1 has a preference for substrate tRNA(Gly-GCC) in vitro, and the L-shaped conformation of classical tRNA might facilitate its activity. It is found that the complete sequence and structure of tRNA are not essential for DNMT2/TRDMT1 activity, but the T-arm is indispensable. Additionally, certain bases in the D-loop and T-loop regions are identified as critical for DNMT2/TRDMT1 to function effectively.

RNA BIOLOGY (2021)

Article Genetics & Heredity

Novel Structural Variation and Evolutionary Characteristics of Chloroplast tRNA in Gossypium Plants

Ting-Ting Zhang et al.

Summary: This study provides a detailed analysis of the structural variation and evolution of chloroplast tRNAs in cotton plants, revealing specific characteristics and evolutionary changes in tRNA in the cotton chloroplast genome.

GENES (2021)

Article Genetics & Heredity

Hopeful monsters: unintended sequencing of famously malformed mite mitochondrial tRNAs reveals widespread expression and processing of sense-antisense pairs

Jessica M. Warren et al.

Summary: Although tRNA structure is highly conserved, aberrant tRNAs are frequently found in metazoan mitochondrial genomes. Acariform mites are predicted to have highly degenerate mt-tRNAs without the typical cloverleaf-like shape. Sequencing the mt-tRNAs of the common plant pest Tetranychus urticae revealed not only expression, CCA-tailing, and post-transcriptional base modification, but also paired sense and antisense expression of multiple mt-tRNAs, adding a new dimension to mitochondrial tRNA biology.

NAR GENOMICS AND BIOINFORMATICS (2021)

Article Microbiology

Archaeosine Modification of Archaeal tRNA: Role in Structural Stabilization

Ben Turner et al.

JOURNAL OF BACTERIOLOGY (2020)

Article Multidisciplinary Sciences

Relaxed sequence constraints favor mutational freedom in idiosyncratic metazoan mitochondrial tRNAs

Bernhard Kuhle et al.

NATURE COMMUNICATIONS (2020)

Review Biochemistry & Molecular Biology

Aminoacyl-tRNA synthetases

Miguel Angel Rubio Gomez et al.

Article Biochemistry & Molecular Biology

The tRNA-like small noncoding RNA mascRNA promotes global protein translation

Xinping Lu et al.

EMBO REPORTS (2020)

Article Multidisciplinary Sciences

RNA abasic sites in yeast and human cells

Yaojuan Liu et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2020)

Article Biochemistry & Molecular Biology

The challenge of Coccidae (Hemiptera: Coccoidea) mitochondrial genomes: The case of Saissetia coffeae with novel truncated tRNAs and gene rearrangements

Congcong Lu et al.

INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES (2020)

Article Biochemistry & Molecular Biology

On the expanding roles of tRNA fragments in modulating cell behavior

Rogan Magee et al.

NUCLEIC ACIDS RESEARCH (2020)

Article Multidisciplinary Sciences

Complete chemical structures of human mitochondrial tRNAs

Takeo Suzuki et al.

NATURE COMMUNICATIONS (2020)

Review Microbiology

Recent Advances in Archaeal Translation Initiation

Emmanuelle Schmitt et al.

FRONTIERS IN MICROBIOLOGY (2020)

Review Microbiology

Naturally Occurring tRNAs With Non-canonical Structures

Natalie Krahn et al.

FRONTIERS IN MICROBIOLOGY (2020)

Article Plant Sciences

Genomic and evolutionary aspects of chloroplast tRNA in monocot plants

Tapan Kumar Mohanta et al.

BMC PLANT BIOLOGY (2019)

Article Biochemistry & Molecular Biology

The G3-U70-independent tRNA recognition by human mitochondrial alanyl-tRNA synthetase

Qi-Yu Zeng et al.

NUCLEIC ACIDS RESEARCH (2019)

Article Biochemistry & Molecular Biology

Matching tRNA modifications in humans to their known and predicted enzymes

Valerie de Crecy-Lagard et al.

NUCLEIC ACIDS RESEARCH (2019)

Review Biochemistry & Molecular Biology

Plasticity and Constraints of tRNA Aminoacylation Define Directed Evolution of Aminoacyl-tRNA Synthetases

Ana Crnkovic et al.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2019)

Article Biochemistry & Molecular Biology

tRNAviz: explore and visualize tRNA sequence features

Brian Y. Lin et al.

NUCLEIC ACIDS RESEARCH (2019)

Article Biotechnology & Applied Microbiology

Arm-less mitochondrial tRNAs conserved for over 30 millions of years in spiders

Joan Pons et al.

BMC GENOMICS (2019)

Article Biochemistry & Molecular Biology

Stereospecificity control in aminoacyl-tRNA-synthetases: new evidence of D-amino acids activation and editing

Mariia Yu Rybak et al.

NUCLEIC ACIDS RESEARCH (2019)

Review Biochemistry & Molecular Biology

Chiral checkpoints during protein biosynthesis

Santosh Kumar Kuncha et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2019)

Review Biochemistry & Molecular Biology

Pathways to disease from natural variations in human cytoplasmic tRNAs

Jeremy T. Lant et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2019)

Article Biochemistry & Molecular Biology

Characterization of redundant tRNA(Ile)s with CAU and UAU anticodons in Lactobacillus plantarum

Chie Tomikawa et al.

JOURNAL OF BIOCHEMISTRY (2018)

Review Cell Biology

The emerging complexity of the tRNA world: mammalian tRNAs beyond protein synthesis

Paul Schimmel

NATURE REVIEWS MOLECULAR CELL BIOLOGY (2018)

Article Biochemistry & Molecular Biology

Editing activity for eliminating mischarged tRNAs is essential in mammalian mitochondria

Taru Hilander et al.

NUCLEIC ACIDS RESEARCH (2018)

Article Biology

Identity Elements of tRNA as Derived from Information Analysis

Gabriel S. Zamudio et al.

ORIGINS OF LIFE AND EVOLUTION OF BIOSPHERES (2018)

Review Biochemistry & Molecular Biology

tRNAPyl: Structure, function, and applications

Jeffery M. Tharp et al.

RNA BIOLOGY (2018)

Article Biochemistry & Molecular Biology

Transfer RNA-derived fragments target and regulate ribosome-associated aminoacyl-transfer RNA synthetases

Anna M. Mleczko et al.

BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS (2018)

Review Biology

What is code biology?

Marcello Barbieri

BIOSYSTEMS (2018)

Article Biochemistry & Molecular Biology

Kinetic Origin of Substrate Specificity in Post-Transfer Editing by Leucyl-tRNA Synthetase

Morana Dulic et al.

JOURNAL OF MOLECULAR BIOLOGY (2018)

Article Biochemistry & Molecular Biology

Structure of Escherichia coli Arginyl-tRNA Synthetase in Complex with tRNAArg: Pivotal Role of the D-loop

Preyesh Stephen et al.

JOURNAL OF MOLECULAR BIOLOGY (2018)

Article Biochemistry & Molecular Biology

Small but large enough: structural properties of armless mitochondrial tRNAs from the nematode Romanomermis culicivorax

Tina Juehling et al.

NUCLEIC ACIDS RESEARCH (2018)

Article Biochemistry & Molecular Biology

Conditional accumulation of toxic tRNAs to cause amino acid misincorporation

Stephanie M. Zimmerman et al.

NUCLEIC ACIDS RESEARCH (2018)

Article Multidisciplinary Sciences

Distinct ways of G:U recognition by conserved tRNA binding motifs

Yeeting E. Chong et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2018)

Review Cell Biology

Repertoires of tRNAs: The Couplers of Genomics and Proteomics

Roni Rak et al.

ANNUAL REVIEW OF CELL AND DEVELOPMENTAL BIOLOGY, VOL 34 (2018)

Article Biochemistry & Molecular Biology

Designing seryl-tRNA synthetase for improved serylation of selenocysteine tRNAs

Xian Fu et al.

FEBS LETTERS (2018)

Review Biochemistry & Molecular Biology

Function and origin of mistranslation in distinct cellular contexts

Michael H. Schwartz et al.

CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY (2017)

Article Biochemistry & Molecular Biology

GtRNAdb 2.0: an expanded database of transfer RNA genes identified in complete and draft genomes

Patricia P. Chan et al.

NUCLEIC ACIDS RESEARCH (2016)

Article Biochemistry & Molecular Biology

A Human Disease-causing Point Mutation in Mitochondrial Threonyl-tRNA Synthetase Induces Both Structural and Functional Defects

Yong Wang et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2016)

Article Chemistry, Multidisciplinary

Evolutionary Gain of Alanine Mischarging to Noncognate tRNAs with a G4:U69 Base Pair

Litao Sun et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2016)

Article Biochemistry & Molecular Biology

An integrated, structure- and energy-based view of the genetic code

Henri Grosjean et al.

NUCLEIC ACIDS RESEARCH (2016)

Article Multidisciplinary Sciences

Translation quality control is critical for bacterial responses to amino acid stress

Tammy J. Bullwinkle et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2016)

Review Biochemistry & Molecular Biology

Biogenesis and Function of Transfer RNA-Related Fragments (tRFs)

Pankaj Kumar et al.

TRENDS IN BIOCHEMICAL SCIENCES (2016)

Article Biochemistry & Molecular Biology

Pathogenic mitochondrial mt-tRNAAla variants are uniquely associated with isolated myopathy

Diana Lehmann et al.

EUROPEAN JOURNAL OF HUMAN GENETICS (2015)

Review Biochemistry & Molecular Biology

MD Simulations of tRNA and Aminoacyl-tRNA Synthetases: Dynamics, Folding, Binding, and Allostery

Rongzhong Li et al.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2015)

Article Biochemistry & Molecular Biology

Modulation of Aminoacylation and Editing Properties of Leucyl-tRNA Synthetase by a Conserved Structural Module

Wei Yan et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2015)

Article Biochemistry & Molecular Biology

Functional Class I and II Amino Acid-activating Enzymes Can Be Coded by Opposite Strands of the Same Gene

Luis Martinez-Rodriguez et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2015)

Article Biochemistry & Molecular Biology

Essentiality of threonylcarbamoyladenosine (t6A), a universal tRNA modification, in bacteria

Patrick C. Thiaville et al.

MOLECULAR MICROBIOLOGY (2015)

Article Biochemistry & Molecular Biology

Structural basis for recognition of G-1-containing tRNA by histidyl-tRNA synthetase

Qingnan Tian et al.

NUCLEIC ACIDS RESEARCH (2015)

Article Multidisciplinary Sciences

Homologous trans-editing factors with broad tRNA specificity prevent mistranslation caused by serine/threonine misactivation

Ziwei Liu et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2015)

Review Cell Biology

Cutting, dicing, healing and sealing: the molecular surgery of tRNA

Raphael R. S. Lopes et al.

WILEY INTERDISCIPLINARY REVIEWS-RNA (2015)

Article Biochemistry & Molecular Biology

Life without post-transcriptional addition of G-1: two alternatives for tRNAHis identity in Eukarya

Bhalchandra S. Rao et al.

Review Biochemistry & Molecular Biology

Mistranslation of the genetic code

Adil Moghal et al.

FEBS LETTERS (2014)

Article Biochemistry & Molecular Biology

Coevolution of Specificity Determinants in Eukaryotic Glutamyl- and Glutaminyl-tRNA Synthetases

Andrew Hadd et al.

JOURNAL OF MOLECULAR BIOLOGY (2014)

Article Multidisciplinary Sciences

The structural basis of transfer RNA mimicry and conformational plasticity by a viral RNA

Timothy M. Colussi et al.

NATURE (2014)

Article Multidisciplinary Sciences

Deficiencies in tRNA synthetase editing activity cause cardioproteinopathy

Ye Liu et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2014)

Article Biochemistry & Molecular Biology

tRNA anticodon shifts in eukaryotic genomes

Hubert H. Rogers et al.

Editorial Material Genetics & Heredity

Welcome to the new tRNA world!

Akio Kanai

FRONTIERS IN GENETICS (2014)

Review Genetics & Heredity

tRNAs as regulators of biological processes

Medha Raina et al.

FRONTIERS IN GENETICS (2014)

Article Genetics & Heredity

tRNADB-CE: tRNA gene database well-timed in the era of big sequence data

Takashi Abe et al.

Frontiers in Genetics (2014)

Review Genetics & Heredity

Adaptive Translation as a Mechanism of Stress Response and Adaptation

Tao Pan

ANNUAL REVIEW OF GENETICS, VOL 47 (2013)

Article Biochemistry & Molecular Biology

Substrate recognition and fidelity of maize seryl-tRNA synthetases

Jasmina Rokov-Plavec et al.

ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS (2013)

Article Biochemistry & Molecular Biology

Aminoacylation of Plasmodium falciparum tRNAAsn and Insights in the Synthesis of Asparagine Repeats

Denis Filisetti et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2013)

Article Multidisciplinary Sciences

Reversion of a fungal genetic code alteration links proteome instability with genomic and phenotypic diversification

Ana R. Bezerra et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)

Article Biochemistry & Molecular Biology

Coordination of tRNA Synthetase Active Sites for Chemical Fidelity

Michal T. Boniecki et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2012)

Article Biochemistry & Molecular Biology

Crystal Structure of Human Mitochondrial PheRS Complexed with tRNAPhe in the Active Open State

Liron Klipcan et al.

JOURNAL OF MOLECULAR BIOLOGY (2012)

Article Biochemistry & Molecular Biology

tRNAHis-guanylyltransferase establishes tRNAHis identity

Ilka U. Heinemann et al.

NUCLEIC ACIDS RESEARCH (2012)

Review Cell Biology

Structure of transfer RNAs: similarity and variability

Richard Giege et al.

WILEY INTERDISCIPLINARY REVIEWS-RNA (2012)

Review Cell Biology

Quality control in tRNA charging

Hieronim Jakubowski

WILEY INTERDISCIPLINARY REVIEWS-RNA (2012)

Review Genetics & Heredity

Human Mitochondrial tRNAs: Biogenesis, Function, Structural Aspects, and Diseases

Tsutomu Suzuki et al.

ANNUAL REVIEW OF GENETICS, VOL 45 (2011)

Article Biochemistry & Molecular Biology

Allosteric Communication in Cysteinyl tRNA Synthetase A NETWORK OF DIRECT AND INDIRECT READOUT

Amit Ghosh et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2011)

Article Biochemistry & Molecular Biology

Change of tRNA identity leads to a divergent orthogonal histidyl-tRNA synthetase/tRNAHis pair

Jing Yuan et al.

NUCLEIC ACIDS RESEARCH (2011)

Article Multidisciplinary Sciences

Misacylation of specific nonmethionyl tRNAs by a bacterial methionyl-tRNA synthetase

Thomas E. Jones et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2011)

Article Multidisciplinary Sciences

Naturally occurring aminoacyl-tRNA synthetases editing-domain mutations that cause mistranslation in Mycoplasma parasites

Li Li et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2011)

Article Multidisciplinary Sciences

Tuning the affinity of aminoacyl-tRNA to elongation factor Tu for optimal decoding

Jared M. Schrader et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2011)

Article Biochemistry & Molecular Biology

Heat Maps for Intramolecular Communication in an RNP Enzyme Encoding Glutamine

Annia Rodriguez-Hernandez et al.

STRUCTURE (2011)

Article Biochemistry & Molecular Biology

Crystal structure of a transfer-ribonucleoprotein particle that promotes asparagine formation

Mickael Blaise et al.

EMBO JOURNAL (2010)

Review Biochemistry & Molecular Biology

Computational analysis of tRNA identity

David H. Ardell

FEBS LETTERS (2010)

Review Biochemistry & Molecular Biology

Diversity and similarity in the tRNA world: Overall view and case study on malaria-related tRNAs

Joern Puetz et al.

FEBS LETTERS (2010)

Article Biochemistry & Molecular Biology

Agmatine-conjugated cytidine in a tRNA anticodon is essential for AUA decoding in archaea

Yoshiho Ikeuchi et al.

NATURE CHEMICAL BIOLOGY (2010)

Review Cell Biology

Viral tRNAs and tRNA-like structures

Theo W. Dreher

WILEY INTERDISCIPLINARY REVIEWS-RNA (2010)

Review Biochemistry & Molecular Biology

How Nature Morphs Peptide Scaffolds into Antibiotics

Elizabeth M. Nolan et al.

CHEMBIOCHEM (2009)

Article Biochemistry & Molecular Biology

Molecular Recognition of Tryptophan tRNA by Tryptophanyl-tRNA Synthetase from Aeropyrum pernix K1

Wataru Tsuchiya et al.

JOURNAL OF BIOCHEMISTRY (2009)

Article Biochemistry & Molecular Biology

Recognition of tRNAGln by Helicobacter pylori GluRS2-a tRNAGln-specific glutamyl-tRNA synthetase

Keng-Ming Chang et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Biochemistry & Molecular Biology

tRNAdb 2009: compilation of tRNA sequences and tRNA genes

Frank Juehling et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Biochemistry & Molecular Biology

Redundant synthesis of cysteinyl-tRNACys in Methanosarcina mazei

Scott I. Hauenstein et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2008)

Article Biochemistry & Molecular Biology

The homotetrameric phosphoseryl-tRNA synthetase from Methanosarcina mazei exhibits half-of-the-sites activity

Scott I. Hauenstein et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2008)

Article Biochemistry & Molecular Biology

Toward a more complete view of tRNA biology

Richard Giege

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2008)

Article Biochemistry & Molecular Biology

Aminoacylation of tRNA with phosphoserine for synthesis of cysteinyl-tRNACys

Chun-Mei Zhang et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2008)

Article Biochemistry & Molecular Biology

Evolution of acceptor stem tRNA recognition by class II prolyl-tRNA synthetase

Songon An et al.

NUCLEIC ACIDS RESEARCH (2008)

Article Biochemistry & Molecular Biology

Recognition of tRNA(Leu) by Aquifex aeolicus leucyl-tRNA synthetase during the aminoacylation and editing steps

Peng Yao et al.

NUCLEIC ACIDS RESEARCH (2008)

Article Multidisciplinary Sciences

Quality control despite mistranslation caused by an ambiguous genetic code

Benfang Ruan et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2008)

Article Multidisciplinary Sciences

RNA-dependent lipid remodeling by bacterial multiple peptide resistance factors

Herve Roy et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2008)

Review Biochemistry & Molecular Biology

Development of tRNA synthetases and connection to genetic code and disease

Paul Schimmel

PROTEIN SCIENCE (2008)

Article Biochemistry & Molecular Biology

Mamit-tRNA, a database of mammalian mitochondrial tRNA primary and secondary structures

Joern Putz et al.

Article Biochemistry & Molecular Biology

In silico detection of tRNA sequence features characteristics to aminoacyl-tRNA synthetase class membership

Eena Jako et al.

NUCLEIC ACIDS RESEARCH (2007)

Article Biochemistry & Molecular Biology

The 51-63 base pair of tRNA confers specificity for binding by EF-Tu

Lee E. Sanderson et al.

Article Biochemistry & Molecular Biology

Structural elements defining elongation factor Tu mediated suppression of codon ambiguity

Herve Roy et al.

NUCLEIC ACIDS RESEARCH (2007)

Article Multidisciplinary Sciences

Pyrrolysine is not hardwired for cotranslational insertion at UAG codons

Alexandre Ambrogelly et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2007)

Article Biochemistry & Molecular Biology

Functional association between three archaeal aminoacyl-tRNA synthetases

Mette Praetorius-Ibba et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2007)

Article Biochemistry & Molecular Biology

Recognition of pyrrolysine tRNA by the Desulfitobacterium hafniense pyrrolysyl-tRNA synthetase

Stephanie Herring et al.

NUCLEIC ACIDS RESEARCH (2007)

Article Biochemistry & Molecular Biology

Structural basis for recognition of cognate tRNA by tyrosyl-tRNA synthetase from three kingdoms

Masaru Tsunoda et al.

NUCLEIC ACIDS RESEARCH (2007)

Article Multidisciplinary Sciences

RNA-dependent conversion of phosphoserine forms selenocysteine in eukaryotes and archaea

Jing Yuan et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)

Article Biochemistry & Molecular Biology

A single tRNA base pair mediates bacterial tRNA-dependent biosynthesis of asparagine

Marc Bailly et al.

NUCLEIC ACIDS RESEARCH (2006)

Article Multidisciplinary Sciences

Emergence of the universal genetic code imprinted in an RNA record

Michael J. Hohn et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)

Article Multidisciplinary Sciences

Editing-defective tRNA synthetase causes protein misfolding and neurodegeneration

Jeong Woong Lee et al.

NATURE (2006)

Article Biochemistry & Molecular Biology

Shuffling of discrete tRNASer regions reveals differently utilized identity elements in yeast and methanogenic archaea

Ita Gruic-Sovulj et al.

JOURNAL OF MOLECULAR BIOLOGY (2006)

Article Biochemistry & Molecular Biology

Loss of a primordial identity element for a mammalian mitochondrial aminoacylation system

Aurelie Fender et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2006)

Article Clinical Neurology

Pure myopathy associated with a novel mitochondrial tRNA gene mutation

H Swalwell et al.

NEUROLOGY (2006)

Article Biochemistry & Molecular Biology

Crystal structures of tyrosyl-tRNA synthetases from Archaea

M Kuratani et al.

JOURNAL OF MOLECULAR BIOLOGY (2006)

Article Biochemistry & Molecular Biology

TFAM detects co-evolution of tRNA identity rules with lateral transfer of histidyl-tRNA synthetase

DH Ardell et al.

NUCLEIC ACIDS RESEARCH (2006)

Article Multidisciplinary Sciences

The evolutionary history of Cys-tRNACys formation

P O'Donoghue et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2005)

Article Biochemistry & Molecular Biology

Dual-mode recognition of noncanonical tRNAsSer by seryl-tRNA synthetase in mammalian mitochondria

S Chimnaronk et al.

EMBO JOURNAL (2005)

Article Biochemistry & Molecular Biology

Evolution of the tRNATYr/TyrRS aminoacylation systems

L Bonnefond et al.

BIOCHIMIE (2005)

Article Genetics & Heredity

Identity elements of archaeal tRNA

Bibekanand Mallick et al.

DNA RESEARCH (2005)

Article Biochemistry & Molecular Biology

Association between archaeal prolyl- and leucyl-tRNA synthetases enhances tRNAPro aminoacylation

M Praetorius-Ibba et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2005)

Article Biochemistry & Molecular Biology

Human mitochondrial TyrRS disobeys the tyrosine identity rules

L Bonnefond et al.

Article Multidisciplinary Sciences

RNA-Dependent cysteine biosynthesis in archaea

A Sauerwald et al.

SCIENCE (2005)

Article Biochemistry & Molecular Biology

Positional recognition of a tRNA determinant dependent on a peptide insertion

MA Lovato et al.

MOLECULAR CELL (2004)

Article Biochemistry & Molecular Biology

Atypical archaeal tRNA pyrrolysine transcript behaves towards EF-Tu as a typical elongator tRNA

A Théobald-Dietrich et al.

NUCLEIC ACIDS RESEARCH (2004)

Article Chemistry, Multidisciplinary

Recognition of G-1:C73 atomic groups by Escherichia coli histidyl-tRNA synthetase

AE Rosen et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2004)

Article Multidisciplinary Sciences

A freestanding proofreading domain is required for protein synthesis quality control in Archaea

D Korencic et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2004)

Article Biochemistry & Molecular Biology

Differential modes of transfer RNASer recognition in Methanosarcina barkeri

D Korencic et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2004)

Article Biochemistry & Molecular Biology

A yeast arginine specific tRNA is a remnant aspartate acceptor

A Fender et al.

NUCLEIC ACIDS RESEARCH (2004)

Article Biochemistry & Molecular Biology

Shape-selective RNA recognition by cysteinyl-tRNA synthetase

S Hauenstein et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2004)

Article Biochemistry & Molecular Biology

Recognition of human mitochondrial tRNA Leu(UUR) by its cognate leucyl-tRNA synthetase

N Sohm et al.

JOURNAL OF MOLECULAR BIOLOGY (2004)

Article Multidisciplinary Sciences

Trans-editing of mischarged tRNAs

I Ahel et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2003)

Article Multidisciplinary Sciences

Coevolution of an aminoacyl-tRNA synthetase with its tRNA substrates

JC Salazar et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2003)

Review Biochemistry & Molecular Biology

Human mitochondrial tRNAs in health and disease

C Florentz et al.

CELLULAR AND MOLECULAR LIFE SCIENCES (2003)

Article Biochemistry & Molecular Biology

Towards understanding human mitochondrial leucine aminoacylation identity

B Sohm et al.

JOURNAL OF MOLECULAR BIOLOGY (2003)

Article Biochemistry & Molecular Biology

Amino acid discrimination by a class I aminoacyl-tRNA synthetase specified by negative determinants

TL Bullock et al.

JOURNAL OF MOLECULAR BIOLOGY (2003)

Article Biochemistry & Molecular Biology

Yeast tRNAAsp charging accuracy is threatened by the N-terminal extension of aspartyl-tRNA synthetase

M Ryckelynck et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2003)

Article Biochemistry & Molecular Biology

Leucyl-tRNA synthetase consisting of two subunits from hyperthermophilic bacteria Aquifex aeolicus

MG Xu et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2002)

Article Biochemistry & Molecular Biology

Isolation of novel tRNAAla mutants by library selection in a tRNAAla knockout strain

H Choi et al.

BIOCHIMIE (2002)

Article Biochemistry & Molecular Biology

Dual mode recognition of two isoacceptor tRNAs by mammalian mitochondrial seryl-tRNA synthetase

N Shimada et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2001)

Article Multidisciplinary Sciences

Structural and mutational studies of the recognition of the arginine tRNA-specific major identity element, A20, by arginyl-tRNA synthetase

A Shimada et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2001)

Article Biochemistry & Molecular Biology

Species-specific differences in the operational RNA code for aminoacylation of tRNATrp

F Xu et al.

NUCLEIC ACIDS RESEARCH (2001)

Article Biochemistry & Molecular Biology

The structure of an AspRS-tRNAAsp complex reveals a tRNA-dependent control mechanism

L Moulinier et al.

EMBO JOURNAL (2001)

Article Biochemistry & Molecular Biology

Translocation within the acceptor helix of a major tRNA identity determinant

MA Lovato et al.

EMBO JOURNAL (2001)

Article Biochemistry & Molecular Biology

tRNA aminoacylation by arginyl-tRNA synthetase: induced conformations during substrates binding

B Delagoutte et al.

EMBO JOURNAL (2000)

Article Biochemistry & Molecular Biology

Search for characteristic structural features of mammalian mitochondrial tRNAs

M Helm et al.

Article Biochemistry & Molecular Biology

Characterization and tRNA recognition of mammalian mitochondrial seryl-tRNA synthetase

T Yokogawa et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2000)

Article Biochemistry & Molecular Biology

Aspartyl tRNA-synthetase from Escherichia coli:: Flexibility and adaptability to the substrates

B Rees et al.

JOURNAL OF MOLECULAR BIOLOGY (2000)

Article Biochemistry & Molecular Biology

Selection of viral RNA-derived tRNA-like structures with improved valylation activities?

J Wientges et al.

BIOCHEMISTRY (2000)

Article Biochemistry & Molecular Biology

tRNA leucine identity and recognition sets

G Tocchini-Valentini et al.

JOURNAL OF MOLECULAR BIOLOGY (2000)