Post-Transcriptional Modifications of Conserved Nucleotides in the T-Loop of tRNA: A Tale of Functional Convergent Evolution

N 1-methyladenosine (m1A) RNA modification: the key to ribosome control?

(2020) Hiroki Shima et al.   JOURNAL OF BIOCHEMISTRY

The hyperthermophilic partners Nanoarchaeum and Ignicoccus stabilize their tRNA T-loops via different but structurally equivalent modifications

(2020) Simon Rose et al.   NUCLEIC ACIDS RESEARCH

tRNA elbow modifications affect the tRNA pseudouridine synthase TruB and the methyltransferase TrmA

(2020) Sarah Kai-Leigh Schultz et al.   RNA

Reductive Evolution and Diversification of C5-Uracil Methylation in the Nucleic Acids of Mollicutes

(2020) Pascal Sirand-Pugnet et al.   Biomolecules

The methyltransferase TrmA facilitates tRNA folding through interaction with its RNA-binding domain

(2020) Laura Carole Keffer-Wilkes et al.   NUCLEIC ACIDS RESEARCH

Comparative patterns of modified nucleotides in individual tRNA species from a mesophilic and two thermophilic archaea

(2020) Philippe Wolff et al.   RNA

Mammalian nuclear TRUB1, mitochondrial TRUB2 and cytoplasmic PUS10 produce conserved pseudouridine 55 in different sets of tRNA

(2020) Shaoni Mukhopadhyay et al.   RNA

Regulatory Factors for tRNA Modifications in Extreme- Thermophilic Bacterium Thermus thermophilus

(2019) Hiroyuki Hori   Frontiers in Genetics

Multi-Substrate Specificity and the Evolutionary Basis for Interdependence in tRNA Editing and Methylation Enzymes

(2019) Sameer Dixit et al.   Frontiers in Genetics

Matching tRNA modifications in humans to their known and predicted enzymes

(2019) Valérie de Crécy-Lagard et al.   NUCLEIC ACIDS RESEARCH

To be or not to be modified: Miscellaneous aspects influencing nucleotide modifications in tRNAs

(2019) Pierre Barraud et al.   IUBMB LIFE

FICC-Seq: a method for enzyme-specified profiling of methyl-5-uridine in cellular RNA

(2019) Jean-Michel Carter et al.   NUCLEIC ACIDS RESEARCH

Time-resolved NMR monitoring of tRNA maturation

(2019) Pierre Barraud et al.   Nature Communications

Cooperativity between different tRNA modifications and their modification pathways

(2018) Mikołaj Sokołowski et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Evolution of Eukaryal and Archaeal Pseudouridine Synthase Pus10

(2018) Elisabeth Fitzek et al.   JOURNAL OF MOLECULAR EVOLUTION

Methylation guide RNA evolution in archaea: structure, function and genomic organization of 110 C/D box sRNA families across six Pyrobaculum species

(2018) Lauren M Lui et al.   NUCLEIC ACIDS RESEARCH

A rationale for tRNA modification circuits in the anticodon loop

(2018) Lu Han et al.   RNA

Reversible RNA Modification N 1 -methyladenosine (m 1 A) in mRNA and tRNA

(2018) Chi Zhang et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Double methylation of tRNA-U54 to 2′-O-methylthymidine (Tm) synergistically decreases immune response by Toll-like receptor 7

(2018) Patrick Keller et al.   NUCLEIC ACIDS RESEARCH

Contribution of protein Gar1 to the RNA-guided and RNA-independent rRNA:Ψ-synthase activities of the archaeal Cbf5 protein

(2018) Ryosuke Fujikane et al.   Scientific Reports

RNA ribose methylation (2′-O-methylation): Occurrence, biosynthesis and biological functions

(2018) Lilia Ayadi et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

The human ortholog of archaeal Pus10 produces pseudouridine 54 in select tRNAs where its recognition sequence contains a modified residue

(2018) Manisha Deogharia et al.   RNA

Lateral gene transfer between prokaryotes and eukaryotes

(2017) Karsten B. Sieber et al.   EXPERIMENTAL CELL RESEARCH

MODOMICS: a database of RNA modification pathways. 2017 update

(2017) Pietro Boccaletto et al.   NUCLEIC ACIDS RESEARCH

Archaeal fibrillarin–Nop5 heterodimer 2′- O -methylates RNA independently of the C/D guide RNP particle

(2017) Miglė Tomkuvienė et al.   RNA

RNA versatility governs tRNA function

(2016) Claus-D. Kuhn   BIOESSAYS

The m1A58 modification in eubacterial tRNA: An overview of tRNA recognition and mechanism of catalysis by TrmI

(2016) Clément Dégut et al.   BIOPHYSICAL CHEMISTRY

ALKBH1-Mediated tRNA Demethylation Regulates Translation

(2016) Fange Liu et al.   CELL

Flavin-Dependent Methylation of RNAs: Complex Chemistry for a Simple Modification

(2016) Djemel Hamdane et al.   JOURNAL OF MOLECULAR BIOLOGY

Structural and functional analyses of the archaeal tRNA m2G/m22G10 methyltransferase aTrm11 provide mechanistic insights into site specificity of a tRNA methyltransferase that contains common RNA-binding modules

(2016) Akira Hirata et al.   NUCLEIC ACIDS RESEARCH

RNA modification enzyme TruB is a tRNA chaperone

(2016) Laura Carole Keffer-Wilkes et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Crystal structure of the two-subunit tRNA m1A58 methyltransferase TRM6-TRM61 from Saccharomyces cerevisiae

(2016) Mingxing Wang et al.   Scientific Reports

Substrate tRNA Recognition Mechanism of Eubacterial tRNA (m1A58) Methyltransferase (TrmI)

(2015) Hiroyuki Takuma et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Horizontal gene transfer: building the web of life

(2015) Shannon M. Soucy et al.   NATURE REVIEWS GENETICS

Diversity in mechanism and function of tRNA methyltransferases

(2015) William E Swinehart et al.   RNA Biology

Contribution of two conserved histidines to the dual activity of archaeal RNA guide-dependent and -independent pseudouridine synthase Cbf5

(2015) Anne-Sophie Tillault et al.   RNA

Two-subunit enzymes involved in eukaryotic post-transcriptional tRNA modification

(2015) Michael P Guy et al.   RNA Biology

Pseudouridine: Still mysterious, but never a fake (uridine)!

(2015) Felix Spenkuch et al.   RNA Biology

RNA-guided isomerization of uridine to pseudouridine—pseudouridylation

(2015) Yi-Tao Yu et al.   RNA Biology

Dynamics of RNA modification by a multi-site-specific tRNA methyltransferase

(2014) Djemel Hamdane et al.   NUCLEIC ACIDS RESEARCH

Crystal structure of a 4-thiouridine synthetase–RNA complex reveals specificity of tRNA U8 modification

(2014) Piotr Neumann et al.   NUCLEIC ACIDS RESEARCH

Predicting the Minimal Translation Apparatus: Lessons from the Reductive Evolution of Mollicutes

(2014) Henri Grosjean et al.   PLoS Genetics

Losing the stem-loop structure from metazoan mitochondrial tRNAs and co-evolution of interacting factors

(2014) Yoh-ichi Watanabe et al.   Frontiers in Genetics

Biosynthesis and functions of sulfur modifications in tRNA

(2014) Naoki Shigi   Frontiers in Genetics

RNA-methyltransferase TrmA is a dual-specific enzyme responsible forC5-methylation of uridine in both tmRNA and tRNA

(2013) Ehsan Ranaei-Siadat et al.   RNA Biology

Role of forefinger and thumb loops in production of  54 and  55 in tRNAs by archaeal Pus10

(2013) A. Joardar et al.   RNA

The tRNA Recognition Mechanism of Folate/FAD-dependent tRNA Methyltransferase (TrmFO)

(2012) Ryota Yamagami et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Crystal structures of the tRNA:m 2 G6 methyltransferase Trm14/TrmN from two domains of life

(2012) Marcus Fislage et al.   NUCLEIC ACIDS RESEARCH

Identification of the enzyme responsible for N1-methylation of pseudouridine 54 in archaeal tRNAs

(2012) J. P. Wurm et al.   RNA

The archaeal COG1901/DUF358 SPOUT-methyltransferase members, together with pseudouridine synthase Pus10, catalyze the formation of 1-methylpseudouridine at position 54 of tRNA

(2012) K. Chatterjee et al.   RNA

Archaeal proteins Nop10 and Gar1 increase the catalytic activity of Cbf5 in pseudouridylating tRNA

(2012) Rajashekhar Kamalampeta et al.   Scientific Reports

Pseudouridine formation in archaeal RNAs: The case of Haloferax volcanii

(2011) I. K. Blaby et al.   RNA

Structural comparison of tRNA m1A58 methyltransferases revealed different molecular strategies to maintain their oligomeric architecture under extreme conditions

(2011) Amandine Guelorget et al.   BMC STRUCTURAL BIOLOGY

Structure of transfer RNAs: similarity and variability

(2011) Richard Giegé et al.   Wiley Interdisciplinary Reviews-RNA

The crystal structure of unmodified tRNA Phe from Escherichia coli

(2010) Robert T. Byrne et al.   NUCLEIC ACIDS RESEARCH

Pseudouridine at position 55 in tRNA controls the contents of other modified nucleotides for low-temperature adaptation in the extreme-thermophilic eubacterium Thermus thermophilus

(2010) Kazuo Ishida et al.   NUCLEIC ACIDS RESEARCH

Insights into the hyperthermostability and unusual region-specificity of archaeal Pyrococcus abyssi tRNA m1A57/58 methyltransferase

(2010) Amandine Guelorget et al.   NUCLEIC ACIDS RESEARCH

Specificity shifts in the rRNA and tRNA nucleotide targets of archaeal and bacterial m5U methyltransferases

(2010) S. Auxilien et al.   RNA

Crystal Structure of Mj1640/DUF358 Protein Reveals a Putative SPOUT-Class RNA Methyltransferase

(2010) H.-Y. Chen et al.   Journal of Molecular Cell Biology

Computational analysis of tRNA identity

(2009) David H. Ardell   FEBS LETTERS

The Box H/ACA Ribonucleoprotein Complex: Interplay of RNA and Protein Structures in Post-transcriptional RNA Modification

(2009) Tomoko Hamma et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

N 7-Methylguanine at position 46 (m7G46) in tRNA from Thermus thermophilus is required for cell viability at high temperatures through a tRNA modification network

(2009) Chie Tomikawa et al.   NUCLEIC ACIDS RESEARCH

RNomics and Modomics in the halophilic archaea Haloferax volcanii: identification of RNA modification genes

(2008) Henri Grosjean et al.   BMC GENOMICS

Common thiolation mechanism in the biosynthesis of tRNA thiouridine and sulphur-containing cofactors

(2008) Naoki Shigi et al.   EMBO JOURNAL

Crystal Structure of Thermus thermophilus tRNA m1A58 Methyltransferase and Biophysical Characterization of Its Interaction with tRNA

(2008) Pierre Barraud et al.   JOURNAL OF MOLECULAR BIOLOGY

The crystal structure of Pyrococcus abyssi tRNA (uracil-54, C5)-methyltransferase provides insights into its tRNA specificity

(2008) Hélène Walbott et al.   NUCLEIC ACIDS RESEARCH

tRNAdb 2009: compilation of tRNA sequences and tRNA genes

(2008) F. Juhling et al.   NUCLEIC ACIDS RESEARCH

Structure of a TrmA-RNA complex: A consensus RNA fold contributes to substrate selectivity and catalysis in m5U methyltransferases

(2008) A. Alian et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Archaeal Pus10 proteins can produce both pseudouridine 54 and 55 in tRNA

(2008) P. Gurha et al.   RNA