Unboxing the T‐box riboswitches—A glimpse into multivalent and multimodal RNA–RNA interactions

Modulation of RNA Condensation by the DEAD-Box Protein eIF4A

(2020) Devin Tauber et al.   CELL

An aminoacylation ribozyme evolved from a natural tRNA-sensing T-box riboswitch

(2020) Satoshi Ishida et al.   Nature Chemical Biology

Aminoacyl-tRNA Synthetases

(2020) Miguel Angel Rubio Gomez et al.   RNA

An evolving tale of two interacting RNAs-themes and variations of the T-box riboswitch mechanism

(2019) Krishna C. Suddala et al.   IUBMB LIFE

Structural basis for tRNA decoding and aminoacylation sensing by T-box riboregulators

(2019) Robert A. Battaglia et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Structural basis of amino acid surveillance by higher-order tRNA-mRNA interactions

(2019) Shuang Li et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

High-affinity recognition of specific tRNAs by an mRNA anticodon-binding groove

(2019) Krishna C. Suddala et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

T-box RNA gets boxed

(2019) Jacob W. Weaver et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Crystal structure of human cytoplasmic tRNAHis-specific 5′-monomethylphosphate capping enzyme

(2019) Yining Liu et al.   NUCLEIC ACIDS RESEARCH

SAM-VI riboswitch structure and signature for ligand discrimination

(2019) Aiai Sun et al.   Nature Communications

New tRNA contacts facilitate ligand binding in aMycobacterium smegmatisT box riboswitch

(2018) Anna V. Sherwood et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

SAM-VI RNAs selectively bind S-adenosylmethionine and exhibit similarities to SAM-III riboswitches

(2018) Gayan Mirihana Arachchilage et al.   RNA Biology

mRNA structure determines specificity of a polyQ-driven phase separation

(2018) Erin M. Langdon et al.   SCIENCE

In Crystallo Selection to Establish New RNA Crystal Contacts

(2018) Grant M. Shoffner et al.   STRUCTURE

Hierarchical mechanism of amino acid sensing by the T-box riboswitch

(2018) Krishna C. Suddala et al.   Nature Communications

Tandem riboswitches form a natural Boolean logic gate to control purine metabolism in bacteria

(2018) Madeline E Sherlock et al.   eLife

Emerging Roles for Intermolecular RNA-RNA Interactions in RNP Assemblies

(2018) Briana Van Treeck et al.   CELL

Acetate-dependent tRNA acetylation required for decoding fidelity in protein synthesis

(2018) Takaaki Taniguchi et al.   Nature Chemical Biology

Specific structural elements of the T-box riboswitch drive the two-step binding of the tRNA ligand

(2018) Jiacheng Zhang et al.   eLife

Pervasive tertiary structure in the dengue virus RNA genome

(2018) Elizabeth A. Dethoff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mechanistic insights into precursor messenger RNA splicing by the spliceosome

(2017) Yigong Shi   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Direct modulation of T-box riboswitch-controlled transcription by protein synthesis inhibitors

(2017) Vassiliki Stamatopoulou et al.   NUCLEIC ACIDS RESEARCH

Ligand recognition and helical stacking formation are intimately linked in the SAM-I riboswitch regulatory mechanism

(2017) Anne-Marie Dussault et al.   RNA

RNA Duplex Map in Living Cells Reveals Higher-Order Transcriptome Structure

(2016) Zhipeng Lu et al.   CELL

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

(2016) Henri Grosjean et al.   NUCLEIC ACIDS RESEARCH

A Two-Way Street: Regulatory Interplay between RNA Polymerase and Nascent RNA Structure

(2016) Jinwei Zhang et al.   TRENDS IN BIOCHEMICAL SCIENCES

Mapping RNA–RNA interactome and RNA structure in vivo by MARIO

(2016) Tri C. Nguyen et al.   Nature Communications

Codon-Anticodon Recognition in theBacillus subtilis glyQST Box Riboswitch

(2015) Enrico Caserta et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

T box riboswitches in Actinobacteria: Translational regulation via novel tRNA interactions

(2015) Anna V. Sherwood et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

AglyST-box riboswitch with species-specific structural features responding to both proteinogenic and nonproteinogenic tRNAGlyisoacceptors

(2015) Maria Apostolidi et al.   RNA

Structure and mechanism of the T-box riboswitches

(2015) Jinwei Zhang et al.   Wiley Interdisciplinary Reviews-RNA

The K-turn motif in riboswitches and other RNA species

(2014) David M.J. Lilley   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

The Ribosome Emerges from a Black Box

(2014) V. Ramakrishnan   CELL

The Noncoding RNA Revolution—Trashing Old Rules to Forge New Ones

(2014) Thomas R. Cech et al.   CELL

New molecular engineering approaches for crystallographic studies of large RNAs

(2014) Jinwei Zhang et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Direct Evaluation of tRNA Aminoacylation Status by the T-Box Riboswitch Using tRNA-mRNA Stacking and Steric Readout

(2014) Jinwei Zhang et al.   MOLECULAR CELL

The selective tRNA aminoacylation mechanism based on a single G•U pair

(2014) Masahiro Naganuma et al.   NATURE

Trigger-helix folding pathway and SI3 mediate catalysis and hairpin-stabilized pausing by Escherichia coli RNA polymerase

(2014) Tricia A. Windgassen et al.   NUCLEIC ACIDS RESEARCH

Co-crystal structure of a T-box riboswitch stem I domain in complex with its cognate tRNA

(2013) Jinwei Zhang et al.   NATURE

A universal RNA structural motif docking the elbow of tRNA in the ribosome, RNAse P and T-box leaders

(2013) Jean Lehmann et al.   NUCLEIC ACIDS RESEARCH

Structural Determinants for Geometry and Information Decoding of tRNA by T Box Leader RNA

(2013) Jason C. Grigg et al.   STRUCTURE

A cyclic form of N6-threonylcarbamoyladenosine as a widely distributed tRNA hypermodification

(2012) Kenjyo Miyauchi et al.   Nature Chemical Biology

YbxF and YlxQ are bacterial homologs of L7Ae and bind K-turns but not K-loops

(2012) N. J. Baird et al.   RNA

The Molecular Interactions That Stabilize RNA Tertiary Structure: RNA Motifs, Patterns, and Networks

(2011) Samuel E. Butcher et al.   ACCOUNTS OF CHEMICAL RESEARCH

Bacterial Transcription Terminators: The RNA 3′-End Chronicles

(2011) Jason M. Peters et al.   JOURNAL OF MOLECULAR BIOLOGY

Flexizymes for genetic code reprogramming

(2011) Yuki Goto et al.   Nature Protocols

Ribozymes and Riboswitches: Modulation of RNA Function by Small Molecules

(2010) Jinwei Zhang et al.   BIOCHEMISTRY

Structure of a bacterial ribonuclease P holoenzyme in complex with tRNA

(2010) Nicholas J. Reiter et al.   NATURE

The Structural and Functional Diversity of Metabolite-Binding Riboswitches

(2009) Adam Roth et al.   Annual Review of Biochemistry

Biochemical Features and Functional Implications of the RNA-Based T-Box Regulatory Mechanism

(2009) A. Gutierrez-Preciado et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Role of the RNA polymerase trigger loop in catalysis and pausing

(2009) Jinwei Zhang et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

T box transcription antitermination riboswitch: Influence of nucleotide sequence and orientation on tRNA binding by the antiterminator element

(2008) Hamid Fauzi et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Structural basis of specific tRNA aminoacylation by a small in vitro selected ribozyme

(2008) Hong Xiao et al.   NATURE

Comparative genomic analysis of T-box regulatory systems in bacteria

(2008) A. G. Vitreschak et al.   RNA