ArticleProceedings of the National Academy of Sciences of the United States of America2013
T box RNA decodes both the information content and geometry of tRNA to affect gene expression.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 52 papers.
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Who cites it
52 citing papers in PubMed, 71 citations in OpenAlex.
- Selective deuteration of an RNA:RNA complex for structural analysis using small-angle scattering.Structure (London, England : 1993) · 2025Article
- Structural idiosyncrasies of glycyl T-box riboswitches among pathogenic bacteria.RNA (New York, N.Y.) · 2024Article
- Selective deuteration of an RNA:RNA complex for structural analysis using small-angle scattering.bioRxiv : the preprint server for biology · 2024Article
- A novel regulatory interplay between atypical B12 riboswitches and uORF translation in Mycobacterium tuberculosis.Nucleic acids research · 2024Article
- Context-dependence of T-loop Mediated Long-range RNA Tertiary Interactions.Journal of molecular biology · 2023Article
- The Long Road to a Synthetic Self-Replicating Central Dogma.Biochemistry · 2023Review
- Lineage-specific insertions in T-box riboswitches modulate antibiotic binding and action.Nucleic acids research · 2022Article
- BiPSim: a flexible and generic stochastic simulator for polymerization processes.Scientific reports · 2021Article
- Another layer of complexity in Staphylococcus aureus methionine biosynthesis control: unusual RNase III-driven T-box riboswitch cleavage determines met operon mRNA stability and decay.Nucleic acids research · 2021Article
- A New Promising Anti-Infective Agent Inhibits Biofilm Growth by Targeting Simultaneously a Conserved RNA Function That Controls Multiple Genes.Antibiotics (Basel, Switzerland) · 2021Article
- An aminoacylation ribozyme evolved from a natural tRNA-sensing T-box riboswitch.Nature chemical biology · 2020Article
- Structural basis of amino acid surveillance by higher-order tRNA-mRNA interactions.Nature structural & molecular biology · 2019Article
- Regulation of Bacterial Gene Expression by Transcription Attenuation.Microbiology and molecular biology reviews : MMBR · 2019Review
- An evolving tale of two interacting RNAs-themes and variations of the T-box riboswitch mechanism.IUBMB life · 2019Review
- Deep genome annotation of the opportunistic human pathogen Streptococcus pneumoniae D39.Nucleic acids research · 2018Article
- Riboswitches and Translation Control.Cold Spring Harbor perspectives in biology · 2018Review
- Specific structural elements of the T-box riboswitch drive the two-step binding of the tRNA ligand.eLife · 2018Article
- The T-Box Riboswitch: tRNA as an Effector to Modulate Gene Regulation.Microbiology spectrum · 2018Review
- Hierarchical mechanism of amino acid sensing by the T-box riboswitch.Nature communications · 2018Article
- New tRNA contacts facilitate ligand binding in aProceedings of the National Academy of Sciences of the United States of America · 2018Article
Corrections and comments
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Authors and funding
6 authors at 3 institutions in 2 countries.
Funding
Abstract
The T box leader sequence is an RNA element that controls gene expression by binding directly to a specific tRNA and sensing its aminoacylation state. This interaction controls expression of amino acid-related genes in a negative feedback loop. The T box RNA structure is highly conserved, but its tRNA binding mechanism is only partially understood. Known sequence elements are the specifier sequence, which recognizes the tRNA anticodon, and the antiterminator bulge, which base pairs with the tRNA acceptor end. Here, we reveal the crucial function of the highly conserved stem I distal region in tRNA recognition and report its 2.65-Å crystal structure. The apex of this region contains an intricately woven loop-loop interaction between two conserved motifs, the Adenine-guanine (AG) bulge and the distal loop. This loop-loop structure presents a base triple on its surface that is optimally positioned for base-stacking interactions. Mutagenesis, cross-linking, and small-angle X-ray scattering data demonstrate that the apical base triple serves as a binding platform to dock the tRNA D- and T-loops. Strikingly, the binding platform strongly resembles the D- and T-loop binding elements from RNase P and the ribosome exit site, suggesting that this loop-loop structure may represent a widespread tRNA recognition platform. We propose a two-checkpoint molecular ruler model for tRNA decoding in which the information content of tRNA is first examined through specifier sequence-anticodon interaction, and the length of the tRNA anticodon arm is then measured by the distal loop-loop platform. When both conditions are met, tRNA is secured, and its aminoacylation state is sensed.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.