ArticleNucleic acids research2007
Conformational changes in the expression domain of the Escherichia coli thiM riboswitch.
Article in Nucleic acids research, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
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Who cites it
30 citing papers in PubMed, 70 citations in OpenAlex.
- Genome-Wide Computational Prediction and Analysis of Noncoding RNAs inMicroorganisms · 2024Article
- The importance of thiamine (vitamin B1) in humans.Bioscience reports · 2023Article
- X-Ray Crystallography to Study Conformational Changes in a TPP Riboswitch.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Riboswitches and Translation Control.Cold Spring Harbor perspectives in biology · 2018Review
- Predicting Cotranscriptional Folding Kinetics For Riboswitch.The journal of physical chemistry. B · 2018Article
- Single-molecule FRET studies on the cotranscriptional folding of a thiamine pyrophosphate riboswitch.Proceedings of the National Academy of Sciences of the United States of America · 2018Article
- Co-Transcriptional Folding and Regulation Mechanisms of Riboswitches.Molecules (Basel, Switzerland) · 2017Review
- Translational control and Rho-dependent transcription termination are intimately linked in riboswitch regulation.Nucleic acids research · 2017Article
- ThiN as a Versatile Domain of Transcriptional Repressors and Catalytic Enzymes of Thiamine Biosynthesis.Journal of bacteriology · 2017Article
- Article
- Quantitative and predictive model of kinetic regulation by E. coli TPP riboswitches.RNA biology · 2016Article
- Simultaneous folding of alternative RNA structures with mutual constraints: an application to next-generation sequencing-based RNA structure probing.Journal of computational biology : a journal of computational molecular cell biology · 2014Article
- Novel TPP-riboswitch activators bypass metabolic enzyme dependency.Frontiers in chemistry · 2014Article
- Finding consensus stable local optimal structures for aligned RNA sequences and its application to discovering riboswitch elements.International journal of bioinformatics research and applications · 2014Article
- A personal perspective on chemistry-driven RNA research.Biopolymers · 2013Article
- Selection of RNAs for constructing "Lighting-UP" biomolecular switches in response to specific small molecules.PloS one · 2013Article
- Abstract folding space analysis based on helices.RNA (New York, N.Y.) · 2012Article
- Conformational heterogeneity of the SAM-I riboswitch transcriptional ON state: a chaperone-like role for S-adenosyl methionine.Journal of molecular biology · 2012Article
- Dynamic energy landscapes of riboswitches help interpret conformational rearrangements and function.PLoS computational biology · 2012Article
- Article
Corrections and comments
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The thiM riboswitch contains an aptamer domain that adaptively binds the coenzyme thiamine pyrophosphate (TPP). The binding of TPP to the aptamer domain induces structural rearrangements that are relayed to a second domain, the so-called expression domain, thereby interfering with gene expression. The recently solved crystal structures of the aptamer domains of the thiM riboswitches in complex with TPP revealed how TPP stabilizes secondary and tertiary structures in the RNA ligand complex. To understand the global modes of reorganization between the two domains upon metabolite binding the structure of the entire riboswitch in presence and absence of TPP needs to be determined. Here we report the secondary structure of the entire thiM riboswitch from Escherichia coli in its TPP-free form and its transition into the TPP-bound variant, thereby depicting domains of the riboswitch that serve as communication links between the aptamer and the expression domain. Furthermore, structural probing provides an explanation for the lack of genetic control exerted by a riboswitch variant with mutations in the expression domain that still binds TPP.
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