Published in Cell on September 07, 2007
High-throughput SHAPE analysis reveals structures in HIV-1 genomic RNA strongly conserved across distinct biological states. PLoS Biol (2008) 4.40
The structural and functional diversity of metabolite-binding riboswitches. Annu Rev Biochem (2009) 4.20
A decade of riboswitches. Cell (2013) 3.26
How do bacterial cells ensure that metalloproteins get the correct metal? Nat Rev Microbiol (2009) 3.12
Riboswitches and the RNA world. Cold Spring Harb Perspect Biol (2012) 2.53
Riboswitch RNAs: using RNA to sense cellular metabolism. Genes Dev (2008) 2.47
Understanding the transcriptome through RNA structure. Nat Rev Genet (2011) 2.46
Structural insights into amino acid binding and gene control by a lysine riboswitch. Nature (2008) 2.41
Advances in RNA structure analysis by chemical probing. Curr Opin Struct Biol (2010) 2.24
Accurate SHAPE-directed RNA secondary structure modeling, including pseudoknots. Proc Natl Acad Sci U S A (2013) 2.11
Riboswitch control of Rho-dependent transcription termination. Proc Natl Acad Sci U S A (2012) 2.10
Frameshifting RNA pseudoknots: structure and mechanism. Virus Res (2008) 2.02
Mechanism of mRNA destabilization by the glmS ribozyme. Genes Dev (2007) 2.01
Identification of regulatory RNAs in Bacillus subtilis. Nucleic Acids Res (2010) 1.99
RNA folding: thermodynamic and molecular descriptions of the roles of ions. Biophys J (2008) 1.90
Ligand-dependent folding of the three-way junction in the purine riboswitch. RNA (2008) 1.77
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Fluorescent sensors for measuring metal ions in living systems. Chem Rev (2014) 1.71
The long and the short of riboswitches. Curr Opin Struct Biol (2009) 1.59
Idiosyncratically tuned switching behavior of riboswitch aptamer domains revealed by comparative small-angle X-ray scattering analysis. RNA (2010) 1.58
Ribozymes and riboswitches: modulation of RNA function by small molecules. Biochemistry (2010) 1.58
Expanding roles for metabolite-sensing regulatory RNAs. Curr Opin Microbiol (2009) 1.55
Riboswitches: discovery of drugs that target bacterial gene-regulatory RNAs. Acc Chem Res (2011) 1.52
The mechanisms of RNA SHAPE chemistry. J Am Chem Soc (2012) 1.52
A disconnect between high-affinity binding and efficient regulation by antifolates and purines in the tetrahydrofolate riboswitch. Chem Biol (2014) 1.49
Riboswitches in eubacteria sense the second messenger c-di-AMP. Nat Chem Biol (2013) 1.47
Metabolite recognition principles and molecular mechanisms underlying riboswitch function. Annu Rev Biophys (2012) 1.47
Comparative study between transcriptionally- and translationally-acting adenine riboswitches reveals key differences in riboswitch regulatory mechanisms. PLoS Genet (2011) 1.46
The ligand-free state of the TPP riboswitch: a partially folded RNA structure. J Mol Biol (2009) 1.39
Multiple posttranscriptional regulatory mechanisms partner to control ethanolamine utilization in Enterococcus faecalis. Proc Natl Acad Sci U S A (2009) 1.38
The structure of a tetrahydrofolate-sensing riboswitch reveals two ligand binding sites in a single aptamer. Structure (2011) 1.36
A pH-responsive riboregulator. Genes Dev (2009) 1.33
The unique nature of mg2+ channels. Physiology (Bethesda) (2008) 1.29
A switch in time: detailing the life of a riboswitch. Biochim Biophys Acta (2009) 1.29
Fluoride ion encapsulation by Mg2+ ions and phosphates in a fluoride riboswitch. Nature (2012) 1.26
The influence of monovalent cation size on the stability of RNA tertiary structures. J Mol Biol (2009) 1.24
Mg(2+)-dependent gating of bacterial MgtE channel underlies Mg(2+) homeostasis. EMBO J (2009) 1.20
Three-dimensional RNA structure refinement by hydroxyl radical probing. Nat Methods (2012) 1.20
The Escherichia coli MntR miniregulon includes genes encoding a small protein and an efflux pump required for manganese homeostasis. J Bacteriol (2011) 1.18
RNA secondary structure modeling at consistent high accuracy using differential SHAPE. RNA (2014) 1.18
Metabolism of Free Guanidine in Bacteria Is Regulated by a Widespread Riboswitch Class. Mol Cell (2016) 1.17
Non-coding RNA and its potential role in Mycobacterium tuberculosis pathogenesis. RNA Biol (2012) 1.15
Dissecting electrostatic screening, specific ion binding, and ligand binding in an energetic model for glycine riboswitch folding. RNA (2010) 1.13
Mg2+-sensing mechanism of Mg2+ transporter MgtE probed by molecular dynamics study. Proc Natl Acad Sci U S A (2008) 1.11
Amino acid recognition and gene regulation by riboswitches. Biochim Biophys Acta (2009) 1.11
Metal preferences and metallation. J Biol Chem (2014) 1.08
Perspectives on the mechanism of transcriptional regulation by long non-coding RNAs. Epigenetics (2013) 1.08
Structural insights into recognition of c-di-AMP by the ydaO riboswitch. Nat Chem Biol (2014) 1.07
Integrating chemical footprinting data into RNA secondary structure prediction. PLoS One (2012) 1.07
Regulation of the Bacillus subtilis yciC gene and insights into the DNA-binding specificity of the zinc-sensing metalloregulator Zur. J Bacteriol (2008) 1.04
Multiple conformations of SAM-II riboswitch detected with SAXS and NMR spectroscopy. Nucleic Acids Res (2011) 1.03
Long-range pseudoknot interactions dictate the regulatory response in the tetrahydrofolate riboswitch. Proc Natl Acad Sci U S A (2011) 1.01
Emerging structural themes in large RNA molecules. Curr Opin Struct Biol (2011) 1.00
The mechanism for RNA recognition by ANTAR regulators of gene expression. PLoS Genet (2012) 1.00
Regulation Systems of Bacteria such as Escherichia coli in Response to Nutrient Limitation and Environmental Stresses. Metabolites (2013) 0.99
The Pseudomonas aeruginosa magnesium transporter MgtE inhibits transcription of the type III secretion system. Infect Immun (2009) 0.98
Coarse-grained model for simulation of RNA three-dimensional structures. J Phys Chem B (2010) 0.98
Single transcriptional and translational preQ1 riboswitches adopt similar pre-folded ensembles that follow distinct folding pathways into the same ligand-bound structure. Nucleic Acids Res (2013) 0.98
Structural determinants for ligand capture by a class II preQ1 riboswitch. Proc Natl Acad Sci U S A (2014) 0.98
Toward reprogramming bacteria with small molecules and RNA. Curr Opin Chem Biol (2007) 0.97
Towards deciphering the principles underlying an mRNA recognition code. Curr Opin Struct Biol (2008) 0.94
Multiple metal-binding cores are required for metalloregulation by M-box riboswitch RNAs. J Mol Biol (2009) 0.94
Mn(2+)-sensing mechanisms of yybP-ykoY orphan riboswitches. Mol Cell (2015) 0.94
Metal ions: supporting actors in the playbook of small ribozymes. Met Ions Life Sci (2011) 0.93
Insights into metalloregulation by M-box riboswitch RNAs via structural analysis of manganese-bound complexes. J Mol Biol (2011) 0.93
Cation selectivity by the CorA Mg2+ channel requires a fully hydrated cation. Biochemistry (2010) 0.93
Dynamic energy landscapes of riboswitches help interpret conformational rearrangements and function. PLoS Comput Biol (2012) 0.92
The roles of metal ions in regulation by riboswitches. Met Ions Life Sci (2011) 0.92
Mg2+ facilitates leader peptide translation to induce riboswitch-mediated transcription termination. EMBO J (2011) 0.92
Single-molecule studies of the lysine riboswitch reveal effector-dependent conformational dynamics of the aptamer domain. Biochemistry (2012) 0.91
Bacterial Mg2+ homeostasis, transport, and virulence. Annu Rev Genet (2013) 0.91
Loop-loop interaction in an adenine-sensing riboswitch: a molecular dynamics study. RNA (2013) 0.91
Transcriptional regulation of main metabolic pathways of cyoA, cydB, fnr, and fur gene knockout Escherichia coli in C-limited and N-limited aerobic continuous cultures. Microb Cell Fact (2011) 0.90
Structure and function of preQ1 riboswitches. Biochim Biophys Acta (2014) 0.89
Engineering modular 'ON' RNA switches using biological components. Nucleic Acids Res (2013) 0.89
Evidence for a thermodynamically distinct Mg2+ ion associated with formation of an RNA tertiary structure. J Am Chem Soc (2011) 0.88
Deletion of a cation transporter promotes lysis in Streptococcus pneumoniae. Infect Immun (2011) 0.87
Tandem attenuators control expression of the Salmonella mgtCBR virulence operon. Mol Microbiol (2012) 0.87
When Too Much ATP Is Bad for Protein Synthesis. J Mol Biol (2015) 0.86
Metalloregulation of Gram-positive pathogen physiology. Curr Opin Microbiol (2011) 0.86
Bacterial riboswitches cooperatively bind Ni(2+) or Co(2+) ions and control expression of heavy metal transporters. Mol Cell (2015) 0.85
Folding of RNA tertiary structure: Linkages between backbone phosphates, ions, and water. Biopolymers (2013) 0.85
Critical Issues in the Study of Magnesium Transport Systems and Magnesium Deficiency Symptoms in Plants. Int J Mol Sci (2015) 0.84
Assessment of the requirements for magnesium transporters in Bacillus subtilis. J Bacteriol (2014) 0.84
Transport of magnesium by a bacterial Nramp-related gene. PLoS Genet (2014) 0.84
Defect in the formation of 70S ribosomes caused by lack of ribosomal protein L34 can be suppressed by magnesium. J Bacteriol (2014) 0.84
Genetic analysis of riboswitch-mediated transcriptional regulation responding to Mn2+ in Salmonella. J Biol Chem (2014) 0.83
The PhoP/PhoQ system and its role in Serratia marcescens pathogenesis. J Bacteriol (2012) 0.83
Preparation of group I introns for biochemical studies and crystallization assays by native affinity purification. PLoS One (2009) 0.83
Novel redox-sensing modules: accessory protein- and nucleic acid-mediated signaling. Antioxid Redox Signal (2012) 0.83
Comparison of interactions of diamine and Mg²⁺ with RNA tertiary structures: similar versus differential effects on the stabilities of diverse RNA folds. Biochemistry (2013) 0.82
Comparative sequence and structure analysis reveals the conservation and diversity of nucleotide positions and their associated tertiary interactions in the riboswitches. PLoS One (2013) 0.82
RNA-Seq analysis of Mycobacterium avium non-coding transcriptome. PLoS One (2013) 0.82
Measuring metals with RNA. Mol Cell (2007) 0.81
Engineering of Bacillus subtilis strains to allow rapid characterization of heterologous diguanylate cyclases and phosphodiesterases. Appl Environ Microbiol (2014) 0.81
Predicting translational diffusion of evolutionary conserved RNA structures by the nucleotide number. Nucleic Acids Res (2010) 0.81
RNA quaternary structure and global symmetry. Trends Biochem Sci (2015) 0.81
Riboswitch control of induction of aminoglycoside resistance acetyl and adenyl-transferases. RNA Biol (2013) 0.79
Riboswitches control fundamental biochemical pathways in Bacillus subtilis and other bacteria. Cell (2003) 6.21
New RNA motifs suggest an expanded scope for riboswitches in bacterial genetic control. Proc Natl Acad Sci U S A (2004) 4.35
The speed of RNA transcription and metabolite binding kinetics operate an FMN riboswitch. Mol Cell (2005) 3.62
A riboswitch selective for the queuosine precursor preQ1 contains an unusually small aptamer domain. Nat Struct Mol Biol (2007) 2.52
tRNA-mediated transcription antitermination in vitro: codon-anticodon pairing independent of the ribosome. Proc Natl Acad Sci U S A (2002) 2.08
Mechanism of mRNA destabilization by the glmS ribozyme. Genes Dev (2007) 2.01
Identification of regulatory RNAs in Bacillus subtilis. Nucleic Acids Res (2010) 1.99
Expanding roles for metabolite-sensing regulatory RNAs. Curr Opin Microbiol (2009) 1.55
Multiple posttranscriptional regulatory mechanisms partner to control ethanolamine utilization in Enterococcus faecalis. Proc Natl Acad Sci U S A (2009) 1.38
Structural features of metabolite-sensing riboswitches. Trends Biochem Sci (2007) 1.26
Molecular-recognition characteristics of SAM-binding riboswitches. Angew Chem Int Ed Engl (2006) 1.06
A regulatory RNA required for antitermination of biofilm and capsular polysaccharide operons in Bacillales. Mol Microbiol (2010) 1.05
The mechanism for RNA recognition by ANTAR regulators of gene expression. PLoS Genet (2012) 1.00
Magnesium-sensing riboswitches in bacteria. RNA Biol (2010) 0.94
Multiple metal-binding cores are required for metalloregulation by M-box riboswitch RNAs. J Mol Biol (2009) 0.94
Insights into metalloregulation by M-box riboswitch RNAs via structural analysis of manganese-bound complexes. J Mol Biol (2011) 0.93
Association of RNAs with Bacillus subtilis Hfq. PLoS One (2013) 0.92
The roles of metal ions in regulation by riboswitches. Met Ions Life Sci (2011) 0.92
Assessment of the requirements for magnesium transporters in Bacillus subtilis. J Bacteriol (2014) 0.84
Analysis of the RNA backbone: structural analysis of riboswitches by in-line probing and selective 2'-hydroxyl acylation and primer extension. Methods Mol Biol (2009) 0.83
RNA allostery glimpsed. Nat Struct Mol Biol (2006) 0.80
Structural probing techniques on natural aptamers. Methods Mol Biol (2009) 0.79
Real-time molecular beacon NASBA reveals hblC expression from Bacillus spp. in milk. Biochem Biophys Res Commun (2003) 0.78
Mechanism and distribution of glmS ribozymes. Methods Mol Biol (2012) 0.77
Methods for analysis of ligand-induced RNA conformational changes. Methods Mol Biol (2009) 0.75