Published in Trends Biochem Sci on August 30, 2007
Frameshifting RNA pseudoknots: structure and mechanism. Virus Res (2008) 2.02
Adenylate kinase and AMP signaling networks: metabolic monitoring, signal communication and body energy sensing. Int J Mol Sci (2009) 1.67
The structural basis for recognition of the PreQ0 metabolite by an unusually small riboswitch aptamer domain. J Biol Chem (2009) 1.47
The ligand-free state of the TPP riboswitch: a partially folded RNA structure. J Mol Biol (2009) 1.39
Genomic SELEX for Hfq-binding RNAs identifies genomic aptamers predominantly in antisense transcripts. Nucleic Acids Res (2010) 1.27
Mechanisms and evolution of control logic in prokaryotic transcriptional regulation. Microbiol Mol Biol Rev (2009) 1.25
Isotope labeling strategies for NMR studies of RNA. J Biomol NMR (2009) 1.24
SAM recognition and conformational switching mechanism in the Bacillus subtilis yitJ S box/SAM-I riboswitch. J Mol Biol (2010) 1.15
Amino acid recognition and gene regulation by riboswitches. Biochim Biophys Acta (2009) 1.11
Inducible gene expression from the plastid genome by a synthetic riboswitch. Proc Natl Acad Sci U S A (2010) 1.04
Computing folding pathways between RNA secondary structures. Nucleic Acids Res (2009) 0.96
Multiple metal-binding cores are required for metalloregulation by M-box riboswitch RNAs. J Mol Biol (2009) 0.94
Towards deciphering the principles underlying an mRNA recognition code. Curr Opin Struct Biol (2008) 0.94
Key labeling technologies to tackle sizeable problems in RNA structural biology. Int J Mol Sci (2008) 0.94
Metabolites of an Epac-selective cAMP analog induce cortisol synthesis by adrenocortical cells through a cAMP-independent pathway. PLoS One (2009) 0.91
Database proton NMR chemical shifts for RNA signal assignment and validation. J Biomol NMR (2012) 0.90
Leakage and slow allostery limit performance of single drug-sensing aptazyme molecules based on the hammerhead ribozyme. RNA (2008) 0.90
Analysing RNA-kinetics based on folding space abstraction. BMC Bioinformatics (2014) 0.84
Maximum expected accuracy structural neighbors of an RNA secondary structure. BMC Bioinformatics (2012) 0.84
A conserved RNA pseudoknot in a putative molecular switch domain of the 3'-untranslated region of coronaviruses is only marginally stable. RNA (2011) 0.84
Single-molecule chemical denaturation of riboswitches. Nucleic Acids Res (2013) 0.84
Transport of magnesium by a bacterial Nramp-related gene. PLoS Genet (2014) 0.84
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
Ultrafast dynamics show that the theophylline and 3-methylxanthine aptamers employ a conformational capture mechanism for binding their ligands. Biochemistry (2010) 0.81
Predicting folding pathways between RNA conformational structures guided by RNA stacks. BMC Bioinformatics (2012) 0.80
Prediction of hydrogen and carbon chemical shifts from RNA using database mining and support vector regression. J Biomol NMR (2015) 0.80
Multi-objective optimization for RNA design with multiple target secondary structures. BMC Bioinformatics (2015) 0.78
Soybean seed lectin prevents the accumulation of S-adenosyl methionine synthetase and the S1 30S ribosomal protein in Bradyrhizobium japonicum under C and N starvation. Curr Microbiol (2012) 0.76
Regulatory insights into the production of UDP-N-acetylglucosamine by Lactobacillus casei. Bioengineered (2012) 0.75
Materiomics for Oral Disease Diagnostics and Personal Health Monitoring: Designer Biomaterials for the Next Generation Biomarkers. OMICS (2016) 0.75
Energy parameters and novel algorithms for an extended nearest neighbor energy model of RNA. PLoS One (2014) 0.75
In vitro selection of RNA molecules that bind specific ligands. Nature (1990) 30.19
Rfam: annotating non-coding RNAs in complete genomes. Nucleic Acids Res (2005) 25.49
The kink-turn: a new RNA secondary structure motif. EMBO J (2001) 8.58
Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression. Nature (2002) 8.14
Gene regulation by riboswitches. Nat Rev Mol Cell Biol (2004) 7.00
RNA tertiary interactions in the large ribosomal subunit: the A-minor motif. Proc Natl Acad Sci U S A (2001) 6.58
Riboswitches control fundamental biochemical pathways in Bacillus subtilis and other bacteria. Cell (2003) 6.21
Control of gene expression by a natural metabolite-responsive ribozyme. Nature (2004) 6.04
Regulation of bacterial gene expression by riboswitches. Annu Rev Microbiol (2005) 5.66
Structural basis for discriminative regulation of gene expression by adenine- and guanine-sensing mRNAs. Chem Biol (2004) 5.44
An mRNA structure that controls gene expression by binding FMN. Proc Natl Acad Sci U S A (2002) 5.02
Relationship between internucleotide linkage geometry and the stability of RNA. RNA (1999) 5.01
The riboswitch control of bacterial metabolism. Trends Biochem Sci (2004) 4.95
A glycine-dependent riboswitch that uses cooperative binding to control gene expression. Science (2004) 4.91
Structure of a natural guanine-responsive riboswitch complexed with the metabolite hypoxanthine. Nature (2004) 4.91
Genetic control by a metabolite binding mRNA. Chem Biol (2002) 4.85
Sensing small molecules by nascent RNA: a mechanism to control transcription in bacteria. Cell (2002) 4.67
New RNA motifs suggest an expanded scope for riboswitches in bacterial genetic control. Proc Natl Acad Sci U S A (2004) 4.35
Structure of the S-adenosylmethionine riboswitch regulatory mRNA element. Nature (2006) 4.22
Folding of the adenine riboswitch. Chem Biol (2006) 3.95
Structural basis of glmS ribozyme activation by glucosamine-6-phosphate. Science (2006) 3.94
Structural basis for gene regulation by a thiamine pyrophosphate-sensing riboswitch. Nature (2006) 3.90
Adenine riboswitches and gene activation by disruption of a transcription terminator. Nat Struct Mol Biol (2003) 3.84
An mRNA structure that controls gene expression by binding S-adenosylmethionine. Nat Struct Biol (2003) 3.75
The speed of RNA transcription and metabolite binding kinetics operate an FMN riboswitch. Mol Cell (2005) 3.62
Metabolite-binding RNA domains are present in the genes of eukaryotes. RNA (2003) 3.42
An mRNA structure in bacteria that controls gene expression by binding lysine. Genes Dev (2003) 3.37
The crystal structure of yeast phenylalanine tRNA at 1.93 A resolution: a classic structure revisited. RNA (2000) 3.25
Structure of the eukaryotic thiamine pyrophosphate riboswitch with its regulatory ligand. Science (2006) 3.24
Riboswitches as antibacterial drug targets. Nat Biotechnol (2006) 3.01
The kinetics of ligand binding by an adenine-sensing riboswitch. Biochemistry (2005) 2.98
Analysis of RNA motifs. Curr Opin Struct Biol (2003) 2.97
Regulatory mechanisms employed by cis-encoded antisense RNAs. Curr Opin Microbiol (2007) 2.93
Crystal structures of the thi-box riboswitch bound to thiamine pyrophosphate analogs reveal adaptive RNA-small molecule recognition. Structure (2006) 2.85
The riboswitch-mediated control of sulfur metabolism in bacteria. Proc Natl Acad Sci U S A (2003) 2.83
CsrB sRNA family: sequestration of RNA-binding regulatory proteins. Curr Opin Microbiol (2007) 2.83
An RNA sensor for intracellular Mg(2+). Cell (2006) 2.74
Transcription termination control of the S box system: direct measurement of S-adenosylmethionine by the leader RNA. Proc Natl Acad Sci U S A (2003) 2.68
Structural investigation of the GlmS ribozyme bound to Its catalytic cofactor. Chem Biol (2006) 2.60
A riboswitch selective for the queuosine precursor preQ1 contains an unusually small aptamer domain. Nat Struct Mol Biol (2007) 2.52
Structural basis of RNA folding and recognition in an AMP-RNA aptamer complex. Nature (1996) 2.51
Small RNA regulators and the bacterial response to stress. Cold Spring Harb Symp Quant Biol (2006) 2.31
An intermolecular base triple as the basis of ligand specificity and affinity in the guanine- and adenine-sensing riboswitch RNAs. Proc Natl Acad Sci U S A (2005) 2.07
Thiamine pyrophosphate riboswitches are targets for the antimicrobial compound pyrithiamine. Chem Biol (2005) 2.00
Solution structure of an ATP-binding RNA aptamer reveals a novel fold. RNA (1996) 1.97
Adenosylcobalamin inhibits ribosome binding to btuB RNA. Proc Natl Acad Sci U S A (2000) 1.93
Structure, recognition and adaptive binding in RNA aptamer complexes. J Mol Biol (1997) 1.89
Evidence for preorganization of the glmS ribozyme ligand binding pocket. Biochemistry (2006) 1.84
Interplay of 'induced fit' and preorganization in the ligand induced folding of the aptamer domain of the guanine binding riboswitch. Nucleic Acids Res (2006) 1.78
Molecular recognition in the FMN-RNA aptamer complex. J Mol Biol (1996) 1.74
In vitro genetics. Trends Biochem Sci (1992) 1.69
Complexity in regulation of tryptophan biosynthesis in Bacillus subtilis. Annu Rev Genet (2005) 1.56
The structural basis for molecular recognition by the vitamin B 12 RNA aptamer. Nat Struct Biol (2000) 1.48
Trans-acting glmS catalytic riboswitch: locked and loaded. RNA (2007) 1.32
The expanding universe of noncoding RNAs. Cold Spring Harb Symp Quant Biol (2006) 1.29
Aptamers selected for higher-affinity binding are not more specific for the target ligand. J Am Chem Soc (2006) 1.28
The different roles of tryptophan transfer RNA in regulating trp operon expression in E. coli versus B. subtilis. Trends Genet (2004) 1.23
Transcription attenuation. Biochim Biophys Acta (2002) 1.20
Crystal structure of Thermus aquaticus Gfh1, a Gre-factor paralog that inhibits rather than stimulates transcript cleavage. J Mol Biol (2005) 1.11
Metabolic monitoring by bacterial mRNAs. Arch Microbiol (2005) 1.09
Sensing metabolic signals with nascent RNA transcripts: the T box and S box riboswitches as paradigms. Cold Spring Harb Symp Quant Biol (2006) 1.09
Molecular-recognition characteristics of SAM-binding riboswitches. Angew Chem Int Ed Engl (2006) 1.06
Solution structure of an informationally complex high-affinity RNA aptamer to GTP. RNA (2006) 1.06
Structural studies of the purine and SAM binding riboswitches. Cold Spring Harb Symp Quant Biol (2006) 1.03
Regulating bacterial transcription with small RNAs. Cold Spring Harb Symp Quant Biol (2006) 1.02
A water channel in the core of the vitamin B(12) RNA aptamer. Structure (2000) 0.94
RNA allostery glimpsed. Nat Struct Mol Biol (2006) 0.80
Riboswitches control fundamental biochemical pathways in Bacillus subtilis and other bacteria. Cell (2003) 6.21
Nicastrin functions as a gamma-secretase-substrate receptor. Cell (2005) 4.64
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
Structure and mechanism of a metal-sensing regulatory RNA. Cell (2007) 3.05
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
Conformational changes in the hepatitis B virus core protein are consistent with a role for allostery in virus assembly. J Virol (2009) 1.42
Multiple posttranscriptional regulatory mechanisms partner to control ethanolamine utilization in Enterococcus faecalis. Proc Natl Acad Sci U S A (2009) 1.38
Structures of human folate receptors reveal biological trafficking states and diversity in folate and antifolate recognition. Proc Natl Acad Sci U S A (2013) 1.28
A new structural paradigm in copper resistance in Streptococcus pneumoniae. Nat Chem Biol (2013) 1.17
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
Crystal structure of the zinc-dependent MarR family transcriptional regulator AdcR in the Zn(II)-bound state. J Am Chem Soc (2011) 1.04
The mechanism for RNA recognition by ANTAR regulators of gene expression. PLoS Genet (2012) 1.00
Coronavirus N protein N-terminal domain (NTD) specifically binds the transcriptional regulatory sequence (TRS) and melts TRS-cTRS RNA duplexes. J Mol Biol (2009) 1.00
Functional characterization of core components of the Bacillus subtilis cyclic-di-GMP signaling pathway. J Bacteriol (2013) 0.98
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
Allosteric inhibition of a zinc-sensing transcriptional repressor: insights into the arsenic repressor (ArsR) family. J Mol Biol (2013) 0.90
Oxidative lipid modification of nicastrin enhances amyloidogenic γ-secretase activity in Alzheimer's disease. Aging Cell (2012) 0.88
Redox and light control the heme-sensing activity of AppA. MBio (2013) 0.86
Assessment of the requirements for magnesium transporters in Bacillus subtilis. J Bacteriol (2014) 0.84
Crystal structure of Caenorhabditis elegans HER-1 and characterization of the interaction between HER-1 and TRA-2A. Proc Natl Acad Sci U S A (2004) 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
Mechanism and distribution of glmS ribozymes. Methods Mol Biol (2012) 0.77
RNA structure: Riboswitch strikes a chord. Nat Chem Biol (2011) 0.75
Structural and Enzymatic Analysis of Tumor-Targeted Antifolates That Inhibit Glycinamide Ribonucleotide Formyltransferase. Biochemistry (2016) 0.75
Correction to Structural and Enzymatic Analysis of Tumor-Targeted Antifolates That Inhibit Glycinamide Ribonucleotide Formyltransferase. Biochemistry (2017) 0.75
Methods for analysis of ligand-induced RNA conformational changes. Methods Mol Biol (2009) 0.75