Structure and mechanism of purine-binding riboswitches

Exploring RNA Structural Codes with SHAPE Chemistry

(2011) Kevin M. Weeks et al.   ACCOUNTS OF CHEMICAL RESEARCH

The Dynamic Nature of RNA as Key to Understanding Riboswitch Mechanisms

(2011) Andrea Haller et al.   ACCOUNTS OF CHEMICAL RESEARCH

Assembly of Bacterial Ribosomes

(2011) Zahra Shajani et al.   Annual Review of Biochemistry

Dynamic Ensemble View of the Conformational Landscape of HIV-1 TAR RNA and Allosteric Recognition

(2011) Jia Lu et al.   BIOCHEMISTRY

Novel Ligands for a Purine Riboswitch Discovered by RNA-Ligand Docking

(2011) Peter Daldrop et al.   CHEMISTRY & BIOLOGY

Comparison of a PreQ1Riboswitch Aptamer in Metabolite-bound and Free States with Implications for Gene Regulation

(2011) Jermaine L. Jenkins et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Bacterial Transcription Terminators: The RNA 3′-End Chronicles

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

A Powerful Approach for the Selection of 2-Aminopurine Substitution Sites to Investigate RNA Folding

(2011) Marie F. Soulière et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Differential Analogue Binding by Two Classes of c-di-GMP Riboswitches

(2011) Carly A. Shanahan et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Regulation by Small RNAs in Bacteria: Expanding Frontiers

(2011) Gisela Storz et al.   MOLECULAR CELL

Prospects for Riboswitch Discovery and Analysis

(2011) Ronald R. Breaker   MOLECULAR CELL

Molecular Mechanisms of Long Noncoding RNAs

(2011) Kevin C. Wang et al.   MOLECULAR CELL

Structural principles of nucleoside selectivity in a 2′-deoxyguanosine riboswitch

(2011) Olga Pikovskaya et al.   Nature Chemical Biology

Conformational capture of the SAM-II riboswitch

(2011) Andrea Haller et al.   Nature Chemical Biology

Discovery of selective bioactive small molecules by targeting an RNA dynamic ensemble

(2011) Andrew C Stelzer et al.   Nature Chemical Biology

Influence of ground-state structure and Mg 2+ binding on folding kinetics of the guanine-sensing riboswitch aptamer domain

(2011) Janina Buck et al.   NUCLEIC ACIDS RESEARCH

Unraveling the structural complexity in a single-stranded RNA tail: implications for efficient ligand binding in the prequeuosine riboswitch

(2011) Catherine D. Eichhorn et al.   NUCLEIC ACIDS RESEARCH

Single-molecule force spectroscopy of the add adenine riboswitch relates folding to regulatory mechanism

(2011) Krishna Neupane et al.   NUCLEIC ACIDS RESEARCH

Long-range pseudoknot interactions dictate the regulatory response in the tetrahydrofolate riboswitch

(2011) L. Huang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structural basis of differential ligand recognition by two classes of bis-(3'-5')-cyclic dimeric guanosine monophosphate-binding riboswitches

(2011) K. D. Smith et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA folding in living cells

(2011) Georgeta Zemora et al.   RNA Biology

The Structure of a Tetrahydrofolate-Sensing Riboswitch Reveals Two Ligand Binding Sites in a Single Aptamer

(2011) Jeremiah J. Trausch et al.   STRUCTURE

Comparative Study between Transcriptionally- and Translationally-Acting Adenine Riboswitches Reveals Key Differences in Riboswitch Regulatory Mechanisms

(2011) Jean-François Lemay et al.   PLoS Genetics

Recognition of S -adenosylmethionine by riboswitches

(2011) Robert T. Batey   Wiley Interdisciplinary Reviews-RNA

CRISPR/Cas System and Its Role in Phage-Bacteria Interactions

(2010) Hélène Deveau et al.   Annual Review of Microbiology

Multivector Fluorescence Analysis of thexptGuanine Riboswitch Aptamer Domain and the Conformational Role of Guanine

(2010) Michael D. Brenner et al.   BIOCHEMISTRY

Heterogeneity and Dynamics of the Ligand Recognition Mode in Purine-Sensing Riboswitches

(2010) Niyati Jain et al.   BIOCHEMISTRY

Ribozymes and Riboswitches: Modulation of RNA Function by Small Molecules

(2010) Jinwei Zhang et al.   BIOCHEMISTRY

Structural and Biochemical Determinants of Ligand Binding by the c-di-GMP Riboswitch,

(2010) Kathryn D. Smith et al.   BIOCHEMISTRY

A Eubacterial Riboswitch Class That Senses the Coenzyme Tetrahydrofolate

(2010) Tyler D. Ames et al.   CHEMISTRY & BIOLOGY

Structural Insights into Ligand Recognition by a Sensing Domain of the Cooperative Glycine Riboswitch

(2010) Lili Huang et al.   MOLECULAR CELL

Reprogramming bacteria to seek and destroy an herbicide

(2010) Joy Sinha et al.   Nature Chemical Biology

RNAs: regulators of bacterial virulence

(2010) Jonas Gripenland et al.   NATURE REVIEWS MICROBIOLOGY

Selecting RNA aptamers for synthetic biology: investigating magnesium dependence and predicting binding affinity

(2010) James M. Carothers et al.   NUCLEIC ACIDS RESEARCH

Reengineering orthogonally selective riboswitches

(2010) N. Dixon et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Real-time multidimensional NMR follows RNA folding with second resolution

(2010) M.-K. Lee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The RFN riboswitch ofBacillus subtilisis a target for the antibiotic roseoflavin produced byStreptomyces davawensis

(2010) Eva Ott et al.   RNA Biology

Roseoflavin is a natural antibacterial compound that binds to FMN riboswitches and regulates gene expression

(2010) Elaine R. Lee et al.   RNA Biology

Revealing the Dark Matter of the Genome

(2010) M. Blaxter   SCIENCE

An Allosteric Self-Splicing Ribozyme Triggered by a Bacterial Second Messenger

(2010) E. R. Lee et al.   SCIENCE

A NusE:NusG Complex Links Transcription and Translation

(2010) B. M. Burmann et al.   SCIENCE

Cooperation Between Translating Ribosomes and RNA Polymerase in Transcription Elongation

(2010) S. Proshkin et al.   SCIENCE

Free State Conformational Sampling of the SAM-I Riboswitch Aptamer Domain

(2010) Colby D. Stoddard et al.   STRUCTURE

Getting Past the RNA World: The Initial Darwinian Ancestor

(2010) M. Yarus   Cold Spring Harbor Perspectives in Biology

Riboswitches and the RNA World

(2010) R. R. Breaker   Cold Spring Harbor Perspectives in Biology

mRNA Secondary Structures Fold Sequentially But Exchange Rapidly In Vivo

(2010) Elisabeth M. Mahen et al.   PLOS BIOLOGY

Novel Riboswitch Ligand Analogs as Selective Inhibitors of Guanine-Related Metabolic Pathways

(2010) Jérôme Mulhbacher et al.   PLoS Pathogens

Comparative genomics reveals 104 candidate structured RNAs from bacteria, archaea, and their metagenomes

(2010) Zasha Weinberg et al.   GENOME BIOLOGY

Design and Antimicrobial Action of Purine Analogues That Bind Guanine Riboswitches

(2009) Jane N. Kim et al.   ACS Chemical Biology

A switch in time: Detailing the life of a riboswitch

(2009) Andrew D. Garst et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Sequence-dependent folding and unfolding of ligand-bound purine riboswitches

(2009) Oksana Prychyna et al.   BIOPOLYMERS

Queuosine modification of tRNA: its divergent role in cellular machinery

(2009) Manjula Vinayak et al.   BIOSCIENCE REPORTS

Evidence for Pseudoknot Formation of Class I preQ1Riboswitch Aptamers

(2009) Ulrike Rieder et al.   CHEMBIOCHEM

The Structural Basis for Recognition of the PreQ0Metabolite by an Unusually Small Riboswitch Aptamer Domain

(2009) Robert C. Spitale et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Probing RNA conformational dynamics and heterogeneity using femtosecond time-resolved fluorescence spectroscopy

(2009) Liang Zhao et al.   METHODS

Structural Insights into Riboswitch Control of the Biosynthesis of Queuosine, a Modified Nucleotide Found in the Anticodon of tRNA

(2009) Mijeong Kang et al.   MOLECULAR CELL

The role of dynamic conformational ensembles in biomolecular recognition

(2009) David D Boehr et al.   Nature Chemical Biology

Absolute metabolite concentrations and implied enzyme active site occupancy in Escherichia coli

(2009) Bryson D Bennett et al.   Nature Chemical Biology

Small silencing RNAs: an expanding universe

(2009) Megha Ghildiyal et al.   NATURE REVIEWS GENETICS

Principles of c-di-GMP signalling in bacteria

(2009) Regine Hengge   NATURE REVIEWS MICROBIOLOGY

Cocrystal structure of a class I preQ1 riboswitch reveals a pseudoknot recognizing an essential hypermodified nucleobase

(2009) Daniel J Klein et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Recognition of the bacterial second messenger cyclic diguanylate by its cognate riboswitch

(2009) Nadia Kulshina et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Structural basis of ligand binding by a c-di-GMP riboswitch

(2009) Kathryn D Smith et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Three-way RNA junctions with remote tertiary contacts: A recurrent and highly versatile fold

(2009) M. d. l. Pena et al.   RNA

Adaptive Ligand Binding by the Purine Riboswitch in the Recognition of Guanine and Adenine Analogs

(2009) Sunny D. Gilbert et al.   STRUCTURE

Structural Principles From Large RNAs

(2008) Stephen R. Holbrook   Annual Review of Biophysics

The Dynamic Structural Basis of Differential Enhancement of Conformational Stability by 5′- and 3′-Dangling Ends in RNA†

(2008) John D. Liu et al.   BIOCHEMISTRY

Folding of the SAM Aptamer is Determined by the Formation of a K-turn-dependent Pseudoknot†

(2008) Benoit Heppell et al.   BIOCHEMISTRY

The Corrin Moiety of Coenzyme B12is the Determinant for Switching thebtuBRiboswitch ofE. coli

(2008) Sofia Gallo et al.   CHEMBIOCHEM

Riboswitches: Ancient and Promising Genetic Regulators

(2008) Simon Blouin et al.   CHEMBIOCHEM

Targeting RNA with Small Molecules

(2008) Jason R. Thomas et al.   CHEMICAL REVIEWS

Folding and unfolding single RNA molecules under tension

(2008) Michael T Woodside et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Crystal Structure of the Lysine Riboswitch Regulatory mRNA Element

(2008) Andrew D. Garst et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A Structural Basis for the Recognition of 2′-Deoxyguanosine by the Purine Riboswitch

(2008) Andrea L. Edwards et al.   JOURNAL OF MOLECULAR BIOLOGY

Strong Correlation between SHAPE Chemistry and the Generalized NMR Order Parameter (S2) in RNA

(2008) Costin M. Gherghe et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Regulation of Pyrimidine Biosynthetic Gene Expression in Bacteria: Repression without Repressors

(2008) C. L. Turnbough et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

A widespread riboswitch candidate that controls bacterial genes involved in molybdenum cofactor and tungsten cofactor metabolism

(2008) Elizabeth E. Regulski et al.   MOLECULAR MICROBIOLOGY

A stress-responsive RNA switch regulates VEGFA expression

(2008) Partho Sarothi Ray et al.   NATURE

Single-molecule force spectroscopy: optical tweezers, magnetic tweezers and atomic force microscopy

(2008) Keir C Neuman et al.   NATURE METHODS

Structure of the SAM-II riboswitch bound to S-adenosylmethionine

(2008) Sunny D Gilbert et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Confirmation of a second natural preQ1 aptamer class in Streptococcaceae bacteria

(2008) M. M. Meyer et al.   RNA

Ligand-dependent folding of the three-way junction in the purine riboswitch

(2008) C. D Stoddard et al.   RNA

Direct Observation of Hierarchical Folding in Single Riboswitch Aptamers

(2008) W. J. Greenleaf et al.   SCIENCE

BIOCHEMISTRY: How Do Proteins Interact?

(2008) D. D. Boehr et al.   SCIENCE

Riboswitches in Eubacteria Sense the Second Messenger Cyclic Di-GMP

(2008) N. Sudarsan et al.   SCIENCE