Single transcriptional and translational preQ1 riboswitches adopt similar pre-folded ensembles that follow distinct folding pathways into the same ligand-bound structure

Structure of a class II preQ1 riboswitch reveals ligand recognition by a new fold

(2013) Joseph A Liberman et al.   Nature Chemical Biology

Allosteric Tertiary Interactions Preorganize the c-di-GMP Riboswitch and Accelerate Ligand Binding

(2012) Sharla Wood et al.   ACS Chemical Biology

Molecular Mechanism of preQ1 Riboswitch Action: A Molecular Dynamics Study

(2012) Pavel Banáš et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Pseudoknot Preorganization of the PreQ1 Class I Riboswitch

(2012) Tobias Santner et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Computational Study of Unfolding and Regulation Mechanism of preQ1 Riboswitches

(2012) Zhou Gong et al.   PLoS One

RecA filament sliding on DNA facilitates homology search

(2012) Kaushik Ragunathan et al.   eLife

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

Atomic-scale characterization of conformational changes in the preQ1 riboswitch aptamer upon ligand binding

(2011) Paula M. Petrone et al.   JOURNAL OF MOLECULAR GRAPHICS & MODELLING

Comparison of Solution and Crystal Structures of PreQ1Riboswitch Reveals Calcium-Induced Changes in Conformation and Dynamics

(2011) Qi Zhang et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Cooperative and Directional Folding of the preQ1Riboswitch Aptamer Domain

(2011) Jun Feng et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Prospects for Riboswitch Discovery and Analysis

(2011) Ronald R. Breaker   MOLECULAR CELL

Conformational capture of the SAM-II riboswitch

(2011) Andrea Haller et al.   Nature Chemical Biology

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

Multiple conformations of SAM-II riboswitch detected with SAXS and NMR spectroscopy

(2011) Bin Chen et al.   NUCLEIC ACIDS RESEARCH

What lessons can be learned from studying the folding of homologous proteins?

(2010) Adrian A. Nickson et al.   METHODS

Molecular robots guided by prescriptive landscapes

(2010) Kyle Lund et al.   NATURE

Conformational dynamics of single pre-mRNA molecules during in vitro splicing

(2010) John Abelson et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Folding of a transcriptionally acting PreQ1 riboswitch

(2010) U. Rieder et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Long-range tertiary interactions in single hammerhead ribozymes bias motional sampling toward catalytically active conformations

(2010) S. E. McDowell et al.   RNA

Evidence for Pseudoknot Formation of Class I preQ1Riboswitch Aptamers

(2009) Ulrike Rieder et al.   CHEMBIOCHEM

Insights from Coarse-Grained Gō Models for Protein Folding and Dynamics

(2009) Ronald Hills et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

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

CHARMM: The biomolecular simulation program

(2009) B. R. Brooks et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

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

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

Conformational selection or induced fit: A flux description of reaction mechanism

(2009) G. G. Hammes et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA structure alignment by a unit-vector approach

(2008) E. Capriotti et al.   BIOINFORMATICS

Single VS Ribozyme Molecules Reveal Dynamic and Hierarchical Folding Toward Catalysis

(2008) Miguel J.B. Pereira et al.   JOURNAL OF MOLECULAR BIOLOGY

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 practical guide to single-molecule FRET

(2008) Rahul Roy et al.   NATURE METHODS

A rugged free energy landscape separates multiple functional RNA folds throughout denaturation

(2008) Mark A. Ditzler et al.   NUCLEIC ACIDS RESEARCH

Leakage and slow allostery limit performance of single drug-sensing aptazyme molecules based on the hammerhead ribozyme

(2008) C. de Silva et al.   RNA