- Supporting Information: Mechanistic Characterization of the HDV Genomic Ribozyme: A Mutant of the C41 Motif
- 368 BioTechniques Vol. 38, No. 3 (2005) Secondary structural motifs of
- Isolation and Characterization of a Family of Stable RNA Tetraloops with the Motif YNMG That Participate in Tertiary Interactions
- Simple Method for Determining Nucleobase pKa Values by Indirect Labeling and Demonstration of a pKa of Neutrality in dsDNA
- SUPPLEMENTARY INFORMATION FOR: RNA helical imperfections regulate activation of the protein kinase PKR
- Supplemental Information RNA G-Quadruplexes in the model plant species Arabidopsis thaliana
- A 1.9 crystal structure of the HDV ribozyme pre-cleavage suggests both Lewis acid and general acid mechanisms contribute to phosphodiester cleavage
- Supporting Information for: The Human HDV-like CPEB3 Ribozyme is Intrinsically Fast Reacting
- Supplementary Information Regulation of PKR by HCV IRES RNA: Importance of Domain II and NS5A
- SUPPORTING INFORMATION Role of Unsatisfied Hydrogen Bond Acceptors in RNA Energetics and Specificity
- Supporting Information Driving Forces for Nucleic Acid pKa Shifting in an A+
- Gong et al. Supplementary Material: Metal ion competition in the HDV ribozyme Supporting information
- SUPPORTING INFORMATION Mechanistic Characterization of the HDV Genomic Ribozyme: Solvent Isotope Effects and
- C.) Supporting Figures: S1. Efficiency of RNA dephosphorylation. In order to label the 5'-triphosphate, the
- Direct measurement of a pKa near neutrality for the catalytic cytosine in the genomic HDV
- Supporting Information: Folding Cooperativity in RNA and DNA is Dependent on
- Folding Thermodynamics and Kinetics of YNMG RNA Hairpins: Specific Incorporation of 8-bromoguanosine Leads to Stabilization by Enhancement
- Restricting the Confromational Heterogeneity of RNA by Specific Incorporation of 8-Bromoguanosine: Supporting Information
- Supporting Information for the World Wide Web Edition (M-1cm-1) UNCG
- RNA G-Quadruplexes in the model plant species Arabidopsis thaliana: prevalence and possible
- Role of Unsatisfied Hydrogen Bond Acceptors in RNA Energetics and Specificity
- pubs.acs.org/BiochemistryPublished on Web 03/25/2010r 2010 American Chemical Society Biochemistry 2010, 49, 32253236 3225
- pubs.acs.org/BiochemistryPublished on Web 11/04/2009r 2009 American Chemical Society Biochemistry 2009, 48, 1196111970 11961
- pubs.acs.org/BiochemistryPublished on Web 08/14/2009r 2009 American Chemical Society Biochemistry 2009, 48, 87878794 8787
- Contribution of the Closing Base Pair to Exceptional Stability in RNA Tetraloops
- Subscriber access provided by Penn State | University Libraries Journal of the American Chemical Society is published by the American Chemical
- Nucleoside modifications modulate activation of the protein kinase PKR in an RNA
- TRAP-59 stemloop interaction increases the efficiency of transcription termination in the Bacillus subtilis
- Wild-type is the optimal sequence of the HDV ribozyme under cotranscriptional conditions
- The Biophysics of RNA Philip C. Bevilacqua,
- Mechanistic Characterization of the HDV Genomic Ribozyme: A Mutant of the C41 Motif Provides Insight into the Positioning and Thermodynamic Linkage of
- Chemistry & Biology A Conformationally Restricted Guanosine Analog
- Folding Cooperativity in RNA and DNA Is Dependent on Position in the Helix Nathan A. Siegfried, Shana L. Metzger, and Philip C. Bevilacqua*
- Exploring the Energy Landscape of a Small RNA Hairpin Hairong Ma, David J. Proctor, Elzbieta Kierzek, Ryszard Kierzek,
- 496 BioTechniques Vol. 38, No. 3 (2005) The Bevilacqua Laboratory
- Linkage between proton binding and folding in RNA: A thermodynamic framework and its experimental
- Activation of the protein kinase PKR by short double-stranded RNAs with single-stranded tails
- Folding Thermodynamics and Kinetics of YNMG RNA Hairpins: Specific Incorporation of 8-Bromoguanosine Leads to Stabilization by Enhancement of the
- Design of a Highly Reactive HDV Ribozyme Sequence Uncovers Facilitation of RNA Folding by Alternative
- Structural and Energetic Consequences of Expanding a Highly Cooperative Stable DNA Hairpin Loop
- Catalytic Roles for Proton Transfer and Protonation in
- Folding of a Stable DNA Motif Involves a Highly Cooperative Network of Interactions
- -dependent RNA Tertiary Structure Forms in the Bacillus subtilis trp Operon Leader Transcript and
- Kinetic analysis of ribozyme cleavage
- New Concepts Mechanistic Considerations for General Acid-Base Catalysis by RNA: Revisiting
- Selection for Thermodynamically Stable DNA Tetraloops Using Temperature Gradient Gel Electrophoresis Reveals Four Motifs: d(cGNNAg), d(cGNABg),
- A Mechanistic Framework for Co-transcriptional Folding of the HDV Genomic Ribozyme in the
- Chemistry & Biology sugar, but lacked the steric bulk of a 5-membered cyclic
- The Folding Pathway of the Genomic Hepatitis Delta Virus Ribozyme is Dominated by Slow Folding of
- Proton Inventory of the Genomic HDV Ribozyme in Mg2+-Containing Solutions
- A Role for Upstream RNA Structure in Facilitating the Catalytic Fold of the Genomic Hepatitis Delta
- phatelabeled cRNA probes to GDNF, Ret, and GFR-1 were as described [Z. Kokaia et al., Eur. J. Neurosci. 11,
- Thermodynamic Analysis of an RNA Combinatorial Library Contained in a Short Joanne M. Bevilacqua and Philip C. Bevilacqua*
- Minor-Groove Recognition of Double-Stranded RNA by the Double-Stranded RNA-Binding Domain from the RNA-Activated Protein Kinase PKR
- A Mechanistic Framework for the Second Step of Splicing Catalyzed by the Tetrahymena Ribozyme
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- Regulation of PKR by HCV IRES RNA: Importance of Domain II and NS5A
- ANRV340-PC59-04 ARI 3 October 2007 15:35 Structures, Kinetics,
- Detection of Innersphere Interactions between Magnesium Hydrate and the Phosphate Backbone of the HDV Ribozyme Using Raman Crystallography
- Supporting Information Portability of the GN(R)A Hairpin Loop Motif between RNA and DNA
- Restricting the Conformational Heterogeneity of RNA by Specific Incorporation of 8-Bromoguanosine
- Nucleobase catalysis in ribozyme mechanism Philip C Bevilacqua1,2
- Available online at www.sciencedirect.com Editorial overview: exploring the vast dynamic range of RNA
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- Simple Method for Determining Nucleobase pKas by Indirect Labeling and Demonstration of a pKa of Neutrality in dsDNA
- Subscriber access provided by Penn State | University Libraries Biochemistry is published by the American Chemical Society. 1155 Sixteenth
- Straightening of bulged RNA by the double-stranded RNA-binding domain from the protein kinase PKR
- Editorial: Mechanism of Catalytic RNA Since the discovery over 20 years ago that RNA
- SUPPORTING INFORMATION Contribution of the Closing Base Pair to Exceptional Stability in RNA Tetraloops
- PKR evolution in viral defence Cell Science Reviews Vol 5 No 4
- pubs.acs.org/Biochemistry Published on Web 07/20/2010 r 2010 American Chemical Society 6508 Biochemistry 2010, 49, 65086518
- SUPPLEMENTAL INFORMATION FOR: Wild-type is the optimal sequence of the HDV ribozyme
- de Lille, UMR CNRS 8527, 1 rue du Prof. Calmette 59000 Lille, France. Internet
- Supplementary Information RNA Dimerization Promotes PKR Dimerization and Activation
- Binding of the Protein Kinase PKR to RNAs with Secondary Structure Defects: Role of the Tandem A-G Mismatch and Noncontiguous Helixes
- Molecular basis of TRAP59SL RNA interaction in the Bacillus subtilis trp operon transcription
- Direct Measurement of a pKa near Neutrality for the Catalytic Cytosine in the Genomic HDV Ribozyme Using Raman
- Chen et al. Supplementary Material: A catalytic Mg2+ ion in the HDV ribozyme
- direct proximity to the AUG initiation codon, suggesting that [1] is primed for translation
- The Pennsylvania State University The Graduate School
- A Simple Molecular Model for Thermophilic Adaptation of Functional Nucleic Acids
- 10.1261/rna.303806Access the most recent version at doi: 2006 12: 2035-2046; originally published online Oct 19, 2006;RNA
- Mechanistic Characterization of the HDV Genomic Ribozyme: Assessing the Catalytic and Structural Contributions of Divalent Metal Ions within a Multichannel
- Incorporation of pseudouridine into mRNA enhances translation by diminishing PKR activation
- The Pennsylvania State University The Graduate School
- Raman crystallography of RNA , Jui-Hui Chen b
- 2004 NaturePublishing Group RNA molecules assume a wide variety of secondary and
- C H A P T E R T H I R T E E N Thinking Inside the Box: Designing,
- Isolation and Characterization of Thermodynamically Stable and Unstable RNA Hairpins from a Triloop Combinatorial Library
- Thermodynamic Coupling of the Loop and Stem in Unusually Stable DNA Hairpins Closed by CG Base Pairs
- Mechanistic characterization of the HDV genomic ribozyme: The cleavage site base pair plays
- Supporting Information for: A Simple Molecular Model for Thermophilic Adaptation of Functional
- Insightintothefunctionalversatilityof RNA throughmodel-making withapplications
- Figure S1. Raman feature for the symmetric stretch (A1g) of magnesium
- Thermodynamic Stability of the P4-P6 Domain RNA Tertiary Structure Measured by Temperature Gradient Gel Electrophoresis
- Volume 17 Number 1 1989 Nucleic Acids Research Effects of substrate structure on the kinetics of circle opening reactions of the self-splicing
- J. Am. Chem. SOC.1993,115, 4985-4992 4985 5'-Amino Pyrene Provides a Sensitive, Nonperturbing
- Mechanistic Characterization of the HDV Genomic Ribozyme: Classifying the Catalytic and Structural Metal Ion Sites within a Multichannel Reaction
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- 466 Biochemical Society Transactions (2005) Volume 33, part 3 Linkage between proton binding and folding
- SUPPLEMENTARY MATERIAL Figure Legends
- Long-Distance Communication in the HDV Ribozyme: Insights from Molecular Dynamics and Experiments
- Supporting Information Metal Binding Motif in the Active Site of the HDV Ribozyme Binds
- RNA Dimerization Promotes PKR Dimerization and Activation
- www.sciencemag.org/cgi/content/full/318/5855/1455/DC1 Supporting Online Material for
- Phylogenetic conservation of RNA secondary and tertiary structure in the trpEDCFBA operon
- Accelerated Publications Evidence that Folding of an RNA Tetraloop Hairpin Is Less Cooperative than Its
- The Pennsylvania State University The Graduate School
- Thermodynamic Coupling of the Loop and Stem in Unusually Stable DNA Hairpins Closed by CG Base Pairs
- Continuous Monitoring of Enzyme Reactions on a Microchip: Application to Catalytic RNA
- pubs.acs.org/BiochemistryPublished on Web 06/04/2010r 2010 American Chemical Society Biochemistry 2010, 49, 53215330 5321
