Hierarchy of RNA functional dynamics
RNA dynamics play a fundamental role in many cellular functions. However, there is no
general framework to describe these complex processes, which typically consist of many …
general framework to describe these complex processes, which typically consist of many …
Alternative roles for metal ions in enzyme catalysis and the implications for ribozyme chemistry
RKO Sigel, AM Pyle - Chemical reviews, 2007 - ACS Publications
Ribozymes can catalyze a large variety of different reactions, but very few mechanistic
aspects are understood in detail. 1-9 It is evident that RNAs are always associated with …
aspects are understood in detail. 1-9 It is evident that RNAs are always associated with …
Characterizing RNA dynamics at atomic resolution using solution-state NMR spectroscopy
Many recently discovered noncoding RNAs do not fold into a single native conformation but
sample many different conformations along their free-energy landscape to carry out their …
sample many different conformations along their free-energy landscape to carry out their …
Constant pH molecular dynamics of proteins in explicit solvent with proton tautomerism
ABSTRACT pH is a ubiquitous regulator of biological activity, including protein‐folding,
protein‐protein interactions, and enzymatic activity. Existing constant pH molecular …
protein‐protein interactions, and enzymatic activity. Existing constant pH molecular …
snRNAs as the catalysts of pre-mRNA splicing
S Valadkhan - Current opinion in chemical biology, 2005 - Elsevier
The spliceosome, the gigantic molecular machine that performs pre-mRNA splicing in
eukaryotes, contains over 200 different proteins and five RNA molecules. The central role …
eukaryotes, contains over 200 different proteins and five RNA molecules. The central role …
Calculation of pKas in RNA: on the structural origins and functional roles of protonated nucleotides
pKa calculations based on the Poisson–Boltzmann equation have been widely used to
study proteins and, more recently, DNA. However, much less attention has been paid to the …
study proteins and, more recently, DNA. However, much less attention has been paid to the …
NMR methods for studying the structure and dynamics of RNA
MP Latham, DJ Brown, SA McCallum, A Pardi - Chembiochem, 2005 - Wiley Online Library
Proper functioning of RNAs requires the formation of complex three‐dimensional structures
combined with the ability to rapidly interconvert between multiple functional states. This …
combined with the ability to rapidly interconvert between multiple functional states. This …
Visualizing group II intron dynamics between the first and second steps of splicing
Group II introns are ubiquitous self-splicing ribozymes and retrotransposable elements
evolutionarily and chemically related to the eukaryotic spliceosome, with potential …
evolutionarily and chemically related to the eukaryotic spliceosome, with potential …
Time‐resolved NMR studies of RNA folding
B Fürtig, J Buck, V Manoharan… - Biopolymers …, 2007 - Wiley Online Library
The application of real‐time NMR experiments to the study of RNA folding, as reviewed in
this article, is relatively new. For many RNA folding events, current investigations suggest …
this article, is relatively new. For many RNA folding events, current investigations suggest …
Review NMR studies of RNA dynamics and structural plasticity using NMR residual dipolar couplings
M Getz, X Sun, A Casiano‐Negroni… - Biopolymers …, 2007 - Wiley Online Library
An increasing number of RNAs are being discovered that perform their functions by
undergoing large changes in conformation in response to a variety of cellular signals …
undergoing large changes in conformation in response to a variety of cellular signals …