Do conformational biases of simple helical junctions influence RNA folding stability and specificity?
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MD Simulations of tRNA and Aminoacyl-tRNA Synthetases: Dynamics, Folding, Binding, and AllosteryUnderstanding nucleic acid-ion interactionsInsights into domain-domain motions in proteins and RNA from solution NMRUnveiling Inherent Degeneracies in Determining Population-Weighted Ensembles of Interdomain Orientational Distributions Using NMR Residual Dipolar Couplings: Application to RNA Helix Junction Helix Motifs.Crystal structure of group II intron domain 1 reveals a template for RNA assemblyDetermining RNA three-dimensional structures using low-resolution data.Hierarchy of RNA functional dynamics.Dissecting electrostatic screening, specific ion binding, and ligand binding in an energetic model for glycine riboswitch folding.Topological constraints are major determinants of tRNA tertiary structure and dynamics and provide basis for tertiary folding cooperativity.Clustering to identify RNA conformations constrained by secondary structureRemoval of covalent heterogeneity reveals simple folding behavior for P4-P6 RNA.Dynamic motions of the HIV-1 frameshift site RNA.Noncanonical secondary structure stabilizes mitochondrial tRNA(Ser(UCN)) by reducing the entropic cost of tertiary folding.From static to dynamic: the need for structural ensembles and a predictive model of RNA folding and functionNew insights into the fundamental role of topological constraints as a determinant of two-way junction conformationSlowdown of Interhelical Motions Induces a Glass Transition in RNAEntropic origin of Mg2+-facilitated RNA folding.Topological constraints: using RNA secondary structure to model 3D conformation, folding pathways, and dynamic adaptation.RNA dynamics by design: biasing ensembles towards the ligand-bound state.Functional complexity and regulation through RNA dynamicsIon-mediated RNA structural collapse: effect of spatial confinement.Tuning RNA Flexibility with Helix Length and Junction Sequence.Secondary structure encodes a cooperative tertiary folding funnel in the Azoarcus ribozyme.Probing the kinetic and thermodynamic consequences of the tetraloop/tetraloop receptor monovalent ion-binding site in P4-P6 RNA by smFRET.Advances in the determination of nucleic acid conformational ensemblesRole of ion valence in the submillisecond collapse and folding of a small RNA domain.Kinetic and thermodynamic framework for P4-P6 RNA reveals tertiary motif modularity and modulation of the folding preferred pathway.Coarse grained models reveal essential contributions of topological constraints to the conformational free energy of RNA bulges.NMR studies of nucleic acid dynamicsThe functional exchangeability of pk- and k-turns in RNA structure.Many-body effect in ion binding to RNA.Salt dependence of the radius of gyration and flexibility of single-stranded DNA in solution probed by small-angle x-ray scattering.Resolving sugar puckers in RNA excited states exposes slow modes of repuckering dynamics.Quantitative tests of a reconstitution model for RNA folding thermodynamics and kinetics.Tuning RNA folding and function through rational design of junction topology.Structure modeling of RNA using sparse NMR constraints.Characterizing the bending and flexibility induced by bulges in DNA duplexes.
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Do conformational biases of simple helical junctions influence RNA folding stability and specificity?
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article científic
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article scientifique
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articolo scientifico
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artigo científico
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bilimsel makale
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scientific article published on 22 October 2009
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vedecký článok
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vetenskaplig artikel
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videnskabelig artikel
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vědecký článek
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name
Do conformational biases of si ...... ing stability and specificity?
@en
Do conformational biases of si ...... ing stability and specificity?
@nl
type
label
Do conformational biases of si ...... ing stability and specificity?
@en
Do conformational biases of si ...... ing stability and specificity?
@nl
prefLabel
Do conformational biases of si ...... ing stability and specificity?
@en
Do conformational biases of si ...... ing stability and specificity?
@nl
P2093
P2860
P356
P1433
P1476
Do conformational biases of si ...... ing stability and specificity?
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P2093
Daniel Herschlag
Vijay S Pande
Vincent B Chu
P2860
P304
P356
10.1261/RNA.1747509
P407
P577
2009-10-22T00:00:00Z