A method of determining RNA conformational ensembles using structure-based calculations of residual dipolar couplings (Q43413780)

23 November 2017

title

A method of determining RNA conformational ensembles using structure-based calculations of residual dipolar couplings (English)

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23 November 2017

4

Michele Vendruscolo

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23 November 2017

Aditi Narendra Borkar

object named as

Aditi N Borkar

series ordinal

1

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author name string

Alfonso De Simone

series ordinal

2

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23 November 2017

Rinaldo W Montalvao

series ordinal

3

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23 November 2017

language of work or name

English

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publication date

1 June 2013

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Journal of Chemical Physics

23 November 2017

published in

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23 November 2017

volume

138

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23 November 2017

issue

21

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23 November 2017

page(s)

215103

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NMR reveals novel mechanisms of protein activity regulation

23 November 2017

cites work

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New tools provide new insights in NMR studies of protein dynamics

21 January 2018

1 reference

Determination of metal ion binding sites within the hairpin ribozyme domains by NMR.

21 January 2018

1 reference

Structural basis for recognition of the intron branch site RNA by splicing factor 1

21 January 2018

1 reference

Structure determination and dynamics of protein-RNA complexes by NMR spectroscopy

21 January 2018

1 reference

21 January 2018

NMR spectroscopy of RNA.

1 reference

NMR methods for studying the structure and dynamics of RNA.

21 January 2018

1 reference

Determination of protein structures consistent with NMR order parameters

21 January 2018

1 reference

How much backbone motion in ubiquitin is required to account for dipolar coupling data measured in multiple alignment media as assessed by independent cross-validation?

21 January 2018

1 reference

Simultaneous determination of protein structure and dynamics.

21 January 2018

1 reference

Characterizing RNA dynamics at atomic resolution using solution-state NMR spectroscopy

21 January 2018

1 reference

Constructing RNA dynamical ensembles by combining MD and motionally decoupled NMR RDCs: new insights into RNA dynamics and adaptive ligand recognition

21 January 2018

1 reference

Time-resolved NMR studies of RNA folding

21 January 2018

1 reference

NMR studies of RNA dynamics and structural plasticity using NMR residual dipolar couplings.

21 January 2018

1 reference

The MUMO (minimal under-restraining minimal over-restraining) method for the determination of native state ensembles of proteins

21 January 2018

1 reference

NMR studies of dynamics in RNA and DNA by 13C relaxation

21 January 2018

1 reference

Recognition dynamics up to microseconds revealed from an RDC-derived ubiquitin ensemble in solution

21 January 2018

1 reference

Toward a unified representation of protein structural dynamics in solution.

21 January 2018

1 reference

Spatial elucidation of motion in proteins by ensemble-based structure calculation using exact NOEs

21 January 2018

1 reference

Characterization of the conformational equilibrium between the two major substates of RNase A using NMR chemical shifts

21 January 2018

1 reference

Atomic-level characterization of disordered protein ensembles

21 January 2018

1 reference

Determination of conformationally heterogeneous states of proteins

21 January 2018

1 reference

Nuclear magnetic dipole interactions in field-oriented proteins: information for structure determination in solution

21 January 2018

1 reference

Direct measurement of distances and angles in biomolecules by NMR in a dilute liquid crystalline medium

21 January 2018

1 reference

Simultaneous determination of protein backbone structure and dynamics from residual dipolar couplings.

21 January 2018

1 reference

Ensemble calculations of unstructured proteins constrained by RDC and PRE data: a case study of urea-denatured ubiquitin

21 January 2018

1 reference

Constructing atomic-resolution RNA structural ensembles using MD and motionally decoupled NMR RDCs.

21 January 2018

1 reference

On the Use of Experimental Observations to Bias Simulated Ensembles

21 January 2018

1 reference

On the statistical equivalence of restrained-ensemble simulations with the maximum entropy method

21 January 2018

1 reference

Determination of Conformational Equilibria in Proteins Using Residual Dipolar Couplings

21 January 2018

1 reference

Determination of structural fluctuations of proteins from structure-based calculations of residual dipolar couplings

21 January 2018

1 reference

Structure of HIV-1 TAR RNA in the absence of ligands reveals a novel conformation of the trinucleotide bulge

21 January 2018

1 reference

A Small-Molecule Probe Induces a Conformation in HIV TAR RNA Capable of Binding Drug-Like Fragments

21 January 2018

1 reference

Rational design of inhibitors of HIV-1 TAR RNA through the stabilisation of electrostatic "hot spots"

21 January 2018

1 reference

A 1.3-A resolution crystal structure of the HIV-1 trans-activation response region RNA stem reveals a metal ion-dependent bulge conformation

21 January 2018

1 reference

Structure-based drug design targeting an inactive RNA conformation: exploiting the flexibility of HIV-1 TAR RNA.

21 January 2018

1 reference

Physical interpretation of residual dipolar couplings in neutral aligned media

21 January 2018

1 reference

Tracking alignment from the moment of inertia tensor (TRAMITE) of biomolecules in neutral dilute liquid crystal solutions

21 January 2018

1 reference

Improvement and analysis of computational methods for prediction of residual dipolar couplings

21 January 2018

1 reference

An analytical solution to the problem of the orientation of rigid particles by planar obstacles. Application to membrane systems and to the calculation of dipolar couplings in protein NMR spectroscopy.

21 January 2018

1 reference

NMR: prediction of molecular alignment from structure using the PALES software

21 January 2018

1 reference

GROMACS 4: Algorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation

21 January 2018

1 reference

GROMACS: fast, flexible, and free

21 January 2018

1 reference

Comparison of simple potential functions for simulating liquid water

21 January 2018

1 reference

Development and current status of the CHARMM force field for nucleic acids.

21 January 2018

1 reference

Empirical force fields for biological macromolecules: overview and issues.

21 January 2018

1 reference

The Amber biomolecular simulation programs

21 January 2018

1 reference

Comparison of multiple Amber force fields and development of improved protein backbone parameters

21 January 2018

1 reference

Refinement of the AMBER force field for nucleic acids: improving the description of alpha/gamma conformers

21 January 2018

1 reference

Exploring the helix-coil transition via all-atom equilibrium ensemble simulations

21 January 2018

1 reference

Definitions and nomenclature of nucleic acid structure components

21 January 2018

1 reference

3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures

21 January 2018

1 reference

3DNA: a versatile, integrated software system for the analysis, rebuilding and visualization of three-dimensional nucleic-acid structures

21 January 2018

1 reference

Bicelle-based liquid crystals for NMR-measurement of dipolar couplings at acidic and basic pH values

21 January 2018

1 reference

Validation of Protein Structure from Anisotropic Carbonyl Chemical Shifts in a Dilute Liquid Crystalline Phase

21 January 2018

1 reference

Performance of Molecular Mechanics Force Fields for RNA Simulations: Stability of UUCG and GNRA Hairpins

21 January 2018

1 reference

Visualizing spatially correlated dynamics that directs RNA conformational transitions

21 January 2018

1 reference

21 January 2018

Identifiers

DOI

10.1063/1.4804301

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23 November 2017

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