4.8 Article

Free-energy landscape of a hyperstable RNA tetraloop

Related references

Note: Only part of the references are listed.
Article Biochemistry & Molecular Biology

Highly sampled tetranucleotide and tetraloop motifs enable evaluation of common RNA force fields

Christina Bergonzo et al.

Article Chemistry, Physical

Computer Folding of RNA Tetraloops? Are We There Yet?

Petra Kuehrova et al.

JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2013)

Article Multidisciplinary Sciences

High-resolution reversible folding of hyperstable RNA tetraloops using molecular dynamics simulations

Alan A. Chen et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)

Article Multidisciplinary Sciences

Protein folded states are kinetic hubs

Gregory R. Bowman et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2010)

Article Chemistry, Physical

Free-Energy Landscape of RNA Hairpins Constructed via Dihedral Angle Principal Component Analysis

Laura Riccardi et al.

JOURNAL OF PHYSICAL CHEMISTRY B (2009)

Article Biochemistry & Molecular Biology

Classification and energetics of the base-phosphate interactions in RNA

Craig L. Zirbel et al.

NUCLEIC ACIDS RESEARCH (2009)

Review Chemistry, Physical

Structures, kinetics, thermodynamics, and biological functions of RNA hairpins

Philip C. Bevilacqua et al.

ANNUAL REVIEW OF PHYSICAL CHEMISTRY (2008)

Article Chemistry, Physical

GROMACS 4: Algorithms for highly efficient, load-balanced, and scalable molecular simulation

Berk Hess et al.

JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2008)

Article Chemistry, Multidisciplinary

Structural insight into RNA hairpin folding intermediates

Gregory R. Bowman et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2008)

Article Chemistry, Multidisciplinary

Multiple probes are required to explore and control the rugged energy landscape of RNA hairpins

Changbong Hyeon et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2008)

Article Chemistry, Multidisciplinary

Extensive Backbone Dynamics in the GCAA RNA Tetraloop Analyzed Using 13C NMR Spin Relaxation and Specific Isotope Labeling

James E. Johnson et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2008)

Article Chemistry, Multidisciplinary

Simulation of the pressure and temperature folding/unfolding equilibrium of a small RNA hairpin

Angel E. Garcia et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2008)

Article Chemistry, Physical

Parameters of monovalent ions in the AMBER-99 forcefield: Assessment of inaccuracies and proposed improvements

Alan A. Chen et al.

JOURNAL OF PHYSICAL CHEMISTRY B (2007)

Article Chemistry, Physical

Dihedral angle principal component analysis of molecular dynamics simulations

Alexandros Altis et al.

JOURNAL OF CHEMICAL PHYSICS (2007)

Article Chemistry, Multidisciplinary

Direct revelation of multiple conformations in RNA by femtosecond dynamics

Liang Zhao et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2007)

Article Biochemistry & Molecular Biology

A left-handed RNA double helix bound by the Zα domain of the RNA-editing enzyme ADAR1

Diana Placido et al.

STRUCTURE (2007)

Article Biophysics

Mechanical unfolding of RNA: From hairpins to structures with internal multiloops

Changbong Hyeon et al.

BIOPHYSICAL JOURNAL (2007)

Article Multidisciplinary Sciences

DNA folding and melting observed in real time redefine the energy landscape

Hairong Ma et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2007)

Article Chemistry, Physical

Canonical sampling through velocity rescaling

Giovanni Bussi et al.

JOURNAL OF CHEMICAL PHYSICS (2007)

Article Chemistry, Multidisciplinary

Exploring the energy landscape of a small RNA hairpin

HR Ma et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2006)

Article Multidisciplinary Sciences

Mechanical unfolding of RNA hairpins

C Hyeon et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2005)

Article Chemistry, Multidisciplinary

Energetics of nucleic acid stability:: The effect of ΔCP

A Tikhomirova et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2004)

Article Biochemistry & Molecular Biology

High salt solution structure of a left-handed RNA double helix

M Popenda et al.

NUCLEIC ACIDS RESEARCH (2004)

Article Biochemistry & Molecular Biology

Mfold web server for nucleic acid folding and hybridization prediction

M Zuker

NUCLEIC ACIDS RESEARCH (2003)

Review Genetics & Heredity

Z-DNA: the long road to biological function

A Rich et al.

NATURE REVIEWS GENETICS (2003)

Article Biochemistry & Molecular Biology

RNA simulations: Probing hairpin unfolding and the dynamics of a GNRA tetraloop

EJ Sorin et al.

JOURNAL OF MOLECULAR BIOLOGY (2002)

Article Biochemistry & Molecular Biology

Crystal structures of restrictocin-inhibitor complexes with implications for RNA recognition and base flipping

XJ Yang et al.

NATURE STRUCTURAL BIOLOGY (2001)

Article Chemistry, Multidisciplinary

On the stability of double stranded nucleic acids

DN Dubins et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2001)

Article Biochemistry & Molecular Biology

Dynamics of the RNA hairpin GNRA tetraloop

M Menger et al.

BIOCHEMISTRY (2000)