Conformational ensembles of RNA oligonucleotides from integrating NMR and molecular simulations
出版年份 2018 全文链接
标题
Conformational ensembles of RNA oligonucleotides from integrating NMR and molecular simulations
作者
关键词
-
出版物
Science Advances
Volume 4, Issue 5, Pages eaar8521
出版商
American Association for the Advancement of Science (AAAS)
发表日期
2018-05-19
DOI
10.1126/sciadv.aar8521
参考文献
相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。- RNA Structural Dynamics As Captured by Molecular Simulations: A Comprehensive Overview
- (2018) Jiří Šponer et al. CHEMICAL REVIEWS
- Predicting RNA Structures via a Simple van der Waals Correction to an All-Atom Force Field
- (2017) Changwon Yang et al. Journal of Chemical Theory and Computation
- Combining Simulations and Solution Experiments as a Paradigm for RNA Force Field Refinement
- (2016) Andrea Cesari et al. Journal of Chemical Theory and Computation
- Empirical Corrections to the Amber RNA Force Field with Target Metadynamics
- (2016) Alejandro Gil-Ley et al. Journal of Chemical Theory and Computation
- Free Energy Landscape of GAGA and UUCG RNA Tetraloops
- (2016) Sandro Bottaro et al. Journal of Physical Chemistry Letters
- RNA folding pathways in stop motion
- (2016) Sandro Bottaro et al. NUCLEIC ACIDS RESEARCH
- Structure of a low-population binding intermediate in protein-RNA recognition
- (2016) Aditi N. Borkar et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- The Dynamic Basis for Signal Propagation in Human Pin1-WW
- (2016) Simon Olsson et al. STRUCTURE
- Metainference: A Bayesian inference method for heterogeneous systems
- (2016) M. Bonomi et al. Science Advances
- Bayesian ensemble refinement by replica simulations and reweighting
- (2015) Gerhard Hummer et al. JOURNAL OF CHEMICAL PHYSICS
- Improved Force Field Parameters Lead to a Better Description of RNA Structure
- (2015) Christina Bergonzo et al. Journal of Chemical Theory and Computation
- Stacking in RNA: NMR of Four Tetramers Benchmark Molecular Dynamics
- (2015) David E. Condon et al. Journal of Chemical Theory and Computation
- Highly sampled tetranucleotide and tetraloop motifs enable evaluation of common RNA force fields
- (2015) Christina Bergonzo et al. RNA
- Uncertainty in integrative structural modeling
- (2014) Dina Schneidman-Duhovny et al. CURRENT OPINION IN STRUCTURAL BIOLOGY
- Accurate Multiple Time Step in Biased Molecular Simulations
- (2014) Marco Jacopo Ferrarotti et al. Journal of Chemical Theory and Computation
- Efficient and Minimal Method to Bias Molecular Simulations with Experimental Data
- (2014) Andrew D. White et al. Journal of Chemical Theory and Computation
- Building Water Models: A Different Approach
- (2014) Saeed Izadi et al. Journal of Physical Chemistry Letters
- Structure determination of noncanonical RNA motifs guided by 1H NMR chemical shifts
- (2014) Parin Sripakdeevong et al. NATURE METHODS
- The role of nucleobase interactions in RNA structure and dynamics
- (2014) Sandro Bottaro et al. NUCLEIC ACIDS RESEARCH
- Combining Experiments and Simulations Using the Maximum Entropy Principle
- (2014) Wouter Boomsma et al. PLoS Computational Biology
- The Nuclear Magnetic Resonance of CCCC RNA Reveals a Right-Handed Helix, and Revised Parameters for AMBER Force Field Torsions Improve Structural Predictions from Molecular Dynamics
- (2013) Jason D. Tubbs et al. BIOCHEMISTRY
- GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit
- (2013) Sander Pronk et al. BIOINFORMATICS
- Multidimensional Replica Exchange Molecular Dynamics Yields a Converged Ensemble of an RNA Tetranucleotide
- (2013) Christina Bergonzo et al. Journal of Chemical Theory and Computation
- On the Use of Experimental Observations to Bias Simulated Ensembles
- (2012) Jed W. Pitera et al. Journal of Chemical Theory and Computation
- Revised AMBER Parameters for Bioorganic Phosphates
- (2012) T. Steinbrecher et al. Journal of Chemical Theory and Computation
- Refinement of the Cornell et al. Nucleic Acids Force Field Based on Reference Quantum Chemical Calculations of Glycosidic Torsion Profiles
- (2011) Marie Zgarbová et al. Journal of Chemical Theory and Computation
- Benchmarking AMBER Force Fields for RNA: Comparisons to NMR Spectra for Single-Stranded r(GACC) Are Improved by Revised χ Torsions
- (2011) Ilyas Yildirim et al. JOURNAL OF PHYSICAL CHEMISTRY B
- SAXS Ensemble Refinement of ESCRT-III CHMP3 Conformational Transitions
- (2011) Bartosz Różycki et al. STRUCTURE
- High-resolution NMR structure of an RNA model system: the 14-mer cUUCGg tetraloop hairpin RNA
- (2009) Senada Nozinovic et al. NUCLEIC ACIDS RESEARCH
- Determination of Alkali and Halide Monovalent Ion Parameters for Use in Explicitly Solvated Biomolecular Simulations
- (2008) In Suk Joung et al. JOURNAL OF PHYSICAL CHEMISTRY B
Publish scientific posters with Peeref
Peeref publishes scientific posters from all research disciplines. Our Diamond Open Access policy means free access to content and no publication fees for authors.
Learn MoreAdd your recorded webinar
Do you already have a recorded webinar? Grow your audience and get more views by easily listing your recording on Peeref.
Upload Now