Revised RNA Dihedral Parameters for the Amber Force Field Improve RNA Molecular Dynamics-Reference-Cited by-同舟云学术

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Revised RNA Dihedral Parameters for the Amber Force Field Improve RNA Molecular Dynamics

Published:2017-01-24 Issue:2 Volume:13 Page:900-915
ISSN:1549-9618
Container-title:Journal of Chemical Theory and Computation
language:en
Short-container-title:J. Chem. Theory Comput.

Author:

Aytenfisu Asaminew H.¹²,Spasic Aleksandar¹²,Grossfield Alan¹,Stern Harry A.³,Mathews David H.¹²⁴^ORCID

Affiliation:

1. Department of Biochemistry & Biophysics, University of Rochester Medical Center, Rochester, New York 14642, United States

2. Center for RNA Biology, University of Rochester Medical Center, Rochester, New York 14642, United States

3. Center for Integrated Research Computing, University of Rochester, Rochester, New York 14642, United States

4. Department of Biostatistics & Computational Biology, University of Rochester Medical Center, Rochester, New York 14642, United States

Funder

National Institute of General Medical Sciences

Publisher

American Chemical Society (ACS)

Subject

Physical and Theoretical Chemistry,Computer Science Applications

Link

http://pubs.acs.org/doi/pdf/10.1021/acs.jctc.6b00870

Reference82 articles.

1. Molecular Dynamics Simulations of the 136 Unique Tetranucleotide Sequences of DNA Oligonucleotides. II: Sequence Context Effects on the Dynamical Structures of the 10 Unique Dinucleotide Steps

2. Molecular Dynamics Simulations of the 136 Unique Tetranucleotide Sequences of DNA Oligonucleotides. I. Research Design and Results on d(CpG) Steps

3. Stacking in RNA: NMR of Four Tetramers Benchmark Molecular Dynamics

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

5. 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

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