Asymmetric Periodic Boundary Conditions for All-Atom Molecular Dynamics and Coarse-Grained Simulations of Nucleic Acids-Reference-Cited by-同舟云学术

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Asymmetric Periodic Boundary Conditions for All-Atom Molecular Dynamics and Coarse-Grained Simulations of Nucleic Acids

Published:2023-09-15 Issue:38 Volume:127 Page:8257-8267
ISSN:1520-6106
Container-title:The Journal of Physical Chemistry B
language:en
Short-container-title:J. Phys. Chem. B

Author:

Erban Radek¹^ORCID,Togashi Yuichi²³^ORCID

Affiliation:

1. Mathematical Institute, University of Oxford, Radcliffe Observatory Quarter, Woodstock Road, Oxford OX2 6GG, U.K.

2. Department of Bioinformatics, College of Life Sciences, Ritsumeikan University, 1-1-1 Noji-higashi, Kusatsu, Shiga 525-8577, Japan

3. RIKEN Center for Biosystems Dynamics Research, 2-2-3 Minatojima-Minamimachi, Chuo-ku, Kobe, Hyogo 650-0047, Japan

Funder

Engineering and Physical Sciences Research Council

Japan Society for the Promotion of Science

Publisher

American Chemical Society (ACS)

Subject

Materials Chemistry,Surfaces, Coatings and Films,Physical and Theoretical Chemistry

Link

https://pubs.acs.org/doi/pdf/10.1021/acs.jpcb.3c03887

Reference45 articles.

1. Biophysics of DNA

2. Counting the ions surrounding nucleic acids

3. Insight into nucleic acid counterion interactions from inside molecular dynamics simulations is “worth its salt”

4. DNA and its counterions: a molecular dynamics study

5. Adaptive Resolution Simulation of a DNA Molecule in Salt Solution

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