Literature DB >> 15910019

Molecular dynamics integration and molecular vibrational theory. III. The infrared spectrum of water.

Matej Praprotnik1, Dusanka Janezic.   

Abstract

The new symplectic molecular dynamics (MD) integrators presented in the first paper of this series were applied to perform MD simulations of water. The physical properties of a system of flexible TIP3P water molecules computed by the new integrators, such as diffusion coefficients, orientation correlation times, and infrared (IR) spectra, are in good agreement with results obtained by the standard method. The comparison between the new integrators' and the standard method's integration time step sizes indicates that the resulting algorithm allows a 3.0 fs long integration time step as opposed to the standard leap-frog Verlet method, a sixfold simulation speed-up. The accuracy of the method was confirmed, in particular, by computing the IR spectrum of water in which no blueshifting of the stretching normal mode frequencies is observed as occurs with the standard method.

Entities:  

Year:  2005        PMID: 15910019     DOI: 10.1063/1.1884609

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  8 in total

1.  Strength of a bifurcated H bond.

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Journal:  Proc Natl Acad Sci U S A       Date:  2014-03-03       Impact factor: 11.205

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Journal:  J Chem Inf Model       Date:  2012-09-28       Impact factor: 4.956

3.  Effect of membrane tension on the physical properties of DOPC lipid bilayer membrane.

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Journal:  Biochim Biophys Acta       Date:  2012-05-12

4.  Nucleation of Helium in Liquid Lithium at 843 K and High Pressures.

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Journal:  Materials (Basel)       Date:  2022-04-13       Impact factor: 3.748

5.  Adaptive Resolution Simulation of Supramolecular Water: The Concurrent Making, Breaking, and Remaking of Water Bundles.

Authors:  Julija Zavadlav; Siewert J Marrink; Matej Praprotnik
Journal:  J Chem Theory Comput       Date:  2016-07-25       Impact factor: 6.006

6.  Binding and dynamics of melatonin at the interface of phosphatidylcholine-cholesterol membranes.

Authors:  Huixia Lu; Jordi Martí
Journal:  PLoS One       Date:  2019-11-07       Impact factor: 3.240

7.  Physicochemical Changes in Bone Bioapatite During the Late Postmortem Interval Pre- and Post-Burning.

Authors:  Emese I Végh; Nicholas Márquez-Grant; Rick J Schulting
Journal:  Appl Spectrosc       Date:  2022-06-17       Impact factor: 3.588

8.  Dielectric dispersion characteristics of the phospholipid bilayer with subnanometer resolution from terahertz to mid-infrared.

Authors:  Ziyi Zhang; Yangmei Li; Zuoxian Xiang; Yindong Huang; Ruixing Wang; Chao Chang
Journal:  Front Bioeng Biotechnol       Date:  2022-08-31
  8 in total

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