Literature DB >> 16471886

Development of an empirical force field for silica. Application to the quartz-water interface.

Pedro E M Lopes1, Vladimir Murashov, Mouhsine Tazi, Eugene Demchuk, Alexander D Mackerell.   

Abstract

Interactions of pulverized crystalline silica with biological systems, including the lungs, cause cell damage, inflammation, and apoptosis. To allow computational atomistic modeling of these pathogenic processes, including interactions between silica surfaces and biological molecules, new parameters for quartz, compatible with the CHARMM empirical force field were developed. Parameters were optimized to reproduce the experimental geometry of alpha-quartz, ab initio vibrational spectra, and interactions between model compounds and water. The newly developed force field was used to study interactions of water with two singular surfaces of alpha-quartz, (011) and (100). Properties monitored and analyzed include the variation of the density of water molecules in the plane perpendicular to the surface, disruption of the water H-bond network upon adsorption, and space-time correlations of water oxygen atoms in terms of Van Hove self-correlation functions. The vibrational density of states spectra of water in confined compartments were also computed and compared with experimental neutron-scattering results. Both the attenuation and shifting to higher frequencies of the hindered translational peaks upon confinement are clearly reproduced by the model. However, an upshift of librational peaks under the conditions of model confinement still remains underrepresented at the current empirical level.

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Year:  2006        PMID: 16471886      PMCID: PMC2531191          DOI: 10.1021/jp055341j

Source DB:  PubMed          Journal:  J Phys Chem B        ISSN: 1520-5207            Impact factor:   2.991


  20 in total

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Journal:  Inhal Toxicol       Date:  2000-08       Impact factor: 2.724

10.  Silica, Some Silicates, Coal Dust and Para-Aramid Fibrils.

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  12 in total

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Journal:  ACS Nano       Date:  2019-01-10       Impact factor: 15.881

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4.  Water Confined in Cylindrical Pores: A Molecular Dynamics Study.

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Authors:  Xiao Zhu; Pedro E M Lopes; Alexander D Mackerell
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8.  CHARMM-GUI Nanomaterial Modeler for Modeling and Simulation of Nanomaterial Systems.

Authors:  Yeol Kyo Choi; Nathan R Kern; Seonghan Kim; Krishan Kanhaiya; Yaser Afshar; Sun Hee Jeon; Sunhwan Jo; Bernard R Brooks; Jumin Lee; Ellad B Tadmor; Hendrik Heinz; Wonpil Im
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9.  How Properties of Solid Surfaces Modulate the Nucleation of Gas Hydrate.

Authors:  Dongsheng Bai; Guangjin Chen; Xianren Zhang; Amadeu K Sum; Wenchuan Wang
Journal:  Sci Rep       Date:  2015-07-31       Impact factor: 4.379

10.  Scaling behaviour for the water transport in nanoconfined geometries.

Authors:  Eliodoro Chiavazzo; Matteo Fasano; Pietro Asinari; Paolo Decuzzi
Journal:  Nat Commun       Date:  2014-04-03       Impact factor: 14.919

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