Literature DB >> 16821947

A comparison of united atom, explicit atom, and coarse-grained simulation models for poly(ethylene oxide).

Chunxia Chen1, Praveen Depa, Victoria García Sakai, Janna K Maranas, Jeffrey W Lynn, Inmaculada Peral, John R D Copley.   

Abstract

We compare static and dynamic properties obtained from three levels of modeling for molecular dynamics simulation of poly(ethylene oxide) (PEO). Neutron scattering data are used as a test of each model's accuracy. The three simulation models are an explicit atom (EA) model (all the hydrogens are taken into account explicitly), a united atom (UA) model (CH(2) and CH(3) groups are considered as a single unit), and a coarse-grained (CG) model (six united atoms are taken as one bead). All three models accurately describe the PEO static structure factor as measured by neutron diffraction. Dynamics are assessed by comparison to neutron time of flight data, which follow self-motion of protons. Hydrogen atom motion from the EA model and carbon/oxygen atom motion from the UA model closely follow the experimental hydrogen motion, while hydrogen atoms reinserted in the UA model are too fast. The EA and UA models provide a good description of the orientation properties of C-H vectors measured by nuclear magnetic resonance experiments. Although dynamic observables in the CG model are in excellent agreement with their united atom counterparts, they cannot be compared to neutron data because the time after which the CG model is valid is greater than the neutron decay times.

Entities:  

Year:  2006        PMID: 16821947     DOI: 10.1063/1.2204035

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


  4 in total

1.  Effectiveness of coarse graining degree and speedup on the dynamic properties of homopolymer.

Authors:  Lijuan Liao; Changyu Meng; Chenguang Huang
Journal:  J Mol Model       Date:  2021-01-28       Impact factor: 1.810

2.  Onset of static and dynamic universality among molecular models of polymers.

Authors:  Kazuaki Z Takahashi; Ryuto Nishimura; Nobuyoshi Yamato; Kenji Yasuoka; Yuichi Masubuchi
Journal:  Sci Rep       Date:  2017-09-28       Impact factor: 4.379

3.  Entropy Production beyond the Thermodynamic Limit from Single-Molecule Stretching Simulations.

Authors:  Eivind Bering; Signe Kjelstrup; Dick Bedeaux; J Miguel Rubi; Astrid S de Wijn
Journal:  J Phys Chem B       Date:  2020-09-25       Impact factor: 2.991

Review 4.  "Dividing and Conquering" and "Caching" in Molecular Modeling.

Authors:  Xiaoyong Cao; Pu Tian
Journal:  Int J Mol Sci       Date:  2021-05-10       Impact factor: 5.923

  4 in total

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