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Title: Quantum Calculations on Plant Cell Wall Component Interactions

Abstract

In this paper, density functional theory calculations were performed to assess the relative interaction energies of plant cell wall components: cellulose, xylan, lignin and pectin. Monomeric and tetramer linear molecules were allowed to interact in four different configurations for each pair of compounds. The M05-2X exchange-correlation functional which implicitly accounts for short- and mid-range dispersion was compared against MP2 and RI-MP2 to assess the reliability of the former for modeling van der Waals forces between these PCW components. Solvation effects were examined by modeling the interactions in the gas phase, in explicit H2O, and in polarized continuum models (PCM) of solvation. PCMs were used to represent water, methanol, and chloroform. The results predict the relative ranges of each type of interaction and when specific configurations will be strongly preferred. Finally, structures and energies are useful as a basis for testing classical force fields and as guidance for coarse-grained models of PCWs.

Authors:
 [1];  [2];  [3];  [3];  [4];  [1];  [2]
+ Show Author Affiliations
  1. Pennsylvania State Univ., University Park, PA (United States). Dept. of Biology
  2. Univ. of Texas, El Paso, TX (United States). Dept. of Geological Sciences
  3. Pennsylvania State Univ., University Park, PA (United States). Dept. of Geological Sciences
  4. Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States). Center for Molecular Biophysics
Publication Date:
Research Org.:
Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States); Pennsylvania State Univ., University Park, PA (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Basic Energy Sciences (BES)
OSTI Identifier:
1474698
Grant/Contract Number:  
AC05-00OR22725; SC0001090
Resource Type:
Accepted Manuscript
Journal Name:
Interdisciplinary Sciences: Computational Life Sciences
Additional Journal Information:
Journal Volume: 11; Journal Issue: 3; Journal ID: ISSN 1913-2751
Publisher:
Springer
Country of Publication:
United States
Language:
English
Subject:
97 MATHEMATICS AND COMPUTING; 59 BASIC BIOLOGICAL SCIENCES; interaction energies; quantum chemistry; cellulose; xylan; lignin; pectin

Citation Formats

Yang, Hui, Watts, Heath D., Gibilterra, Virgil, Weiss, T. Blake, Petridis, Loukas, Cosgrove, Daniel J., and Kubicki, James D. Quantum Calculations on Plant Cell Wall Component Interactions. United States: N. p., 2018. Web. doi:10.1007/s12539-018-0293-4.
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Yang, Hui, Watts, Heath D., Gibilterra, Virgil, Weiss, T. Blake, Petridis, Loukas, Cosgrove, Daniel J., & Kubicki, James D. Quantum Calculations on Plant Cell Wall Component Interactions. United States. https://doi.org/10.1007/s12539-018-0293-4
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Yang, Hui, Watts, Heath D., Gibilterra, Virgil, Weiss, T. Blake, Petridis, Loukas, Cosgrove, Daniel J., and Kubicki, James D. Mon . "Quantum Calculations on Plant Cell Wall Component Interactions". United States. https://doi.org/10.1007/s12539-018-0293-4. https://www.osti.gov/servlets/purl/1474698.
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@article{osti_1474698,
title = {Quantum Calculations on Plant Cell Wall Component Interactions},
author = {Yang, Hui and Watts, Heath D. and Gibilterra, Virgil and Weiss, T. Blake and Petridis, Loukas and Cosgrove, Daniel J. and Kubicki, James D.},
abstractNote = {In this paper, density functional theory calculations were performed to assess the relative interaction energies of plant cell wall components: cellulose, xylan, lignin and pectin. Monomeric and tetramer linear molecules were allowed to interact in four different configurations for each pair of compounds. The M05-2X exchange-correlation functional which implicitly accounts for short- and mid-range dispersion was compared against MP2 and RI-MP2 to assess the reliability of the former for modeling van der Waals forces between these PCW components. Solvation effects were examined by modeling the interactions in the gas phase, in explicit H2O, and in polarized continuum models (PCM) of solvation. PCMs were used to represent water, methanol, and chloroform. The results predict the relative ranges of each type of interaction and when specific configurations will be strongly preferred. Finally, structures and energies are useful as a basis for testing classical force fields and as guidance for coarse-grained models of PCWs.},
doi = {10.1007/s12539-018-0293-4},
journal = {Interdisciplinary Sciences: Computational Life Sciences},
number = 3,
volume = 11,
place = {United States},
year = {Mon Mar 26 00:00:00 EDT 2018},
month = {Mon Mar 26 00:00:00 EDT 2018}
}
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Journal Article:
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Publisher's Version of Record
https://doi.org/10.1007/s12539-018-0293-4
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Cited by: 10 works
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Figures / Tables:

Figure 1 Figure 1: Tetramers of 84 glucuronic acid, where 3 of the 4 COOH groups were methyl esterified, were used to represent 85 pectin.
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