Literature DB >> 26620182

Molecular Polarization Effects on the Relative Energies of the Real and Putative Crystal Structures of Valine.

Timothy G Cooper1, Katarzyna E Hejczyk1, William Jones1, Graeme M Day1.   

Abstract

The computer-generation of the crystal structures of the α-amino acid valine is used as a challenging test of lattice energy modeling methods for crystal structure prediction of flexible polar organic molecules and, specifically, to examine the importance of molecular polarization on calculated relative energies. Total calculated crystal energies, which combine atom-atom model potential calculations of intermolecular interactions with density functional theory intramolecular energies, do not effectively distinguish the real (known) crystal structures from the rest of the low energy computer-generated alternatives when the molecular electrostatic models are derived from isolated molecule calculations. However, we find that introducing a simple model for the bulk crystalline environment when calculating the molecular energy and electron density distribution leads to important changes in relative total crystal energies and correctly distinguishes the observed crystal structures from the set of computer-generated possibilities. This study highlights the importance of polarization of the molecular charge distribution in crystal structure prediction calculations, especially for polar flexible molecules, and suggests a computationally inexpensive approach to include its effect in lattice energy calculations.

Entities:  

Year:  2008        PMID: 26620182     DOI: 10.1021/ct800195g

Source DB:  PubMed          Journal:  J Chem Theory Comput        ISSN: 1549-9618            Impact factor:   6.006


  15 in total

1.  Close intramolecular sulfur-oxygen contacts: modified force field parameters for improved conformation generation.

Authors:  Dmitry Lupyan; Yuriy A Abramov; Woody Sherman
Journal:  J Comput Aided Mol Des       Date:  2012-10-06       Impact factor: 3.686

2.  CHARMM Drude Polarizable Force Field for Aldopentofuranoses and Methyl-aldopentofuranosides.

Authors:  Madhurima Jana; Alexander D MacKerell
Journal:  J Phys Chem B       Date:  2015-06-09       Impact factor: 2.991

3.  Which, if any, hydrates will crystallise? Predicting hydrate formation of two dihydroxybenzoic acids.

Authors:  Doris E Braun; Panagiotis G Karamertzanis; Sarah L Price
Journal:  Chem Commun (Camb)       Date:  2011-04-08       Impact factor: 6.222

4.  The complexity of hydration of phloroglucinol: a comprehensive structural and thermodynamic characterization.

Authors:  Doris E Braun; Derek A Tocher; Sarah L Price; Ulrich J Griesser
Journal:  J Phys Chem B       Date:  2012-03-23       Impact factor: 2.991

5.  Absorbing a Little Water: The Structural, Thermodynamic, and Kinetic Relationship between Pyrogallol and Its Tetarto-Hydrate.

Authors:  Doris E Braun; Rajni M Bhardwaj; Jean-Baptiste Arlin; Alastair J Florence; Volker Kahlenberg; Ulrich J Griesser; Derek A Tocher; Sarah L Price
Journal:  Cryst Growth Des       Date:  2013-07-24       Impact factor: 4.076

6.  Towards crystal structure prediction of complex organic compounds--a report on the fifth blind test.

Authors:  David A Bardwell; Claire S Adjiman; Yelena A Arnautova; Ekaterina Bartashevich; Stephan X M Boerrigter; Doris E Braun; Aurora J Cruz-Cabeza; Graeme M Day; Raffaele G Della Valle; Gautam R Desiraju; Bouke P van Eijck; Julio C Facelli; Marta B Ferraro; Damian Grillo; Matthew Habgood; Detlef W M Hofmann; Fridolin Hofmann; K V Jovan Jose; Panagiotis G Karamertzanis; Andrei V Kazantsev; John Kendrick; Liudmila N Kuleshova; Frank J J Leusen; Andrey V Maleev; Alston J Misquitta; Sharmarke Mohamed; Richard J Needs; Marcus A Neumann; Denis Nikylov; Anita M Orendt; Rumpa Pal; Constantinos C Pantelides; Chris J Pickard; Louise S Price; Sarah L Price; Harold A Scheraga; Jacco van de Streek; Tejender S Thakur; Siddharth Tiwari; Elisabetta Venuti; Ilia K Zhitkov
Journal:  Acta Crystallogr B       Date:  2011-11-17

7.  Why do Hydrates (Solvates) Form in Small Neutral Organic Molecules? Exploring the Crystal Form Landscapes of the Alkaloids Brucine and Strychnine.

Authors:  Doris E Braun; Ulrich J Griesser
Journal:  Cryst Growth Des       Date:  2016-11-02       Impact factor: 4.076

8.  Complex Polymorphic System of Gallic Acid-Five Monohydrates, Three Anhydrates, and over 20 Solvates.

Authors:  Doris E Braun; Rajni M Bhardwaj; Alastair J Florence; Derek A Tocher; Sarah L Price
Journal:  Cryst Growth Des       Date:  2012-11-27       Impact factor: 4.076

9.  Four Polymorphs of Methyl Paraben: Structural Relationships and Relative Energy Differences.

Authors:  Thomas Gelbrich; Doris E Braun; Arkady Ellern; Ulrich J Griesser
Journal:  Cryst Growth Des       Date:  2013-01-28       Impact factor: 4.076

10.  Insights into hydrate formation and stability of morphinanes from a combination of experimental and computational approaches.

Authors:  Doris E Braun; Thomas Gelbrich; Volker Kahlenberg; Ulrich J Griesser
Journal:  Mol Pharm       Date:  2014-08-01       Impact factor: 4.939

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