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A jumping crystal predicted with molecular dynamics and analysed with TLS refinement against powder diffraction data
By running a temperature series of molecular dynamics (MD) simulations starting from the known low-temperature phase, the experimentally observed phase transition in a ‘jumping crystal’ was captured, thereby providing a prediction of the unknown crystal structure of the high-temperature phase and cl...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
International Union of Crystallography
2019
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6327187/ https://www.ncbi.nlm.nih.gov/pubmed/30713711 http://dx.doi.org/10.1107/S205225251801686X |
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author | van de Streek, Jacco Alig, Edith Parsons, Simon Vella-Zarb, Liana |
author_facet | van de Streek, Jacco Alig, Edith Parsons, Simon Vella-Zarb, Liana |
author_sort | van de Streek, Jacco |
collection | PubMed |
description | By running a temperature series of molecular dynamics (MD) simulations starting from the known low-temperature phase, the experimentally observed phase transition in a ‘jumping crystal’ was captured, thereby providing a prediction of the unknown crystal structure of the high-temperature phase and clarifying the phase-transition mechanism. The phase transition is accompanied by a discontinuity in two of the unit-cell parameters. The structure of the high-temperature phase is very similar to that of the low-temperature phase. The anisotropic displacement parameters calculated from the MD simulations readily identified libration as the driving force behind the phase transition. Both the predicted crystal structure and the phase-transition mechanism were verified experimentally using TLS (translation, libration, screw) refinement against X-ray powder diffraction data. |
format | Online Article Text |
id | pubmed-6327187 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | International Union of Crystallography |
record_format | MEDLINE/PubMed |
spelling | pubmed-63271872019-02-01 A jumping crystal predicted with molecular dynamics and analysed with TLS refinement against powder diffraction data van de Streek, Jacco Alig, Edith Parsons, Simon Vella-Zarb, Liana IUCrJ Research Papers By running a temperature series of molecular dynamics (MD) simulations starting from the known low-temperature phase, the experimentally observed phase transition in a ‘jumping crystal’ was captured, thereby providing a prediction of the unknown crystal structure of the high-temperature phase and clarifying the phase-transition mechanism. The phase transition is accompanied by a discontinuity in two of the unit-cell parameters. The structure of the high-temperature phase is very similar to that of the low-temperature phase. The anisotropic displacement parameters calculated from the MD simulations readily identified libration as the driving force behind the phase transition. Both the predicted crystal structure and the phase-transition mechanism were verified experimentally using TLS (translation, libration, screw) refinement against X-ray powder diffraction data. International Union of Crystallography 2019-01-01 /pmc/articles/PMC6327187/ /pubmed/30713711 http://dx.doi.org/10.1107/S205225251801686X Text en © Jacco van de Streek et al. 2019 http://creativecommons.org/licenses/by/2.0/uk/ This is an open-access article distributed under the terms of the Creative Commons Attribution (CC-BY) Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original authors and source are cited.http://creativecommons.org/licenses/by/2.0/uk/ |
spellingShingle | Research Papers van de Streek, Jacco Alig, Edith Parsons, Simon Vella-Zarb, Liana A jumping crystal predicted with molecular dynamics and analysed with TLS refinement against powder diffraction data |
title | A jumping crystal predicted with molecular dynamics and analysed with TLS refinement against powder diffraction data |
title_full | A jumping crystal predicted with molecular dynamics and analysed with TLS refinement against powder diffraction data |
title_fullStr | A jumping crystal predicted with molecular dynamics and analysed with TLS refinement against powder diffraction data |
title_full_unstemmed | A jumping crystal predicted with molecular dynamics and analysed with TLS refinement against powder diffraction data |
title_short | A jumping crystal predicted with molecular dynamics and analysed with TLS refinement against powder diffraction data |
title_sort | jumping crystal predicted with molecular dynamics and analysed with tls refinement against powder diffraction data |
topic | Research Papers |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6327187/ https://www.ncbi.nlm.nih.gov/pubmed/30713711 http://dx.doi.org/10.1107/S205225251801686X |
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