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The ISOTILT software for discovering cooperative rigid-unit rotations in networks of interconnected rigid units
A user-friendly web-based software tool called ‘ISOTILT’ is introduced for detecting cooperative rigid-unit modes (RUMs) in networks of interconnected rigid units (e.g. molecules, clusters or polyhedral units). This tool implements a recently described algorithm in which symmetry-mode patterns of pi...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
International Union of Crystallography
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8662972/ https://www.ncbi.nlm.nih.gov/pubmed/34963771 http://dx.doi.org/10.1107/S1600576721009353 |
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author | Campbell, Branton J. Stokes, Harold T. Averett, Tyler B. Machlus, Shae Yost, Christopher J. |
author_facet | Campbell, Branton J. Stokes, Harold T. Averett, Tyler B. Machlus, Shae Yost, Christopher J. |
author_sort | Campbell, Branton J. |
collection | PubMed |
description | A user-friendly web-based software tool called ‘ISOTILT’ is introduced for detecting cooperative rigid-unit modes (RUMs) in networks of interconnected rigid units (e.g. molecules, clusters or polyhedral units). This tool implements a recently described algorithm in which symmetry-mode patterns of pivot-atom rotation and displacement vectors are used to construct a linear system of equations whose null space consists entirely of RUMs. The symmetry modes are first separated into independent symmetry-mode blocks and the set of equations for each block is solved separately by singular value decomposition. ISOTILT is the newest member of the ISOTROPY Software Suite. Here, it is shown how to prepare structural and symmetry-mode information for use in ISOTILT, how to use each of ISOTILT’s input fields and options, and how to use and interpret ISOTILT output. |
format | Online Article Text |
id | pubmed-8662972 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | International Union of Crystallography |
record_format | MEDLINE/PubMed |
spelling | pubmed-86629722021-12-27 The ISOTILT software for discovering cooperative rigid-unit rotations in networks of interconnected rigid units Campbell, Branton J. Stokes, Harold T. Averett, Tyler B. Machlus, Shae Yost, Christopher J. J Appl Crystallogr Computer Programs A user-friendly web-based software tool called ‘ISOTILT’ is introduced for detecting cooperative rigid-unit modes (RUMs) in networks of interconnected rigid units (e.g. molecules, clusters or polyhedral units). This tool implements a recently described algorithm in which symmetry-mode patterns of pivot-atom rotation and displacement vectors are used to construct a linear system of equations whose null space consists entirely of RUMs. The symmetry modes are first separated into independent symmetry-mode blocks and the set of equations for each block is solved separately by singular value decomposition. ISOTILT is the newest member of the ISOTROPY Software Suite. Here, it is shown how to prepare structural and symmetry-mode information for use in ISOTILT, how to use each of ISOTILT’s input fields and options, and how to use and interpret ISOTILT output. International Union of Crystallography 2021-11-02 /pmc/articles/PMC8662972/ /pubmed/34963771 http://dx.doi.org/10.1107/S1600576721009353 Text en © Branton J. Campbell et al. 2021 https://creativecommons.org/licenses/by/4.0/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. |
spellingShingle | Computer Programs Campbell, Branton J. Stokes, Harold T. Averett, Tyler B. Machlus, Shae Yost, Christopher J. The ISOTILT software for discovering cooperative rigid-unit rotations in networks of interconnected rigid units |
title | The ISOTILT software for discovering cooperative rigid-unit rotations in networks of interconnected rigid units |
title_full | The ISOTILT software for discovering cooperative rigid-unit rotations in networks of interconnected rigid units |
title_fullStr | The ISOTILT software for discovering cooperative rigid-unit rotations in networks of interconnected rigid units |
title_full_unstemmed | The ISOTILT software for discovering cooperative rigid-unit rotations in networks of interconnected rigid units |
title_short | The ISOTILT software for discovering cooperative rigid-unit rotations in networks of interconnected rigid units |
title_sort | isotilt software for discovering cooperative rigid-unit rotations in networks of interconnected rigid units |
topic | Computer Programs |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8662972/ https://www.ncbi.nlm.nih.gov/pubmed/34963771 http://dx.doi.org/10.1107/S1600576721009353 |
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