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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...

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Detalles Bibliográficos
Autores principales: Campbell, Branton J., Stokes, Harold T., Averett, Tyler B., Machlus, Shae, Yost, Christopher J.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: International Union of Crystallography 2021
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.
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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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