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Iris: Interactive all‐in‐one graphical validation of 3D protein model iterations
Iris validation is a Python package created to represent comprehensive per‐residue validation metrics for entire protein chains in a compact, readable and interactive view. These metrics can either be calculated by Iris, or by a third‐party program such as MolProbity. We show that those parts of a p...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
John Wiley & Sons, Inc.
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7737763/ https://www.ncbi.nlm.nih.gov/pubmed/32964594 http://dx.doi.org/10.1002/pro.3955 |
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author | Rochira, William Agirre, Jon |
author_facet | Rochira, William Agirre, Jon |
author_sort | Rochira, William |
collection | PubMed |
description | Iris validation is a Python package created to represent comprehensive per‐residue validation metrics for entire protein chains in a compact, readable and interactive view. These metrics can either be calculated by Iris, or by a third‐party program such as MolProbity. We show that those parts of a protein model requiring attention may generate ripples across the metrics on the diagram, immediately catching the modeler's attention. Iris can run as a standalone tool, or be plugged into existing structural biology software to display per‐chain model quality at a glance, with a particular emphasis on evaluating incremental changes resulting from the iterative nature of model building and refinement. Finally, the integration of Iris into the CCP4i2 graphical user interface is provided as a showcase of its pluggable design. |
format | Online Article Text |
id | pubmed-7737763 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | John Wiley & Sons, Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-77377632020-12-18 Iris: Interactive all‐in‐one graphical validation of 3D protein model iterations Rochira, William Agirre, Jon Protein Sci Tools for Protein Science Iris validation is a Python package created to represent comprehensive per‐residue validation metrics for entire protein chains in a compact, readable and interactive view. These metrics can either be calculated by Iris, or by a third‐party program such as MolProbity. We show that those parts of a protein model requiring attention may generate ripples across the metrics on the diagram, immediately catching the modeler's attention. Iris can run as a standalone tool, or be plugged into existing structural biology software to display per‐chain model quality at a glance, with a particular emphasis on evaluating incremental changes resulting from the iterative nature of model building and refinement. Finally, the integration of Iris into the CCP4i2 graphical user interface is provided as a showcase of its pluggable design. John Wiley & Sons, Inc. 2020-10-19 2021-01 /pmc/articles/PMC7737763/ /pubmed/32964594 http://dx.doi.org/10.1002/pro.3955 Text en © 2020 The Authors. Protein Science published by Wiley Periodicals LLC on behalf of The Protein Society. This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Tools for Protein Science Rochira, William Agirre, Jon Iris: Interactive all‐in‐one graphical validation of 3D protein model iterations |
title | Iris: Interactive all‐in‐one graphical validation of 3D protein model iterations |
title_full | Iris: Interactive all‐in‐one graphical validation of 3D protein model iterations |
title_fullStr | Iris: Interactive all‐in‐one graphical validation of 3D protein model iterations |
title_full_unstemmed | Iris: Interactive all‐in‐one graphical validation of 3D protein model iterations |
title_short | Iris: Interactive all‐in‐one graphical validation of 3D protein model iterations |
title_sort | iris: interactive all‐in‐one graphical validation of 3d protein model iterations |
topic | Tools for Protein Science |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7737763/ https://www.ncbi.nlm.nih.gov/pubmed/32964594 http://dx.doi.org/10.1002/pro.3955 |
work_keys_str_mv | AT rochirawilliam irisinteractiveallinonegraphicalvalidationof3dproteinmodeliterations AT agirrejon irisinteractiveallinonegraphicalvalidationof3dproteinmodeliterations |