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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...

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Detalles Bibliográficos
Autores principales: Rochira, William, Agirre, Jon
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley & Sons, Inc. 2020
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.
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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
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