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DisVis: quantifying and visualizing accessible interaction space of distance-restrained biomolecular complexes
Summary: We present DisVis, a Python package and command line tool to calculate the reduced accessible interaction space of distance-restrained binary protein complexes, allowing for direct visualization and quantification of the information content of the distance restraints. The approach is genera...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2015
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4576694/ https://www.ncbi.nlm.nih.gov/pubmed/26026169 http://dx.doi.org/10.1093/bioinformatics/btv333 |
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author | van Zundert, G.C.P. Bonvin, A.M.J.J. |
author_facet | van Zundert, G.C.P. Bonvin, A.M.J.J. |
author_sort | van Zundert, G.C.P. |
collection | PubMed |
description | Summary: We present DisVis, a Python package and command line tool to calculate the reduced accessible interaction space of distance-restrained binary protein complexes, allowing for direct visualization and quantification of the information content of the distance restraints. The approach is general and can also be used as a knowledge-based distance energy term in FFT-based docking directly during the sampling stage. Availability and implementation: The source code with documentation is freely available from https://github.com/haddocking/disvis. Contact: a.m.j.j.bonvin@uu.nl Supplementary information: Supplementary data are available at Bioinformatics online. |
format | Online Article Text |
id | pubmed-4576694 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2015 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-45766942015-09-25 DisVis: quantifying and visualizing accessible interaction space of distance-restrained biomolecular complexes van Zundert, G.C.P. Bonvin, A.M.J.J. Bioinformatics Applications Notes Summary: We present DisVis, a Python package and command line tool to calculate the reduced accessible interaction space of distance-restrained binary protein complexes, allowing for direct visualization and quantification of the information content of the distance restraints. The approach is general and can also be used as a knowledge-based distance energy term in FFT-based docking directly during the sampling stage. Availability and implementation: The source code with documentation is freely available from https://github.com/haddocking/disvis. Contact: a.m.j.j.bonvin@uu.nl Supplementary information: Supplementary data are available at Bioinformatics online. Oxford University Press 2015-10-01 2015-05-29 /pmc/articles/PMC4576694/ /pubmed/26026169 http://dx.doi.org/10.1093/bioinformatics/btv333 Text en © The Author 2015. Published by Oxford University Press. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Applications Notes van Zundert, G.C.P. Bonvin, A.M.J.J. DisVis: quantifying and visualizing accessible interaction space of distance-restrained biomolecular complexes |
title | DisVis: quantifying and visualizing accessible interaction space of distance-restrained biomolecular complexes |
title_full | DisVis: quantifying and visualizing accessible interaction space of distance-restrained biomolecular complexes |
title_fullStr | DisVis: quantifying and visualizing accessible interaction space of distance-restrained biomolecular complexes |
title_full_unstemmed | DisVis: quantifying and visualizing accessible interaction space of distance-restrained biomolecular complexes |
title_short | DisVis: quantifying and visualizing accessible interaction space of distance-restrained biomolecular complexes |
title_sort | disvis: quantifying and visualizing accessible interaction space of distance-restrained biomolecular complexes |
topic | Applications Notes |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4576694/ https://www.ncbi.nlm.nih.gov/pubmed/26026169 http://dx.doi.org/10.1093/bioinformatics/btv333 |
work_keys_str_mv | AT vanzundertgcp disvisquantifyingandvisualizingaccessibleinteractionspaceofdistancerestrainedbiomolecularcomplexes AT bonvinamjj disvisquantifyingandvisualizingaccessibleinteractionspaceofdistancerestrainedbiomolecularcomplexes |