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Protein–Sol: a web tool for predicting protein solubility from sequence
MOTIVATION: Protein solubility is an important property in industrial and therapeutic applications. Prediction is a challenge, despite a growing understanding of the relevant physicochemical properties. RESULTS: Protein–Sol is a web server for predicting protein solubility. Using available data for...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5870856/ https://www.ncbi.nlm.nih.gov/pubmed/28575391 http://dx.doi.org/10.1093/bioinformatics/btx345 |
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author | Hebditch, Max Carballo-Amador, M Alejandro Charonis, Spyros Curtis, Robin Warwicker, Jim |
author_facet | Hebditch, Max Carballo-Amador, M Alejandro Charonis, Spyros Curtis, Robin Warwicker, Jim |
author_sort | Hebditch, Max |
collection | PubMed |
description | MOTIVATION: Protein solubility is an important property in industrial and therapeutic applications. Prediction is a challenge, despite a growing understanding of the relevant physicochemical properties. RESULTS: Protein–Sol is a web server for predicting protein solubility. Using available data for Escherichia coli protein solubility in a cell-free expression system, 35 sequence-based properties are calculated. Feature weights are determined from separation of low and high solubility subsets. The model returns a predicted solubility and an indication of the features which deviate most from average values. Two other properties are profiled in windowed calculation along the sequence: fold propensity, and net segment charge. The utility of these additional features is demonstrated with the example of thioredoxin. AVAILABILITY AND IMPLEMENTATION: The Protein–Sol webserver is available at http://protein-sol.manchester.ac.uk. |
format | Online Article Text |
id | pubmed-5870856 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-58708562018-03-29 Protein–Sol: a web tool for predicting protein solubility from sequence Hebditch, Max Carballo-Amador, M Alejandro Charonis, Spyros Curtis, Robin Warwicker, Jim Bioinformatics Applications Notes MOTIVATION: Protein solubility is an important property in industrial and therapeutic applications. Prediction is a challenge, despite a growing understanding of the relevant physicochemical properties. RESULTS: Protein–Sol is a web server for predicting protein solubility. Using available data for Escherichia coli protein solubility in a cell-free expression system, 35 sequence-based properties are calculated. Feature weights are determined from separation of low and high solubility subsets. The model returns a predicted solubility and an indication of the features which deviate most from average values. Two other properties are profiled in windowed calculation along the sequence: fold propensity, and net segment charge. The utility of these additional features is demonstrated with the example of thioredoxin. AVAILABILITY AND IMPLEMENTATION: The Protein–Sol webserver is available at http://protein-sol.manchester.ac.uk. Oxford University Press 2017-10-01 2017-05-29 /pmc/articles/PMC5870856/ /pubmed/28575391 http://dx.doi.org/10.1093/bioinformatics/btx345 Text en © The Author 2017. 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 Hebditch, Max Carballo-Amador, M Alejandro Charonis, Spyros Curtis, Robin Warwicker, Jim Protein–Sol: a web tool for predicting protein solubility from sequence |
title | Protein–Sol: a web tool for predicting protein solubility from sequence |
title_full | Protein–Sol: a web tool for predicting protein solubility from sequence |
title_fullStr | Protein–Sol: a web tool for predicting protein solubility from sequence |
title_full_unstemmed | Protein–Sol: a web tool for predicting protein solubility from sequence |
title_short | Protein–Sol: a web tool for predicting protein solubility from sequence |
title_sort | protein–sol: a web tool for predicting protein solubility from sequence |
topic | Applications Notes |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5870856/ https://www.ncbi.nlm.nih.gov/pubmed/28575391 http://dx.doi.org/10.1093/bioinformatics/btx345 |
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