Too sweet: cheminformatics for deglycosylation in natural products
Abstract Sugar units in natural products are pharmacokinetically important but often redundant and therefore obstructing the study of the structure and function of the aglycon. Therefore, it is recommended to remove the sugars before a theoretical or experimental study of a molecule. Deglycogenases,...
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doaj-bff0a2db70ad4a288e8949e01c03abde2020-11-25T04:08:02ZengBMCJournal of Cheminformatics1758-29462020-11-0112112010.1186/s13321-020-00467-yToo sweet: cheminformatics for deglycosylation in natural productsJonas Schaub0Achim Zielesny1Christoph Steinbeck2Maria Sorokina3Institute for Inorganic and Analytical Chemistry, Friedrich-Schiller UniversityInstitute for Bioinformatics and Chemoinformatics, Westphalian University of Applied SciencesInstitute for Inorganic and Analytical Chemistry, Friedrich-Schiller UniversityInstitute for Inorganic and Analytical Chemistry, Friedrich-Schiller UniversityAbstract Sugar units in natural products are pharmacokinetically important but often redundant and therefore obstructing the study of the structure and function of the aglycon. Therefore, it is recommended to remove the sugars before a theoretical or experimental study of a molecule. Deglycogenases, enzymes that specialized in sugar removal from small molecules, are often used in laboratories to perform this task. However, there is no standardized computational procedure to perform this task in silico. In this work, we present a systematic approach for in silico removal of ring and linear sugars from molecular structures. Particular attention is given to molecules of biological origin and to their structural specificities. This approach is made available in two forms, through a free and open web application and as standalone open-source software.http://link.springer.com/article/10.1186/s13321-020-00467-yNatural productsSugarsCarbohydratesDeglycosylationCheminformaticsChemistry Development Kit |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Jonas Schaub Achim Zielesny Christoph Steinbeck Maria Sorokina |
spellingShingle |
Jonas Schaub Achim Zielesny Christoph Steinbeck Maria Sorokina Too sweet: cheminformatics for deglycosylation in natural products Journal of Cheminformatics Natural products Sugars Carbohydrates Deglycosylation Cheminformatics Chemistry Development Kit |
author_facet |
Jonas Schaub Achim Zielesny Christoph Steinbeck Maria Sorokina |
author_sort |
Jonas Schaub |
title |
Too sweet: cheminformatics for deglycosylation in natural products |
title_short |
Too sweet: cheminformatics for deglycosylation in natural products |
title_full |
Too sweet: cheminformatics for deglycosylation in natural products |
title_fullStr |
Too sweet: cheminformatics for deglycosylation in natural products |
title_full_unstemmed |
Too sweet: cheminformatics for deglycosylation in natural products |
title_sort |
too sweet: cheminformatics for deglycosylation in natural products |
publisher |
BMC |
series |
Journal of Cheminformatics |
issn |
1758-2946 |
publishDate |
2020-11-01 |
description |
Abstract Sugar units in natural products are pharmacokinetically important but often redundant and therefore obstructing the study of the structure and function of the aglycon. Therefore, it is recommended to remove the sugars before a theoretical or experimental study of a molecule. Deglycogenases, enzymes that specialized in sugar removal from small molecules, are often used in laboratories to perform this task. However, there is no standardized computational procedure to perform this task in silico. In this work, we present a systematic approach for in silico removal of ring and linear sugars from molecular structures. Particular attention is given to molecules of biological origin and to their structural specificities. This approach is made available in two forms, through a free and open web application and as standalone open-source software. |
topic |
Natural products Sugars Carbohydrates Deglycosylation Cheminformatics Chemistry Development Kit |
url |
http://link.springer.com/article/10.1186/s13321-020-00467-y |
work_keys_str_mv |
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