SugarBindDB, a resource of glycan-mediated host-pathogen interactions

Julien Mariethoz, Khaled Khatib, Davide Alocci, Matthew P. Campbell, Niclas G. Karlsson, Nicolle H. Packer, Elaine H. Mullen, Frederique Lisacek*

*Corresponding author for this work

Research output: Contribution to journalArticle

20 Citations (Scopus)
2 Downloads (Pure)

Abstract

The SugarBind Database (SugarBindDB) covers knowledge of glycan binding of human pathogen lectins and adhesins. It is a curated database; each glycan-protein binding pair is associated with at least one published reference. The core data element of SugarBindDB is a set of three inseparable components: the pathogenic agent, a lectin/adhesin and a glycan ligand. Each entity (agent, lectin or ligand) is described by a range of properties that are summarized in an entity-dedicated page. Several search, navigation and visualisation tools are implemented to investigate the functional role of glycans in pathogen binding. The database is cross-linked to protein and glycan-relaled resources such as UniProtKB and UniCarbKB. It is tightly bound to the latter via a substructure search tool that maps each ligand to full structures where it occurs. Thus, a glycan-lectin binding pair of SugarBindDB can lead to the identification of a glycan-mediated protein-protein interaction, that is, a lectin-glycoprotein interaction, via substructure search and the knowledge of sitespecific glycosylation stored in UniCarbKB.

Original languageEnglish
Pages (from-to)D1243-D1250
Number of pages8
JournalNucleic Acids Research
Volume44
Issue numberD1
DOIs
Publication statusPublished - 4 Jan 2016

Bibliographical note

Copyright the Author(s) 2015. Version archived for private and non-commercial use with the permission of the author/s and according to publisher conditions. For further rights please contact the publisher.

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    Mariethoz, J., Khatib, K., Alocci, D., Campbell, M. P., Karlsson, N. G., Packer, N. H., ... Lisacek, F. (2016). SugarBindDB, a resource of glycan-mediated host-pathogen interactions. Nucleic Acids Research, 44(D1), D1243-D1250. https://doi.org/10.1093/nar/gkv1247