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

Journal article
Authors Julien Mariethoz
Khaled Khatib
Davide Alocci
Matthew P Campbell
Niclas G. Karlsson
Nicolle H Packer
Elaine H Mullen
Frederique Lisacek
Published in Nucleic acids research
Volume 44
Issue D1
Pages D1243-D1250
ISSN 1362-4962
Publication year 2016
Published at Institute of Biomedicine
Pages D1243-D1250
Language en
Links dx.doi.org/10.1093/nar/gkv1247
Subject categories Bioinformatics (Computational Biology)

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 site-specific glycosylation stored in UniCarbKB. SugarBindDB is accessible at: http://sugarbind.expasy.org.

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