Format

Send to

Choose Destination
Nucleic Acids Res. 2016 Jan 4;44(D1):D1243-50. doi: 10.1093/nar/gkv1247. Epub 2015 Nov 17.

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

Author information

1
Proteome Informatics Group, SIB Swiss Institute of Bioinformatics, Geneva, Switzerland.
2
Glycoinformatics Inc., Great Falls, VA, USA.
3
Proteome Informatics Group, SIB Swiss Institute of Bioinformatics, Geneva, Switzerland Department of Computer Science, University of Geneva, Geneva, Switzerland.
4
Biomolecular Frontiers Research Centre, Macquarie University, North Ryde, NSW, Australia.
5
University of Gothenburg, Sahlgrenska Academy, Institute of Biomedicine, Department of Medical Biochemistry and Cell Biology, Gothenburg, Sweden.
6
The MITRE Corporation, McLean, VA, USA.
7
Proteome Informatics Group, SIB Swiss Institute of Bioinformatics, Geneva, Switzerland Department of Computer Science, University of Geneva, Geneva, Switzerland frederique.lisacek@isb-sib.ch.

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.

PMID:
26578555
PMCID:
PMC4702881
DOI:
10.1093/nar/gkv1247
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for Silverchair Information Systems Icon for PubMed Central
Loading ...
Support Center