Glyco3D: A Portal for Structural Glycosciences

  • Serge Pérez
  • Anita Sarkar
  • Alain Rivet
  • Christelle Breton
  • Anne Imberty
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1273)

Abstract

The present work describes, in a detailed way, a family of databases covering the three-dimensional features of monosaccharides, disaccharides, oligosaccharides, polysaccharides, glycosyltransferases, lectins, monoclonal antibodies against carbohydrates, and glycosaminoglycan-binding proteins. These databases have been developed with non-proprietary software, and they are open freely to the scientific community. They are accessible through the common portal called “Glyco3D” http://www.glyco3d.cermav.cnrs.fr. The databases are accompanied by a user-friendly graphical user interface (GUI) which offers several search options. All three-dimensional structures are available for visual consultations (with basic measurements possibilities) and can be downloaded in commonly used formats for further uses.

Key words

Three-dimensional structures Bioactive oligosaccharides Polysaccharides Lectins Glycosyl-transferases Monoclonal antibodies against carbohydrates Glycosaminoglycans interacting proteins 

Notes

Acknowledgments

The research leading to this publication has received funding from the European Commission’s Seventh Framework Programme FP7/2007–2013 under grant agreement no. 215536 (ITN: EuroGlycoArras) and no. 213592 (ITN: CARMUSYS) and from the Agence Nationale de la Recherche under the “Genomic and Plant Biotechnology” Action throughout the “Wall-Array” project. We are grateful to the Marie Curie Initial Training Network as part of the FP7 People Programme for training and funding. We acknowledge the help of Cyril Bras for testing the Web pages for the search engine. The implementation of the design of the databases benefited from the excellent contribution of Alexandre Finet and Hervé Valentin, respectively.

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Copyright information

© Springer Science+Business Media New York 2015

Authors and Affiliations

  • Serge Pérez
    • 1
  • Anita Sarkar
    • 1
  • Alain Rivet
    • 1
  • Christelle Breton
    • 1
  • Anne Imberty
    • 1
  1. 1.Centre de Recherches sur les Macromolécules VégétalesUPR5301, CNRS - Université Grenoble AlpesGrenoble cédex 09France

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