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Tools to Assist Determination and Validation of Carbohydrate 3D Structure Data

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Glycoinformatics

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1273))

Abstract

The frequency of glycosylated protein 3D structures in the Protein Data Bank (PDB) is significantly lower than the proportion of glycoproteins in nature, and if glycan 3D structures are present, then they often exhibit a large degree of errors. There are various reasons for this, one of which is a comparably low support of carbohydrates in software tools for 3D structure determination and validation. This chapter illustrates the current features that assist crystallographers with handling glycans during 3D structure determination in Coot and CNS and with validation of the results.

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Author information

Authors and Affiliations

  1. MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge Biomedical Campus, Cambridge, CB2 0QH, UK

    Paul Emsley

  2. Department of Molecular and Cellular Physiology, Howard Hughes Medical Institute, J.H. Clark Center, Stanford University School of Medicine, 318 Campus Drive, Stanford, CA, 94305, USA

    Axel T. Brunger

  3. Institute of Veterinary Physiology and Biochemistry, Justus-Liebig University Giessen, Frankfurter Str. 100, Giessen, 35392, Germany

    Thomas Lütteke

Authors
  1. Paul Emsley
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  2. Axel T. Brunger
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  3. Thomas Lütteke
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Corresponding author

Correspondence to Thomas Lütteke .

Editor information

Editors and Affiliations

  1. Justus-Liebig-University, Giessen, Germany

    Thomas Lütteke

  2. Biognos AB, Göteborg, Sweden

    Martin Frank

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Emsley, P., Brunger, A.T., Lütteke, T. (2015). Tools to Assist Determination and Validation of Carbohydrate 3D Structure Data. In: Lütteke, T., Frank, M. (eds) Glycoinformatics. Methods in Molecular Biology, vol 1273. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-2343-4_17

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  • DOI: https://doi.org/10.1007/978-1-4939-2343-4_17

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-2342-7

  • Online ISBN: 978-1-4939-2343-4

  • eBook Packages: Springer Protocols

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