Glycosylator

Glycosylator is a Python-based software tool for identifying, modeling, and modifying glycans in protein structures. It offers an application programming interface (API) for direct use in Python scripts and a graphical user interface (GUI) for user-friendly interaction. The key features and functionalities of Glycosylator include:

1. Identification of N-linked glycosylation sites (sequons) on protein structures.

2. Two-dimensional (2D) rendering of glycoproteins in the GUI, allowing for quick visual inspection of the glycosylation state of all sequons.

3. Modeling of glycans on protein structures using a library of predefined templates.

4. Refinement of modeled glycans using a genetic algorithm to remove clashes and sample alternative conformations.

5. Compatibility with the CHARMM force field, enabling the generation of new complex sugar moieties without modifying the code's internals.

Topic

Carbohydrates;Mapping;Molecular dynamics;Physiology;Protein structural motifs and surfaces

Detail

  • Operation: Post-translation modification site prediction;Molecular dynamics;Visualisation;Sequence trimming

  • Software interface: Command-line interface

  • Language: Python

  • License: Not stated

  • Cost: Free of charge

  • Version name: -

  • Credit: The Human Vaccines Project, the Swiss National Science Foundation.

  • Input: -

  • Output: -

  • Contact: Thomas Lemmin thomas.lemmin@inf.ethz.ch ,Cinque Soto cinque.soto@vumc.org

  • Collection: -

  • Maturity: -

Publications

  • Glycosylator: a Python framework for the rapid modeling of glycans.
  • Lemmin T and Soto C. Glycosylator: a Python framework for the rapid modeling of glycans. Glycosylator: a Python framework for the rapid modeling of glycans. 2019; 20:513. doi: 10.1186/s12859-019-3097-6
  • https://doi.org/10.1186/S12859-019-3097-6
  • PMID: 31640540
  • PMC: PMC6806574

Download and documentation

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