Rapidly Display Glycan Symbols in 3D Structures: 3D-SNFG in LiteMol

J Proteome Res. 2019 Feb 1;18(2):770-774. doi: 10.1021/acs.jproteome.8b00473. Epub 2018 Sep 19.

Abstract

The representation of carbohydrates in 3D space using symbols is a powerful visualization method, but such representations are lacking in currently available visualization software. The work presented here allows researchers to display carbohydrate 3D structures as 3D-SNFG symbols using LiteMol from a web browser (e.g., v.litemol.org/?loadFromCS=5T3X ). Any PDB ID can be substituted at the end of the URL. Alternatively, the user may enter a PDB ID or upload a structure. LiteMol is available at https://v.litemol.org and automatically depicts any carbohydrate residues as 3D-SNFG symbols. To embed LiteMol in a webpage, visit https://github.com/dsehnal/LiteMol .

Keywords: 3D-SNFG; LiteMol; SNFG; carbohydrate; glycan; glycoprotein; oligosaccharide; structure; symbol nomenclature for glycans; visualization.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Carbohydrates / chemistry
  • Molecular Conformation*
  • Polysaccharides / chemistry*
  • Software*

Substances

  • Carbohydrates
  • Polysaccharides