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

• Authors: SEHNAL David; GRANT O.C.
• Year of publication: 2019
• Type: Article in Periodical
• Magazine / Source: Journal of Proteome Research
• MU Faculty or unit: Central European Institute of Technology
• web: http://dx.doi.org/10.1021/acs.jproteome.8b00473
• Doi: http://dx.doi.org/10.1021/acs.jproteome.8b00473
• Keywords: oligosaccharide; glycan; carbohydrate; glycoprotein; SNFG; 3D-SNFG; visualization; LiteMol; structure; symbol nomenclature for glycans
• Description: 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.

Related projects

• ELIXIR-EXCELERATE: Fast-track ELIXIR implementation and drive early user exploitation across the life-sciences
• Czech National Infrastructure for Biological Data
• ELIXIR-CZ: Budování kapacit