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

Warning

This publication doesn't include Faculty of Education. It includes Central European Institute of Technology. Official publication website can be found on muni.cz.

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
Citation
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