Topology and parameter files for sugar residues in glycoproteins

[Bozidar Yerkovich <>]

> > From: "Andersen, Kim Vilbour (KVA)" <>
> > To: <>
> > Content-Transfer-Encoding: 8bit
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> > salilab.org id g4HCeIDD023046
> >
> > Hi
> >
> > I'm trying to model a glycoprotein with Modeller and would like to 
> > include the glyco-part in the modelling.
> >
> > I'm fighting with the creation of topology files (and parameter files) 
> > creating the topology of the different involved sugar residues as well 
> > as patch residues to create the relevant bonds.
> >
> > Has anybody out there done this already and are willing to share?
> >
> > I'm mainly interested in N-acetylglucosamine, N-acetylgalactosamine, 
> > Mannose, Galactose and Sialic acid as well as the relevant patchings.
> >
> > Any input will be appreciated,
> >
> > thanks
> >
> > Kim
> >
> > ------------------------------------------------------------------------
> > Kim Vilbour Andersen, PhD
> > Principal Scientist
> > Maxygen
> > Agern AllÈ 1
> > DK-2970 H¯rsholm
> > Denmark
> > ------------------------------------------------------------------------