Re: [AMBER] Does GLYCAM only can deal with Oligosaccharides or Polysaccharides BUT NOT Monosaccharide???

From: Lachele Foley <>
Date: Fri, 22 May 2015 12:55:14 -0400

GLYCAM can definitely handle a monosaccharide. The only slightly
counter-intuitive thing is that you need to put the anomeric hydroxyl
(or O-methyl) in a separate residue (ROH if hydroxyl), preferably
before the 0M? residue (make ?=B for beta and A for alpha).

On Fri, May 22, 2015 at 10:02 AM, Chris <> wrote:
> Dear All:
> I have a protein with its ligand of a Mannose monosaccharide located in binding site.
> How can I prepare the topology file for mannose??? I check the GLYCAM manual and find it is used for construct sugars for more than one, am I right??
> So, does this mean I need prepare mannose using antechamber and load GAFF???
> Thx!
> Sincerely Chris!
> _______________________________________________
> AMBER mailing list

:-) Lachele
Lachele Foley
Athens, GA USA
AMBER mailing list
Received on Fri May 22 2015 - 10:00:02 PDT
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