Hi everyone, I've been trying to add NAG sugars to my NMR protein models using the toph3.cho/param3.cho files distributed with xplor-nih. The problem is that these files allow the sugar ring a lot of flexibility, certainly more than seen in recent crystalographic models of glycosylated proteins. In addition, they do not impose planarity to the N-acetyl group of the sugar, and break the sidechain planarity of the linked Asn residue. Are there any other topology/parameter files one could use instead?
Thanks John Vakonakis _______________________________________________ Xplor-nih mailing list [email protected] http://dcb.cit.nih.gov/mailman/listinfo/xplor-nih
