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Molecular Dynamics Simulations of the O-glycosylated 21-residue MUC1 Peptides
Eppley Institute for Research in Cancer and Allied Diseases, University of Nebraska Medical Center, Omaha, NE 68198-6805, USA
* Author to whom correspondence should be addressed.
Received: 16 April 2003; Accepted: 7 July 2003 / Published: 16 March 2004
Abstract: The conformational propensities of the 21-residue peptide and its Oglycosylated analogs were studied by molecular dynamics (MD) simulations. This polypeptide motif comprises the tandem repeat of the human mucin (MUC1) protein core that is differently glycosylated in normal and cancer cells. To evaluate the structural effects of O-glycosylation on the polypeptide backbone, conformations of the nonglycosylated peptide and its glycosylated analogs were monitored during the 1 ns MD simulations. Radius gyration for whole peptide and its fragments, as well as root-meansquare-deviation between coordinate sets of the backbone atoms of starting structures and generated structures, were calculated. It was shown that O-glycosylation promotes and stabilizes the extended conformations of the whole peptide and its central PDTRP fragment. O-glycosylation of the specific Thr residues significantly affects the conformational distributions of the flanking Ser residues. It was also shown that Oglycosylation promoted backbone conformations of the immunodominant region PDTRP that were similar to the structural features of the peptides presented by the major histocompatability complex (MHC) to T-cell receptors.
Keywords: glycoprotein MUC1; glycopeptide; molecular dynamics; conformations
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Rubinstein, A.; Kinarsky, L.; Sherman, S. Molecular Dynamics Simulations of the O-glycosylated 21-residue MUC1 Peptides. Int. J. Mol. Sci. 2004, 5, 119-128.
Rubinstein A, Kinarsky L, Sherman S. Molecular Dynamics Simulations of the O-glycosylated 21-residue MUC1 Peptides. International Journal of Molecular Sciences. 2004; 5(4):119-128.
Rubinstein, A.; Kinarsky, L.; Sherman, S. 2004. "Molecular Dynamics Simulations of the O-glycosylated 21-residue MUC1 Peptides." Int. J. Mol. Sci. 5, no. 4: 119-128.