In order to investigate the function of Soo1p/[alpha]-COP during post-translational modification and intracellular transport of cell wall proteins in Saccharomyces cerevisiae, cell wall proteins from the soo1-1/ret1-1 mutant cells were analyzed. SDS-PAGE analysis of biotin labeled cell wall proteins suggested that the soo1-1 mutation impairs post-translational modification of cell wall proteins, such as N- and/or O-glycosylation. Analysis of cell wall proteins with antibodies against [beta]-1,3-glucan and [beta]-1,6-glucan revealed alteration of the linkage between cell wall proteins and [beta]-glucans in the soo1-1 mutant cells. Compositional sugar analysis of the cell wall proteins also suggested that the soo1-1 mutation impairs glycosylation of cell wall protein in the ER, which is crucial for the maintenance of cell wall integrity.