A 2-D graphical representation of proteins based on 2-D map of amino acids is outlined. The Amino Acid map was obtained by constructing the partial order on a selected pair of physico-chemical properties of amino acids. The plot of the difference between the (x,y) coordinates of two graphical representations of proteins allows a visual inspection of protein alignment. The approach is illustrated on segments of a protein of the yeast Saccharomyces cerevisiae. (C) 2007 Elsevier B.V. All rights reserved.