coagulation cascade. In this manner, HLGAGs play an important biological and pharmacological role in the modulation of blood clotting. Recently, a sequencing methodology was developed to further structure-function relationships of this important class of molecules. This methodology combines a property-encoded nomenclature scheme to handle the large information content (properties) of HLGAGs, with matrix-assisted laser desorption ionization MS and enzymatic and chemical degradation as experimental constraints to rapidly sequence picomole quantities of HLGAG oligosaccharides. Using the above property-encoded nomenclature-matrix-assisted laser desorption ionization approach, we found that the sequence of the decasaccharide used in this study is ⌬U 2SHNS,6SI2SHNS,6SI2SHNS,6S-IHNAc,6SGHNS,3S,6S (؎DDD4 -7). We confirmed our results by using integral glycan sequencing and one-dimensional proton NMR. Furthermore, we show that this approach is flexible and is able to derive sequence information on an oligosaccharide mixture. Thus, this methodology will make possible both the analysis of other unusual sequences in HLGAGs with important biological activity as well as provide the basis for the structural analysis of these pharamacologically important group of heparin͞heparan sulfates. H eparin-and heparan sulfate-like glycosaminoglycans (HLGAGs), present both at the cell surface and in the extracellular matrix, are a group of complex polysaccharides that are variable in length, consisting of a disaccharide repeat unit composed of glucosamine and an uronic acid (either iduronic or glucuronic acid). The high degree of complexity for HLGAGs arises not only from their polydispersity and the possibility of two different uronic acid components, but also from differential modification at four positions of the disaccharide unit. Three positions, namely, C2 of the uronic acid and the C3, C6 positions of the glucosamine can be O-sulfated. In addition, C2 of the glucosamine can be N-acetylated or N-sulfated. Together, these modifications theoretically could lead to 32 possible disaccharide units, making HLGAGs potentially more information dense than either DNA (four bases) or proteins (20 aa). This enormity of possible structural variants allows HLGAGs to be involved in a large number of diverse biological processes, including angiogenesis (1), embryogenesis (2-4), and the formation of -fibrils in Alzheimer's disease (5, 6).This structural diversity is one of the factors that has made it difficult to study sequence-function relationships for HLGAGs. Chemical synthesis of defined oligosaccharides has been used in studying the relative contribution to high-affinity antithrombin III (AT-III) binding of specific modifications in the pentasaccharide sequence (7). However, such synthetic methods are complex and have not been widely applied to the study of other biological sequences. An alternative approach involving affinity fractionation of HLGAGs with proteins of interest and subsequent characterization has provided some overall informat...