Human lysosomal -hexosaminidases remove terminal -glycosidically bound N-acetylhexosamine residues from a number of glycoconjugates. Three different isozymes composed of two noncovalently linked subunits ␣ and  exist: Hex A (␣), Hex B (), and Hex S (␣␣). While the role of Hex A and B for the degradation of several anionic and neutral glycoconjugates has been well established, the physiological significance of labile Hex S has remained unclear. However, the striking accumulation of anionic oligosaccharides in double knockout mice totally deficient in hexosaminidase activity but not in mice expressing Hex S (Sango, K., McDonald, M. P., Crawley, J. N., Mack, M. L., Tifft, C.J., Skop, E., Starr, C. M., Hoffmann, A., Sandhoff, K., Suzuki, K., and Proia, R. L., (1996) Nat. Genet. 14, 348 -352) prompted us to reinvestigate the substrate specificity of Hex S. To identify physiological substrates of Hex S, anionic and neutral oligosaccharides excreted in the urine of the double knockout mice were isolated and analyzed. Using ESI-MS/MS and glycosidase digestion the anionic glycans were identified as products of incomplete dermatan sulfate degradation whereas the neutral storage oligosaccharides were found to be fragments of N-glycan degradation. In vitro, recombinant Hex S was highly active on water-soluble and amphiphilic glycoconjugates including artificial substrates, sulfated GAG fragments, and the sulfated glycosphingolipid SM2. Hydrolysis of membrane-bound SM2 by the recombinant Hex S was synergistically stimulated by the GM2 activator protein and the lysosomal anionic phospholipid bis(monoacylglycero)phosphate.Lysosomal hexosaminidases (EC 3.2.1.52) release terminal -glycosidically linked N-acetylglucosamine and N-acetylgalactosamine residues from a number of glycoconjugates (1). They are composed of two subunits, ␣ and , derived from homologous genes HEXA and HEXB. Hexosaminidase A (Hex A, 1 ␣)and Hex B () were believed to be the major functional isozymes, and Hex S (␣␣) a minor labile form without significant activity (2). Several attempts to isolate pure Hex S from human tissues or cell homogenates yielded preparations with poor enzymatic activity (3-5).Each subunit possesses an active site characterized by its own substrate specificity (5). The active site of the -subunit hydrolyzes uncharged substrates, whereas the ␣-subunit, in addition, cleaves negatively charged substrates. Only the ␣-heterodimer Hex A is able to degrade ganglioside GM2 (Fig. 1B) at significant rates in the presence of the GM2 activator protein (GM2AP).A group of severe neurodegenerative storage diseases, the GM2 gangliosidoses, results from mutations in any of the genes encoding the two hexosaminidase subunits and GM2AP. TaySachs disease is caused by mutations in the HEXA gene resulting in a deficiency in Hex A and Hex S, whereas in Sandhoff disease the lack of Hex A and Hex B activity is observed due to mutations in the HEXB gene. The GM2 gangliosidoses are characterized by a massive accumulation of ganglioside GM2 and relat...