A novel spermatogenesis associated factor (SPAF) was found to be aberrantly expressed at the malignant conversion stage in a clonal epidermal model of chemical carcinogenesis. Sequence analysis revealed two ATPase modules, classifying this gene as a new member of the AAA-protein family (ATPase associated with diverse activities). Immunohistochemical staining of mouse testis sections with SPAE antibody localized expression to spermatogonia and early spermatocytes in the basal compartment of the seminiferous tubules, Northern and Western analysis of SPAE expression in testes of mice at different developmental stages confirmed its expression at early stages of spermatogenesis, In view of mitochondrial-localization-like signal, sequence similarities to membrane-associated proteins, ATP binding properties, and intracellular expression patterns in testis, we speculate that SPAE protein may be involved in morphological and functional mitochondrial transformations during spermatogenesis, Ectopic expression of the SPAE gene in malignant epidermal cells may signify adoption of an early germ cell-like phenotype advantageous in malignant conversion.