The transactivating function of the A/B region of mouse peroxisome proliferator-activated receptor ␣ (PPAR␣; NR1C1) was characterized. The truncated version of PPAR␣ lacking the A/B region had 60 -70% lower transactivating function than full-length PPAR␣ in both the presence and absence of the peroxisome proliferator ciprofibrate. When tethered to the yeast Gal4 DNA-binding domain, the A/B region exhibited the significant ligand-independent transactivating function, AF-1 activity. The first 44 amino acid residues were necessary for maximal transactivation, and the minimally essential region was further delimited to amino acids 15-44. This region is highly enriched with acidic residues, but mutational analyses showed that the protein structure, rather than the negative charge itself, was important for the AF-1 activity. An ␣-helical configuration was predicted for this region, and a CD spectrum analysis of the synthetic peptides showed that mutant sequences with higher AF-1 activity have higher helical contents and vice versa. The most active mutant, in which Met 31 was replaced with Leu, was ϳ5-fold more potent than the wild-type A/B region. These findings indicate that the AF-1 region of PPAR␣ is an acidic activation domain and that the helix-forming property is implicated in the transactivating function.Peroxisome proliferator-activated receptors (PPARs) 1 constitute a subfamily (NR1C, according to the unified nomenclature (1)) of nuclear hormone receptors. Since the first cloning of PPAR␣ (NR1C1) from mouse (2), three isoforms (␣,  (or ␦), and ␥) have been identified in many organisms, including human, rat, and Xenopus (for review, see Ref.3). Many studies suggest that PPAR␣ regulates the fatty acid metabolism by controlling the expression of the genes involved in fatty acid oxidation as well as lipoprotein subunits, positively or negatively (3). On the other hand, PPAR␥ (NR1C3) seems to govern more versatile physiological processes such as adipocyte differentiation (4), inflammatory response (5, 6), and maturation of macrophages into foam cells (7,8). Very recently, evidence showing the involvement of PPAR␦ (NR1C2) in embryo implantation was presented (9).PPAR recognizes direct repeat motifs consisting of two AG-GTCA or related half-sites separated by a single nucleotide (DR-1) through heterodimerization with another nuclear hormone receptor, the retinoid X receptor (NR2B) (10). PPAR recognizes the 5Ј-half-site, whereas the retinoid X receptor recognizes the 3Ј-half-site (11-14). Moreover, for optimal binding, PPAR requires an extended half-site constituted by the AGGTCA hexanucleotide motif and four extra residues on the 5Ј-side (11,13,14). This is in contrast to other nuclear receptors forming heterodimers with the retinoid X receptor, e.g. the retinoic acid receptor (NR1B), thyroid hormone receptor (NR1A), and vitamin D receptor (NR1I1) (15).Many compounds have been identified as ligands of PPAR (3). The fibrate class of peroxisome proliferators and leukotriene B 4 are relatively selective for PPAR␣, whe...