Pantothenate kinase catalyzes a key regulatory step in coenzyme A biosynthesis, and there are four mammalian genes that encode isoforms of this enzyme. Pantothenate kinase isoform PanK3 is highly related to the previously characterized PanK1 isoform (79% identical, 91% similar), and these two almost identical proteins are expressed most highly in the same tissues. PanK1 and PanK3 had very similar molecular sizes, oligomeric form, cytoplasmic cellular location, and kinetic constants for ATP and pantothenate. However, these two PanK isoforms possessed distinct regulatory properties. PanK3 was significantly more sensitive to feedback regulation by acetyl-CoA (IC 50 ؍ 1 M) than PanK1 (IC 50 ؍ 10 M), and PanK3 was stringently regulated by long-chain acyl-CoA (IC 50 ؍ 2 M), whereas PanK1 was not. Domain swapping experiments localized the difference in the two proteins to a 48-amino-acid domain, where they are the most divergent. Consistent with these more stringent regulatory properties, metabolic labeling experiments showed that coenzyme A (CoA) levels in cells overexpressing PanK3 were lower than in cells overexpressing an equivalent amount of PanK1. Thus, the distinct regulatory properties exhibited by the family of the pantothenate kinases allowed the rate of CoA biosynthesis to be controlled by regulatory signals from CoA thioesters involved in different branches of intermediary metabolism.Pantothenate is the essential precursor for CoA, 2 which is a cofactor for a multitude of metabolic reactions including the oxidation of fatty acids, carbohydrates, pyruvate, lactate, ketone bodies, and amino acids, as well as many synthetic reactions. PanK catalyzes the first committed step and is the rate-controlling enzyme in CoA biosynthesis in bacteria (1) and mammals (2). PanK expression levels define the upper threshold of the cellular CoA content (3, 4), and PanK biochemical activity is feedback-regulated by CoA and/or CoA thioesters (3, 5-8), providing a mechanism to coordinate the rate of CoA synthesis with metabolic demand. Loss of feedback regulation by mutation at a single residue results in runaway CoA production (9). A notable exception to this rule is the PanK from Staphylococcus aureus, which lacks CoA feedback regulation (10), consistent with a role for CoA as the primary thiol in the disulfide redox system in this organism, as well as being the major acylgroup carrier (11-13). In mammals, PanK activity and/or CoA content are altered in response to metabolic state (14 -18), insulin (2), glucagon or glucocorticoids (15), fibrates (14, 19 -22), or diabetes (23, 24). CoA is found in all cellular compartments, but the highest concentrations of CoA exist in mitochondria and peroxisomes (25,26). Mitochondrial CoA is used as a cofactor in the tricarboxylic acid cycle and fatty acid -oxidation, and the concentrations of CoA and its thioesters regulate the rates of these processes (27). Peroxisomes play a major role in very long chain fatty acid -oxidation and also have high concentrations of CoA (28, 29),...