Very-long-chain acyl-CoA dehydrogenase (VLCAD) is a member of the family of acyl-CoA dehydrogenases (ACADs). Unlike the other ACADs, which are soluble homotetramers, VLCAD is a homodimer associated with the mitochondrial membrane. VLCAD also possesses an additional 180 residues in the C terminus that are not present in the other ACADs. We have determined the crystal structure of VLCAD complexed with myristoyl-CoA, obtained by co-crystallization, to 1.91-Å resolution. The overall fold of the N-terminal ϳ400 residues of VLCAD is similar to that of the soluble ACADs including medium-chain acyl-CoA dehydrogenase (MCAD). The novel C-terminal domain forms an ␣-helical bundle that is positioned perpendicular to the two N-terminal helical domains. The fatty acyl moiety of the bound substrate/product is deeply imbedded inside the protein; however, the adenosine pyrophosphate portion of the C14-CoA ligand is disordered because of partial hydrolysis of the thioester bond and high mobility of the CoA moiety. The location of Glu-422 with respect to the C2-C3 of the bound ligand and FAD confirms Glu-422 to be the catalytic base. In MCAD, Gln-95 and Glu-99 form the base of the substrate binding cavity. In VLCAD, these residues are glycines (Gly-175 and Gly-178), allowing the binding channel to extend for an additional 12 Å and permitting substrate acyl chain lengths as long as 24 carbons to bind. VLCAD deficiency is among the more common defects of mitochondrial -oxidation and, if left undiagnosed, can be fatal. This structure allows us to gain insight into how a variant VLCAD genotype results in a clinical phenotype.
Very-long-chain acyl-CoA dehydrogenase (VLCAD)3 is one of five acyl-CoA dehydrogenases (ACADs) that catalyze the initial, rate-limiting step of mitochondrial fatty acid -oxidation, with distinct but overlapping fatty acyl chain-length specificities (1, 2). In addition to VLCAD, which has optimal chain length specificity for fatty acyl-CoAs having 16 carbons in length, there are long-, medium-, and short-chain acyl-CoA dehydrogenases (LCAD, MCAD, and SCAD), which are most active with 14, 8, and 4 carbon substrates, respectively (3, 4). In addition, acyl-CoA dehydrogenase 9 (ACAD-9) is most active with unsaturated long-chain acyl-CoAs (5). The ACAD family also includes four members involved in amino acid metabolic pathways: isobutyryl-CoA dehydrogenase (IBD) in valine metabolism, isovaleryl-CoA dehydrogenase (IVD) in leucine metabolism, glutaryl-CoA dehydrogenase (GCAD) in lysine and tryptophan metabolism, and short-branched chain acylCoA dehydrogenase (SBCAD) in isoleucine metabolism. Fatty acyl-CoAs are oxidized to the corresponding trans-2,3-enoylCoA products with a concurrent reduction of the enzymebound FAD cofactor (6). Electron transfer flavoprotein (ETF) reoxidizes the reduced flavin and transfers reducing equivalents to the main mitochondrial respiratory chain through the enzyme ETF-ubiquinone oxidoreductase (7). Unlike other ACADs, which are soluble homotetramers with 45-kDa subunits, mature VLCAD and A...