Glutaryl-CoA dehydrogenase

Structure

GCDH is a tetramer with tetrahedral symmetry, which allows it to be seen as a dimer of dimers. Its structure is very similar to other ACDs but the overall polypeptide fold of the GCDH is made up of three domains: an alpha-helical bundle amino-terminal domain, a beta-sheet domain in the middle, and another alpha-helical domain at the carboxyl terminus. The flavin adenine dinucleotide (FAD) is located at the junction between the middle beta-strand and the carboxyl terminal alpha-helix domain of one subunit and the carboxyl-terminal domain of the neighboring subunit. The most distinct difference between GCDH and other ACDs in terms of structure is the carboxyl and amino-terminal regions of the monomer and in the loop between beta-strands 4 and 5 because it is only made up of four residues, whereas other ACDs have much more. The substrate-binding pocket is filled with a string of three water molecules, which gets displaced when the substrate binds to the enzyme. The binding pocket is also smaller than some of the other ACD binding pockets because it is responsible for the chain-length specificity of GCDH for alternate substrates. The GCDH gene is mapped onto 19p13.2 and has an exon count of 15.

Function

GCDH is mainly known for the oxidative decarboxylation of glutaryl-CoA to crotonyl-CoA and carbon dioxide, which is common in the mitochondrial oxidation of lysine, tryptophan, and hydroxylysine. The way it completes this task is through a series of physical, chemical, and electron-transfer steps. It first binds glutaryl-CoA substrate to the oxidized form of the enzyme and abstracts the alpha-proton of the substrate by the Glu370 catalytic base. Hydride is then transferred from the beta-carbon of the substrate to the N(5) of the FAD, yielding the 2e−-reduced form of FAD. Thus, this allows for the decarboxylation of glutaconyl-CoA, an enzyme-bound intermediate, by breaking the Cγ-Cδ bond, resulting in formation of a dienolate anion, a proton, and CO2. The dienolate intermediate is protonated, resulting in crotonyl-CoA and a release of products from the active site. Finally, the 2e−-reduced form of FAD is oxidized to two 1e− steps by an external electron acceptor to complete the turnover.

Clinical significance

Mutations in the GCDH gene can lead to defects in the enzyme encoded by it which leads to the formation and accumulation of the metabolites glutaric acid and 3-hydroxyglutaric acid as well as glutarylcarnitine in body fluids, which essentially leads to glutaric aciduria type I, an autosomal recessive metabolic disorder. Symptoms for this disease include: macrocephaly, acute encephalitis-like crises, spasticity, dystonia, choreoathetosis, ataxia, dyskinesia and seizure and are prevalent one in every 100,000 individuals. Mutations in the carboxyl-terminal of GCDH have been most identified in patients with glutaric aciduria type I; more specifically, mutations in Ala389Val, Ala389Glu, Thr385Met, Ala377Val, and Ala377Thr all seem to be associated with the disorder because they dissociate to inactive monomers and/or dimers.

Interactions

GCDH has been seen to interact with:

• glutaryl-CoA

References

References

1. "GCDH glutaryl-CoA dehydrogenase [ Homo sapiens (human) ]".
2. (August 2004). "Crystal structures of human glutaryl-CoA dehydrogenase with and without an alternate substrate: structural bases of dehydrogenation and decarboxylation reactions". Biochemistry.
3. (September 2014). "Molecular analysis of Cypriot patients with Glutaric aciduria type I: identification of two novel mutations". Clinical Biochemistry.
4. (December 2006). "Kinetic mechanism of glutaryl-CoA dehydrogenase". Biochemistry.