Biology:Glutaryl-CoA dehydrogenase
 Generic protein structure example |
| glutaryl-CoA dehydrogenase (decarboxylating) | |||||||||
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| Identifiers | |||||||||
| EC number | 1.3.8.6 | ||||||||
| CAS number | 37255-38-2 | ||||||||
| Databases | |||||||||
| IntEnz | IntEnz view | ||||||||
| BRENDA | BRENDA entry | ||||||||
| ExPASy | NiceZyme view | ||||||||
| KEGG | KEGG entry | ||||||||
| MetaCyc | metabolic pathway | ||||||||
| PRIAM | profile | ||||||||
| PDB structures | RCSB PDB PDBe PDBsum | ||||||||
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Glutaryl-CoA dehydrogenase (GCDH) is an enzyme encoded by the GCDH gene on chromosome 19. The protein belongs to the acyl-CoA dehydrogenase family (ACD). It catalyzes the oxidative decarboxylation of glutaryl-CoA to crotonyl-CoA and carbon dioxide in the degradative pathway of L-lysine, L-hydroxylysine, and L-tryptophan metabolism. It uses electron transfer flavoprotein as its electron acceptor. The enzyme exists in the mitochondrial matrix as a homotetramer of 45-kD subunits. Mutations in this gene result in the metabolic disorder glutaric aciduria type 1, which is also known as glutaric acidemia type I. Alternative splicing of this gene results in multiple transcript variants.[1]
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.[2] The GCDH gene is mapped onto 19p13.2 and has an exon count of 15.[3]
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.[4]
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.[3] 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.[2]
Interactions
GCDH has been seen to interact with:
References
- ↑ "GCDH glutaryl-CoA dehydrogenase [ Homo sapiens (human) "]. https://www.ncbi.nlm.nih.gov/gene/2639.
- ↑ 2.0 2.1 "Crystal structures of human glutaryl-CoA dehydrogenase with and without an alternate substrate: structural bases of dehydrogenation and decarboxylation reactions". Biochemistry 43 (30): 9674–84. August 2004. doi:10.1021/bi049290c. PMID 15274622.
- ↑ 3.0 3.1 "Molecular analysis of Cypriot patients with Glutaric aciduria type I: identification of two novel mutations". Clinical Biochemistry 47 (13–14): 1300–5. September 2014. doi:10.1016/j.clinbiochem.2014.06.017. PMID 24973495.
- ↑ "Kinetic mechanism of glutaryl-CoA dehydrogenase". Biochemistry 45 (51): 15853–61. December 2006. doi:10.1021/bi0609016. PMID 17176108.
External links
- Glutaryl-CoA+dehydrogenase at the US National Library of Medicine Medical Subject Headings (MeSH)
- PDBe-KB provides an overview of all the structure information available in the PDB for Human Glutaryl-CoA dehydrogenase, mitochondrial
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