6U3J image
Entry Detail
PDB ID:
6U3J
Keywords:
Title:
Structure of the 2-oxoadipate dehydrogenase DHTKD1
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2019-08-21
Release Date:
2020-07-22
Method Details:
Experimental Method:
Resolution:
2.25 Å
R-Value Free:
0.24
R-Value Work:
0.20
R-Value Observed:
0.21
Space Group:
C 1 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:2-oxoglutarate dehydrogenase E1 component DHKTD1, mitochondrial
Chain IDs:A, B
Chain Length:904
Number of Molecules:2
Biological Source:Homo sapiens
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
MLZ A LYS modified residue
Primary Citation
Inhibition and Crystal Structure of the Human DHTKD1-Thiamin Diphosphate Complex.
Acs Chem.Biol. 15 2041 2047 (2020)
PMID: 32633484 DOI: 10.1021/acschembio.0c00114

Abstact

DHTKD1 is the E1 component of the 2-oxoadipate dehydrogenase complex, which is an enzyme involved in the catabolism of (hydroxy-)lysine and tryptophan. Mutations in DHTKD1 have been associated with 2-aminoadipic and 2-oxoadipic aciduria, Charcot-Marie-Tooth disease type 2Q and eosinophilic esophagitis, but the pathophysiology of these clinically distinct disorders remains elusive. Here, we report the identification of adipoylphosphonic acid and tenatoprazole as DHTKD1 inhibitors using targeted and high throughput screening, respectively. We furthermore elucidate the DHTKD1 crystal structure with thiamin diphosphate bound at 2.25 Å. We also report the impact of 10 disease-associated missense mutations on DHTKD1. Whereas the majority of the DHTKD1 variants displayed impaired folding or reduced thermal stability in combination with absent or reduced enzyme activity, three variants showed no abnormalities. Our work provides chemical and structural tools for further understanding of the function of DHTKD1 and its role in several human pathologies.

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Primary Citation of related structures