9NXL

Crystal structure of steroid aldehyde dehydrogenase (Sad) from Caldimonas tepidiphilia

Summary for 9NXL

• Entry DOI: 10.2210/pdb9nxl/pdb
• Descriptor: Steroid aldehyde dehydrogenase, (4S)-2-METHYL-2,4-PENTANEDIOL, 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, ... (4 entities in total)
• Functional Keywords: aldehyde, dehydrogenase, steroid, aldh, aldh3, oxidoreductase
• Biological source: Caldimonas tepidiphila
• Total number of polymer chains: 2
• Total formula weight: 104121.65

Authors

Rolfe, N.,Myskiw, D.,Patton, M.T.,Forrester, T.J.B.,Kimber, M.S.,Seah, S.Y.K. (deposition date: 2025-03-25, release date: 2025-10-08)

Primary citation

Rolfe, N.,Myskiw, D.,Patton, M.T.,Forrester, T.J.B.,Kimber, M.S.,Seah, S.Y.K.
Sad from Proteobacteria is a Structurally Distinct ALDH3 Enzyme Specialized for the Oxidation of Steroidal Aldehydes.
Biochemistry, 64:3735-3744, 2025

PubMed Abstract: The steroid aldehyde dehydrogenase (Sad) from Proteobacteria is a class 3 aldehyde dehydrogenase (ALDH3) that catalyzes the oxidation of C steroid side chain aldehydes during bile acid catabolism. The 1.8 Å structure of the enzyme revealed an expanded active site that was able to accommodate bulky steroids, including bile acid intermediates and cholesterol derivatives, with minimal selectivity for ring-conformation or hydroxylation. Sad can utilize both NAD and NADP as coenzymes, likely due to a truncated N-terminus and a flexible Glu149 residue, which can avoid steric and electrostatic repulsion with the 2'-phosphate of NADP while retaining the ability to hydrogen bond to the C2'-OH of NAD. Sad was over 1000-fold more specific for steroid aldehyde substrates than for smaller molecules such as benzaldehyde. Structural comparison with the homologous benzaldehyde dehydrogenase (BADH) suggested residues that might contribute to the ability of Sad to utilize bulky steroid substrates. Replacement of these residues in an F400A/L125T BADH double-variant resulted in a ∼39-fold increase in catalytic efficiency toward steroid aldehyde compared with the wild-type enzyme. This study advances our understanding of the molecular determinants of substrate specificity within the ALDH3 family and lays the groundwork for biocatalytic applications of steroid aldehyde dehydrogenases in the production of steroid pharmaceuticals and the bioremediation of steroidal pollutants.

PubMed: 40825534
DOI: 10.1021/acs.biochem.5c00213

Experimental method

X-RAY DIFFRACTION (1.8 Å)