Crystal structure of yeast xylose reductase in complex with a novel NADP‐DTT adduct provides insights into substrate recognition and catalysis. (12th October 2018)

• Record Type: Journal Article
• Authors: Paidimuddala, Bhaskar; Mohapatra, Samar B.; Gummadi, Sathyanarayana N.; Manoj, Narayanan
• Is Part Of: FEBS journal. Volume 285:Number 23(2018)
• Page Start: 4445
• Page End: 4464
• Publication Date: 2018-10-12
• Subjects: xylose reductase -- AKR superfamily -- Debaryomyces nepalensis -- crystal structure complex -- NADP‐DTT adduct; Biochemistry -- Periodicals; Molecular biology -- Periodicals; Pathology, Molecular -- Periodicals; 572
• DOI: 10.1111/febs.14667
• Languages: English
• ISSNs: 1742-464X

Abstract

Abstract : Aldose reductases (ARs) belonging to the aldo‐keto reductase (AKR) superfamily catalyze the conversion of carbonyl substrates into their respective alcohols. Here we report the crystal structures of the yeast Debaryomyces nepalensis xylose reductase ( Dn XR, AKR2B10) in the apo form and as a ternary complex with a novel NADP‐DTT adduct. Xylose reductase, a key enzyme in the conversion of xylose to xylitol, has several industrial applications. The enzyme displayed the highest catalytic efficiency forl ‐threose (138 ± 7 mm −1 ·s −1 ) followed byd ‐erythrose (30 ± 3 mm −1 ·s −1 ). The crystal structure of the complex reveals a covalent linkage between the C4N atom of the nicotinamide ring of the cosubstrate and the S1 sulfur atom of DTT and provides the first structural evidence for a protein mediated NADP–low‐molecular‐mass thiol adduct. We hypothesize that the formation of the adduct is facilitated by an in‐crystallo Michael addition of the DTT thiolate to the specific conformation of bound NADPH in the active site of Dn XR. The interactions between DTT, a four‐carbon sugar alcohol analog, and the enzyme are representative of a near‐cognate product ternary complex and provide significant insights into the structural basis of aldose binding and specificity and the catalytic mechanism of ARs. Database: Structural data are available in the PDB under the accession numbers5ZCI and5ZCM . Abstract : Crystal structure of the yeast Debaryomyces nepalensis xylose reductase shows a novel covalent adduct between the nicotinamide ring of NADPH and DTT (NADP‐DTT), a feature hitherto unobserved in a protein‐mediated complex. The structure of this aldo‐keto reductase (AKR) as a ternary complex with a four‐carbon sugar alcohol analog provides new insights into substrate recognition and catalysis of AKRs.