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Active site dynamics in NADH oxidase from Thermus thermophilus studied by NMR spin relaxation

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Abstract

We have characterized the backbone dynamics of NADH oxidase from Thermus thermophilus (NOX) using a recently-developed suite of NMR experiments designed to isolate exchange broadening, together with 15N R 1, R 1ρ , and {1H}-15N steady-state NOE relaxation measurements performed at 11.7 and 18.8 T. NOX is a 54 kDa homodimeric enzyme that belongs to a family of structurally homologous flavin reductases and nitroreductases with many potential biotechnology applications. Prior studies have suggested that flexibility is involved in the catalytic mechanism of the enzyme. The active site residue W47 was previously identified as being particularly important, as its level of solvent exposure correlates with enzyme activity, and it was observed to undergo “gating” motions in computer simulations. The NMR data are consistent with these findings. Signals from W47 are dynamically broadened beyond detection and several other residues in the active site have significant R ex contributions to transverse relaxation rates. In addition, the backbone of S193, whose side chain hydroxyl proton hydrogen bonds directly with the FMN cofactor, exhibits extensive mobility on the ns–ps timescale. We hypothesize that these motions may facilitate structural rearrangements of the active site that allow NOX to accept both FMN and FAD as cofactors.

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Acknowledgments

This work was funded by grants from the Natural Sciences and Engineering Research Council (NSERC) of Canada and le Fonds Québécois de la Recherche sur la Nature et les Technologies (FQRNT). NMR experiments were recorded at the Québec/Eastern Canada High Field NMR Facility, supported by NSERC, FQRNT and McGill University. The authors thank Prof. Mathias Sprinzl (U. Bayreuth) for the generous gift of the NOX expression plasmid. This paper is dedicated to Prof. Lewis Kay on the occasion of his 50th birthday.

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  1. Department of Chemistry, McGill University, Montreal, QC, H3A 2K6, Canada

    Teresa Miletti, Patrick J. Farber & Anthony Mittermaier

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  1. Teresa Miletti
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  2. Patrick J. Farber
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Correspondence to Anthony Mittermaier.

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Miletti, T., Farber, P.J. & Mittermaier, A. Active site dynamics in NADH oxidase from Thermus thermophilus studied by NMR spin relaxation. J Biomol NMR 51, 71 (2011). https://doi.org/10.1007/s10858-011-9542-0

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