Structural and electronic properties of the active site of [ZnFe] SulE.

Autor: Moubarak S; Technische Universität Berlin, Institut für Chemie, Berlin, Germany., Rippers Y; Freie Universität Berlin, Fachbereich Physik, Berlin, Germany., Elghobashi-Meinhardt N; Technische Universität Berlin, Institut für Chemie, Berlin, Germany., Mroginski MA; Technische Universität Berlin, Institut für Chemie, Berlin, Germany.
Jazyk: angličtina
Zdroj: Frontiers in molecular biosciences [Front Mol Biosci] 2022 Oct 10; Vol. 9, pp. 945415. Date of Electronic Publication: 2022 Oct 10 (Print Publication: 2022).
DOI: 10.3389/fmolb.2022.945415
Abstrakt: The function of the recently isolated sulerythrin (SulE) has been investigated using a combination of structural and electronic analyses based on quantum mechanical calculations. In the SulE structure of Fushinobu et al. (2003), isolated from a strictly aerobic archaeon, Sulfolobus tokadaii , a dioxygen-containing species was tentatively included at the active site during crystallographic refinement although the substrate specificity of SulE remains unclear. Studies have suggested that a structurally related enzyme, rubrerythrin, functions as a hydrogen peroxide reductase. Since SulE is a truncated version of rubrerythrin, the enzymes are hypothesized to function similarly. Hence, using available X-ray crystallography data (1.7 Å), we constructed various models of SulE containing a ZnII-Fe active site, differing in the nature of the substrate specificity (O 2 , H 2 O 2 ), the oxidation level and the spin state of the iron ion, and the protonation states of the coordinating glutamate residues. Also, the substrate H 2 O 2 is modeled in two possible configurations, differing in the orientation of the hydrogen atoms. Overall, the optimized geometries with an O 2 substrate do not show good agreement with the experimentally resolved geometry. In contrast, excellent agreement between crystal structure arrangement and optimized geometries is achieved considering a H 2 O 2 substrate and FeII in both spin states, when Glu92 is protonated. These results suggest that the dioxo species detected at the [ZnFe] active site of sulerythrin is H 2 O 2 , rather than an O 2 molecule in agreement with experimental data indicating that only the diferrous oxidation state of the dimetal site in rubrerythrin reacts rapidly with H 2 O 2 . Based on our computations, we proposed a possible reaction pathway for substrate binding at the ZnFeII site of SulE with a H 2 O 2 substrate. In this reaction pathway, Fe or another electron donor, such as NAD(P)H, catalyzes the reduction of H 2 O 2 to water at the zinc-iron site.
Competing Interests: The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
(Copyright © 2022 Moubarak, Rippers, Elghobashi-Meinhardt and Mroginski.)
Databáze: MEDLINE
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