Protein dynamics affect O2-stability of Group B -hydrogenase from Thermosediminibacter oceani

Ghosh, S.; Das, C. K.; Uddin, S.; Stripp, S. T.; Engelbrechta, V.; Winkler, M.; Leimkuehler, S.; Duan, J.; Schaefer, L.; Happe, T.

doi:10.1101/2025.03.17.643706

bioRxiv · 10.1101/2025.03.17.643706

Protein dynamics affect O2-stability of Group B -hydrogenase from Thermosediminibacter oceani

Ghosh, S.·Das, C. K.·Uddin, S.·Stripp, S. T.·Engelbrechta, V.·Winkler, M.·Leimkuehler, S.·Duan, J.·Schaefer, L.·Happe, T.

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Abstract

In the pursuit of sustainable green energy generation, [FeFe]-hydrogenases have attracted significant attention due to their ability to catalyze hydrogen production. However, the sensitivity of these enzymes to O2 is a major obstacle for their application as biocatalysts in energy conversion technologies. In the search for an O2-stable [FeFe]-hydrogenase, we identified the hydrogenase ToHydA from Thermosediminibacter oceani that belongs to the rarely characterized Group B (M2a) [FeFe]-hydrogenases. Our findings demonstrate that ToHydA exhibits remarkable O2-stability, even under prolonged O2 exposure. By characterizing site-directed mutagenesis variants, we found that the highly conserved proton-transporting cysteine protects H-cluster from O2-induced degradation by forming Hinact state. The additional cysteine residue in the TSCCCP motif of ToHydA, a feature unique to Group B (M2a) [FeFe]-hydrogenases, enhances the flexibility of that motif and facilitates the formation of the Hinact state. Moreover, ToHydA possesses unique features, including the formation of an unusual Hinact resting state that distinguishes the enzyme from other [FeFe]-hydrogenases. Our atomistic molecular dynamics simulations reveal a previously unrecognized cluster of hydrophobic residues centered around the proton-transporting cysteine-bearing loop. This structural feature appears to be a common molecular characteristic in hydrogenases that form the O2-protected Hinact state. By exploiting these molecular features of ToHydA, future research can aim to rationally design hydrogenases that combine high catalytic activity with enhanced O2 stability, to develop more efficient and durable catalysts. Table of Contents Figure O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=153 SRC="FIGDIR/small/643706v1_ufig1.gif" ALT="Figure 1"> View larger version (61K): org.highwire.dtl.DTLVardef@96b4aorg.highwire.dtl.DTLVardef@62f367org.highwire.dtl.DTLVardef@59f170org.highwire.dtl.DTLVardef@fa2fd7_HPS_FORMAT_FIGEXP M_FIG C_FIG

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Ghosh, S., Das, C. K., Uddin, S., Stripp, S. T., Engelbrechta, V., Winkler, M., Leimkuehler, S., Duan, J., Schaefer, L., Happe, T.. 2025-03-17. Protein dynamics affect O2-stability of Group B -hydrogenase from Thermosediminibacter oceani. https://doi.org/10.1101/2025.03.17.643706

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