6G1B

Corynebacterium glutamicum OxyR, oxidized form

Summary for 6G1B

• Entry DOI: 10.2210/pdb6g1b/pdb
• Descriptor: Hydrogen peroxide-inducible genes activator, NICKEL (II) ION, FORMIC ACID, ... (8 entities in total)
• Functional Keywords: hydrogen peroxide, redox, transcription factor, lysr, transcription
• Biological source: Corynebacterium glutamicum (Brevibacterium saccharolyticum); More
• Total number of polymer chains: 2
• Total formula weight: 70616.01

Authors

Young, D.R.,Pedre, B.P.,Messens, J.M. (deposition date: 2018-03-21, release date: 2018-12-05, Last modification date: 2025-04-09)

Primary citation

Pedre, B.,Young, D.,Charlier, D.,Mourenza, A.,Rosado, L.A.,Marcos-Pascual, L.,Wahni, K.,Martens, E.,G de la Rubia, A.,Belousov, V.V.,Mateos, L.M.,Messens, J.
Structural snapshots of OxyR reveal the peroxidatic mechanism of H2O2sensing.
Proc. Natl. Acad. Sci. U.S.A., 115:E11623-E11632, 2018

PubMed Abstract: Hydrogen peroxide (HO) is a strong oxidant capable of oxidizing cysteinyl thiolates, yet only a few cysteine-containing proteins have exceptional reactivity toward HO One such example is the prokaryotic transcription factor OxyR, which controls the antioxidant response in bacteria, and which specifically and rapidly reduces HO In this study, we present crystallographic evidence for the HO-sensing mechanism and HO-dependent structural transition of OxyR by capturing the reduced and HO-bound structures of a serine mutant of the peroxidatic cysteine, and the full-length crystal structure of disulfide-bonded oxidized OxyR. In the HO-bound structure, we pinpoint the key residues for the peroxidatic reduction of HO, and relate this to mutational assays showing that the conserved active-site residues T107 and R278 are critical for effective HO reduction. Furthermore, we propose an allosteric mode of structural change, whereby a localized conformational change arising from HO-induced intramolecular disulfide formation drives a structural shift at the dimerization interface of OxyR, leading to overall changes in quaternary structure and an altered DNA-binding topology and affinity at the catalase promoter region. This study provides molecular insights into the overall OxyR transcription mechanism regulated by HO.

PubMed: 30463959
DOI: 10.1073/pnas.1807954115

Experimental method

X-RAY DIFFRACTION (2.28 Å)