9M59 image
Deposition Date 2025-03-05
Release Date 2025-09-24
Last Version Date 2025-09-24
Entry Detail
PDB ID:
9M59
Title:
Cu/Zn-superoxide dismutase from Deinococcus radiodurans (Calcium-bound)
Biological Source:
Method Details:
Experimental Method:
Resolution:
1.90 Å
R-Value Free:
0.21
R-Value Work:
0.19
R-Value Observed:
0.19
Space Group:
P 41
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Superoxide dismutase (SodC), Cu-Zn family
Gene (Uniprot):DR_A0202
Chain IDs:A, B
Chain Length:441
Number of Molecules:2
Biological Source:Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539
Primary Citation
Cu/Zn-superoxide dismutase naturally fused with a beta-propeller lactonase in Deinococcus radiodurans.
J.Biol.Chem. 301 110499 110499 (2025)
PMID: 40684944 DOI: 10.1016/j.jbc.2025.110499

Abstact

Cu/Zn-superoxide dismutase (Cu/Zn-SOD) is an antioxidant enzyme widely present across species; however, the structural diversity and physiological roles of Cu/Zn-SOD are yet to be fully uncovered. Here, we show a unique type of Cu/Zn-SOD from Deinococcus radiodurans (DrSOD) with an additional β-propeller domain. Our structural analysis of DrSOD revealed a typical bacterial Cu/Zn-SOD domain, binding both a copper and zinc ion, alongside a six-bladed β-propeller domain coordinating a calcium ion. DrSOD was indeed expressed in D. radiodurans, but its deletion did not lead to any noticeable changes in resistance to DNA-damaging stresses, a characteristic trait of D. radiodurans. Despite this, the Cu/Zn-SOD domain retained superoxide dismutase activity, and the β-propeller domain was found to exhibit a lactonase activity specifically for hydrolyzing 2-coumaranone. Taken together, while the precise physiological role of DrSOD needs to be further investigated, our findings here reveal a unique multi-functional enzyme architecture, expanding the known structural diversity of Cu/Zn-SODs.

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