6GKB image
Deposition Date 2018-05-18
Release Date 2019-01-23
Last Version Date 2024-01-17
Entry Detail
PDB ID:
6GKB
Title:
Iron soak structure of Y40F SynFtn
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
1.90 Å
R-Value Free:
0.20
R-Value Work:
0.16
R-Value Observed:
0.16
Space Group:
F 4 3 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Ferritin
Gene (Uniprot):sync_1539
Chain IDs:A
Chain Length:178
Number of Molecules:1
Biological Source:Synechococcus sp. (strain CC9311)
Ligand Molecules
Primary Citation
Reaction of O2with a diiron protein generates a mixed-valent Fe2+/Fe3+center and peroxide.
Proc. Natl. Acad. Sci. U.S.A. 116 2058 2067 (2019)
PMID: 30659147 DOI: 10.1073/pnas.1809913116

Abstact

The gene encoding the cyanobacterial ferritin SynFtn is up-regulated in response to copper stress. Here, we show that, while SynFtn does not interact directly with copper, it is highly unusual in several ways. First, its catalytic diiron ferroxidase center is unlike those of all other characterized prokaryotic ferritins and instead resembles an animal H-chain ferritin center. Second, as demonstrated by kinetic, spectroscopic, and high-resolution X-ray crystallographic data, reaction of O2 with the di-Fe2+ center results in a direct, one-electron oxidation to a mixed-valent Fe2+/Fe3+ form. Iron-O2 chemistry of this type is currently unknown among the growing family of proteins that bind a diiron site within a four α-helical bundle in general and ferritins in particular. The mixed-valent form, which slowly oxidized to the more usual di-Fe3+ form, is an intermediate that is continually generated during mineralization. Peroxide, rather than superoxide, is shown to be the product of O2 reduction, implying that ferroxidase centers function in pairs via long-range electron transfer through the protein resulting in reduction of O2 bound at only one of the centers. We show that electron transfer is mediated by the transient formation of a radical on Tyr40, which lies ∼4 Å from the diiron center. As well as demonstrating an expansion of the iron-O2 chemistry known to occur in nature, these data are also highly relevant to the question of whether all ferritins mineralize iron via a common mechanism, providing unequivocal proof that they do not.

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