9S5D image
Deposition Date 2025-07-29
Release Date 2026-06-10
Last Version Date 2026-06-10
Entry Detail
PDB ID:
9S5D
Keywords:
Title:
diFe-Sulerythin_E53D:E126D O2-reacted
Biological Source:
Source Organism(s):
Expression System(s):
Method Details:
Experimental Method:
Resolution:
1.70 Å
R-Value Free:
0.22
R-Value Work:
0.17
R-Value Observed:
0.17
Space Group:
C 1 2 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Sulerythrin
Gene (Uniprot):ST2370
Chain IDs:A, B, C
Chain Length:145
Number of Molecules:3
Biological Source:Sulfurisphaera tokodaii str. 7
Primary Citation
O 2 Activation at an Enzymatic Diiron Site: Bridging Ligand Substitutions Alter Diferric-(Hydro)peroxo States.
Angew.Chem.Int.Ed.Engl. 65 e19180 e19180 (2026)
PMID: 41452222 DOI: 10.1002/anie.202519180

Abstact

A variety of non-heme diiron enzymes employ a conserved 2-His-4-carboxylate motif to coordinate a dinuclear Fe site and activate dioxygen for diverse types of reactions. Two of the carboxylate residues act as bridging ligands between the Fe ions. As the type and coordination geometry of the bridging ligands in the diferrous state are thought to modulate reactivity, they were used to group diiron oxygenases into three structural subclasses. Here, we use the small diiron-enzyme sulerythrin as a model to demonstrate that replacements of the bridging carboxylate amino acids allow us to decrease the distance between the two Fe ions, change the coordination of the bridging ligands from 1,3-carboxylates to 1,1-carboxylates and generate all three structural subclasses of diferrous active sites within the same protein scaffold. In addition to the known classes, we generated a coordination mode containing two 1,1-carboxylate bridges. The resulting changes in the Fe coordination also alter the nature of the diferric (hydro)peroxo intermediates formed upon reaction with O(2). Finally, we show that modulating the carboxylate bridges influences the reactivity of sulerythrin with O(2). We establish sulerythrin as a versatile platform to engineer distinct diFe centers by a few exchanges, producing various stable (hydro)peroxo intermediates for further studies.

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Primary Citation of related structures
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