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Updated: Sep 27, 2026

Subnanometer-Resolution Structural Determination of Hemagglutinin from Cryo-Electron Tomography of Influenza Viruses
Published on: November 7, 2025
High resolution structure of an alternate form of the ferric ion binding protein from Haemophilus influenzae
Stephen R Shouldice1, Douglas R Dougan, Robert J Skene
1Department of Biological Sciences, University of Calgary, Calgary, Alberta T2N 1N4, Canada.
Abstract:
The periplasmic iron binding protein of pathogenic Gram-negative bacteria performs an essential role in iron acquisition from transferrin and other iron sources. Structural analysis of this protein from Haemophilus influenzae identified four amino acids that ligand the bound iron: His(9), Glu(57), Tyr(195), and Tyr(196). A phosphate provides an additional ligand, and the presence of a water molecule is required to complete the octahedral geometry for stable iron binding. We report the 1.14-A resolution crystal structure of the iron-loaded form of the H. influenzae periplasmic ferric ion binding protein (FbpA) mutant H9Q. This protein was produced in the periplasm of Escherichia coli and, after purification and conversion to the apo form, was iron-loaded. H9Q is able to bind ferric iron in an open conformation. A surprising finding in the present high resolution structure is the presence of EDTA located at the previously determined anion ternary binding site, where phosphate is located in the wild type holo and apo structures. EDTA contributes four of the six coordinating ligands for iron, with two Tyr residues, 195 and 196, completing the coordination. This is the first example of a metal binding protein with a bound metal.EDTA complex. The results suggest that FbpA may have the ability to bind and transport iron bound to biological chelators, in addition to bare ferric iron.
Insights
Pathogenic bacteria use periplasmic iron binding proteins (FbpA) for iron uptake. A mutant FbpA structure reveals EDTA binding, suggesting FbpA can transport iron complexed with chelators.
Area of Science:
- Microbiology
- Structural Biology
- Biochemistry
Background:
- Pathogenic Gram-negative bacteria require iron for survival.
- Periplasmic iron binding proteins (FbpA) are crucial for acquiring iron from external sources.
- The wild-type Haemophilus influenzae FbpA binds iron using specific amino acids and a phosphate ligand.
Purpose of the Study:
- To determine the high-resolution crystal structure of an iron-loaded mutant periplasmic ferric ion binding protein (FbpA) from Haemophilus influenzae.
- To investigate the iron-binding properties of the H9Q FbpA mutant.
- To explore potential alternative iron-binding mechanisms of FbpA.
Main Methods:
- Site-directed mutagenesis to create the H9Q FbpA mutant.
- Expression and purification of the FbpA mutant in Escherichia coli.
- Iron loading of the purified protein.
- High-resolution (1.14 Å) X-ray crystallography to determine the protein structure.
Main Results:
- The crystal structure of the iron-loaded H9Q FbpA mutant was determined.
- The H9Q mutant binds ferric iron in an open conformation.
- Unexpectedly, EDTA was found bound to the H9Q FbpA mutant at the anion binding site, coordinating iron along with Tyr195 and Tyr196.
Conclusions:
- This is the first reported structure of a metal-binding protein complexed with EDTA.
- The results suggest that FbpA may be capable of binding and transporting iron complexed with biological chelators, in addition to free ferric iron.
- This broadens the understanding of iron acquisition strategies in pathogenic bacteria.
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