9HRP image
Deposition Date 2024-12-18
Release Date 2025-11-05
Last Version Date 2025-11-05
Entry Detail
PDB ID:
9HRP
Title:
Structure of YIUA from Yersinia ruckeri with iron
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.32 Å
R-Value Free:
0.28
R-Value Work:
0.24
R-Value Observed:
0.24
Space Group:
P 1 21 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Periplasmic substrate-binding transport protein
Gene (Uniprot):CSF007_11785
Chain IDs:A, B, C, D
Chain Length:349
Number of Molecules:4
Biological Source:Yersinia ruckeri
Ligand Molecules
Primary Citation
Yersinia ruckeri YRB periplasmic binding protein YiuA selectively recognizes a Fe(III)-mono-catecholate siderophore.
Chem.Commun.(Camb.) ? ? ? (2025)
PMID: 41098114 DOI: 10.1039/d5cc05103g

Abstact

The marine pathogen Yersinia ruckeri synthesizes the tri-catecholate siderophore ruckerbactin, Rb, (DHB-LArg-LSer)3, to acquire iron during infection. Its biosynthetic gene cluster encodes a single periplasmic binding protein, RupB, which surprisingly does not bind Fe(III)-Rb nor the Fe(III) complexes of its hydrolysis products, the di- and mono-catecholate siderophores RbDC and RbMC, with biologically relevant affinities. Instead, the periplasmic binding protein YiuA, encoded in a different region of the chromosome, binds the 1 : 2 Fe(III) complex of the mono-catecholate RbMC, Fe(III)-(RbMC)2. YiuA is the first periplasmic binding protein (PBP) to selectively recognize a mono-catecholate siderophore, the structural basis of which was illuminated through X-ray crystallography of YiuA bound to Fe(III)-(RbMC)2.

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Primary Citation of related structures