9IF3

Structure of YIUA from Yersinia ruckeri with Iron and DHB-L-Arg-L-Ser

This is a non-PDB format compatible entry.

Summary for 9IF3

• Entry DOI: 10.2210/pdb9if3/pdb
• Related: 9hrj 9hrp 9ht5
• Descriptor: Periplasmic substrate-binding transport protein, FE (III) ION, (2~{S})-2-[[(2~{S})-2-[[2,3-bis(oxidanyl)phenyl]carbonylamino]-5-carbamimidamido-pentanoyl]amino]-3-oxidanyl-propanoic acid, ... (5 entities in total)
• Functional Keywords: ruckerbactin, yersinia, siderophore, metal binding protein
• Biological source: Yersinia ruckeri
• Total number of polymer chains: 8
• Total formula weight: 314688.71

Authors

Thompson, S.,Thomsen, E.,Duhme-Klair, A.,Butler, A.,Grogan, G. (deposition date: 2025-02-17, release date: 2025-11-05, Last modification date: 2025-11-19)

Primary citation

Thomsen, E.,Thompson, S.,Stow, P.R.,Cukor, M.,Grogan, G.,Duhme-Klair, A.K.,Butler, A.
Yersinia ruckeri YRB periplasmic binding protein YiuA selectively recognizes a Fe(III)-mono-catecholate siderophore.
Chem.Commun.(Camb.), 61:17653-17656, 2025

PubMed Abstract: The marine pathogen synthesizes the tri-catecholate siderophore ruckerbactin, Rb, (DHB-Arg-Ser), 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 Rb and Rb, 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 Rb, Fe(III)-(Rb). 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)-(Rb).

PubMed: 41098114
DOI: 10.1039/d5cc05103g

Experimental method

X-RAY DIFFRACTION (2.45 Å)