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Structure paper

TitleStructural basis of iron piracy by human gut .
Journal, issue, pagesbioRxiv, Year 2025
Publish dateAug 24, 2025
AuthorsAugustinas Silale / Yung Li Soo / Hannah Mark / Rachel N Motz / Arnaud Baslé / Elizabeth M Nolan / Bert van den Berg /
PubMed AbstractIron is an essential element that can be growth-limiting in microbial communities, particularly those present within host organisms. To acquire iron, many bacteria secrete siderophores, secondary ...Iron is an essential element that can be growth-limiting in microbial communities, particularly those present within host organisms. To acquire iron, many bacteria secrete siderophores, secondary metabolites that chelate ferric iron. These iron chelates can be transported back into the cell via TonB-dependent transporters in the outer membrane, followed by intracellular liberation of the iron. Pathogenic and produce siderophores during gut infection. In response to iron starvation, the human gut symbiont upregulates an iron piracy system, XusABC, which steals iron-bound siderophores from the invading pathogens. Here, we investigated the molecular details of xenosiderophore uptake across the outer membrane by the XusAB complex. Our crystal and cryogenic electron microscopy structures explain how the XusB lipoprotein recognises iron-bound xenosiderophores and passes them on to the XusA TonB-dependent transporter. Moreover, we show that Xus homologues can transport a variety of siderophores with different iron-chelating functional groups.
External linksbioRxiv / PubMed:40894706 / PubMed Central
MethodsEM (single particle) / X-ray diffraction
Resolution1.5 - 3.32 Å
Structure data

51210

9gbc

EMDB-51210, PDB-9gbc:
Bacteroides thetaiotaomicron siderophore transporter XusA in complex with surface-exposed lipoprotein XusB
Method: EM (single particle) / Resolution: 2.7 Å

PDB-9gar:
Siderophore-binding lipoprotein XusB from Barnesiella viscericola
Method: X-RAY DIFFRACTION / Resolution: 3.2 Å

PDB-9gcy:
Xenosiderophore-binding lipoprotein XusB from Bacteroides thetaiotaomicron
Method: X-RAY DIFFRACTION / Resolution: 1.56 Å

PDB-9gcz:
XusB lipoprotein bound to ferric enterobactin
Method: X-RAY DIFFRACTION / Resolution: 1.5 Å

PDB-9hq1:
XusB lipoprotein bound to ferric salmochelin
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-9hqe:
Bacteroides fragilis xenosiderophore-binding lipoprotein XusB
Method: X-RAY DIFFRACTION / Resolution: 1.77 Å

PDB-9hqk:
Bacteroides fragilis lipoprotein XusB bound to ferrichrome
Method: X-RAY DIFFRACTION / Resolution: 3.32 Å

Chemicals

ChemComp-SO4:
SULFATE ION

ChemComp-ACT:
ACETATE ION

ChemComp-HOH:
WATER

ChemComp-CL:
Unknown entry

ChemComp-MES:
2-(N-MORPHOLINO)-ETHANESULFONIC ACID / pH buffer*YM

ChemComp-CA:
Unknown entry

ChemComp-CIT:
CITRIC ACID

ChemComp-FE:
Unknown entry

ChemComp-EB4:
N,N',N''-[(3S,7S,11S)-2,6,10-trioxo-1,5,9-trioxacyclododecane-3,7,11-triyl]tris(2,3-dihydroxybenzamide)

ChemComp-DMS:
DIMETHYL SULFOXIDE / DMSO, precipitant*YM

ChemComp-NA:
Unknown entry

PDB-1iwm:
Crystal Structure of the Outer Membrane Lipoprotein Receptor, LolB

ChemComp-PGE:
TRIETHYLENE GLYCOL

ChemComp-PEG:
DI(HYDROXYETHYL)ETHER

ChemComp-FCE:
FERRICHROME

Source
  • bacteroides thetaiotaomicron vpi-5482 (bacteria)
  • barnesiella viscericola dsm 18177 (bacteria)
  • bacteroides fragilis nctc 9343 (bacteria)
KeywordsMETAL TRANSPORT / Outer membrane / lipoprotein / siderophore / iron piracy / membrane protein complex / siderophore transport / METAL BINDING PROTEIN / xenosiderophore / Bacteroides / iron

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