8GEX

Crystal structure of the ferric enterobactin transporter (XusB) from Bacteroides thetaiotaomicron

  • Classification: TRANSPORT PROTEIN
  • Organism(s): Bacteroides thetaiotaomicron
  • Expression System: Escherichia coli
  • Mutation(s): No 

  • Deposited: 2023-03-07 Released: 2023-08-02 
  • Deposition Author(s): Perera, Y.R., Chazin, W.J.
  • Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.55 Å
  • R-Value Free: 
    0.247 (Depositor), 0.250 (DCC) 
  • R-Value Work: 
    0.224 (Depositor), 0.230 (DCC) 
  • R-Value Observed: 
    0.225 (Depositor) 

Starting Model: in silico
View more details

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Iron acquisition by a commensal bacterium modifies host nutritional immunity during Salmonella infection.

Spiga, L.Fansler, R.T.Perera, Y.R.Shealy, N.G.Munneke, M.J.David, H.E.Torres, T.P.Lemoff, A.Ran, X.Richardson, K.L.Pudlo, N.Martens, E.C.Folta-Stogniew, E.Yang, Z.J.Skaar, E.P.Byndloss, M.X.Chazin, W.J.Zhu, W.

(2023) Cell Host Microbe 31: 1639-1654.e10

  • DOI: https://doi.org/10.1016/j.chom.2023.08.018
  • Primary Citation of Related Structures:  
    8GEX

  • PubMed Abstract: 

    During intestinal inflammation, host nutritional immunity starves microbes of essential micronutrients, such as iron. Pathogens scavenge iron using siderophores, including enterobactin; however, this strategy is counteracted by host protein lipocalin-2, which sequesters iron-laden enterobactin. Although this iron competition occurs in the presence of gut bacteria, the roles of commensals in nutritional immunity involving iron remain unexplored. Here, we report that the gut commensal Bacteroides thetaiotaomicron acquires iron and sustains its resilience in the inflamed gut by utilizing siderophores produced by other bacteria, including Salmonella, via a secreted siderophore-binding lipoprotein XusB. Notably, XusB-bound enterobactin is less accessible to host sequestration by lipocalin-2 but can be "re-acquired" by Salmonella, allowing the pathogen to evade nutritional immunity. Because the host and pathogen have been the focus of studies of nutritional immunity, this work adds commensal iron metabolism as a previously unrecognized mechanism modulating the host-pathogen interactions and nutritional immunity.


  • Organizational Affiliation

    Department of Pathology, Microbiology, and Immunology, Vanderbilt University Medical Center, Nashville, TN 37232, USA; Vanderbilt Institute for Infection, Immunology, and Inflammation, Vanderbilt University Medical Center, Nashville, TN 37232, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
DUF4374 domain-containing protein
A, B, C, D, E
424Bacteroides thetaiotaomicronMutation(s): 0 
Gene Names: Btheta7330_00980DW780_15885GAN91_09105GAO00_22735GAO51_09325
UniProt
Find proteins for A0A0P0ENH6 (Bacteroides thetaiotaomicron)
Explore A0A0P0ENH6 
Go to UniProtKB:  A0A0P0ENH6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0P0ENH6
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.55 Å
  • R-Value Free:  0.247 (Depositor), 0.250 (DCC) 
  • R-Value Work:  0.224 (Depositor), 0.230 (DCC) 
  • R-Value Observed: 0.225 (Depositor) 
Space Group: P 31 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 174.193α = 90
b = 174.193β = 90
c = 294.28γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
Cootmodel building
HKL-2000data scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR35GM147470
National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)United States#1R01DK134692-01

Revision History  (Full details and data files)

  • Version 1.0: 2023-08-02
    Type: Initial release
  • Version 1.1: 2024-05-22
    Changes: Data collection
  • Version 1.2: 2024-08-14
    Changes: Database references