9HI3 | pdb_00009hi3

C-terminal domain of pectobacterial FusB in complex with spinach ferredoxin 1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 
    0.205 (Depositor), 0.214 (DCC) 
  • R-Value Work: 
    0.159 (Depositor), 0.171 (DCC) 
  • R-Value Observed: 
    0.161 (Depositor) 

Starting Models: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 9HI3

This is version 1.2 of the entry. See complete history

Literature

Receptor-substrate competition for the TonB homologue FusB suggests a model for ferredoxin import.

Wojnowska, M.Flores, V.Yelland, T.Fisher, S.R.Bogucka, A.Stott, K.Walker, D.

(2026) J Biological Chem : 113121-113121

  • DOI: https://doi.org/10.1016/j.jbc.2026.113121
  • Primary Citation Related Structures: 
    9HI3

  • PubMed Abstract: 

    TonB-dependent uptake systems of Gram-negative bacterial pathogens constitute prominent virulence factors, allowing nutrients - primarily siderophore-bound iron - to cross the highly impermeable outer membrane (OM). Remarkably, the ferredoxin uptake system (Fus) of certain soft rot plant pathogens imports an entire host protein into the periplasm and extracts its bound iron for growth. The inner membrane protein FusB, a TonB homologue, plays two roles in facilitating import. First, like other TonBs, it remodels the globular plug domain obstructing the lumen of the OM receptor FusA to allow ferredoxin passage. Unusually for a TonB protein, FusB then interacts directly with the FusA-bound ferredoxin substrate to facilitate its transport into the periplasm. Here we describe structures of the FusB homodimer as well as the FusB-ferredoxin complex and, using biophysical, biochemical and mutagenesis approaches, we determine the key features of the binding interfaces formed by FusB with FusA and ferredoxin. The C-terminal domain of FusB (FusB-CTD) exists in a monomer-dimer equilibrium in vitro, with the homodimer stabilised by an intermolecular R241-D322 salt bridge. The "FusB-box" of FusA interacts with monomeric FusB-CTD, and FusA D53 outcompetes FusB D322 to bind R241. Upon ferredoxin binding, FusB-CTD undergoes a structural rearrangement, expanding its β-sheet from three to four strands. In agreement with the proposed sequence of events, ferredoxin binding displaces FusA from FusB with R241 forming an intramolecular salt bridge with D322 to stabilise the newly formed β-hairpin of FusB. We propose a mechanistic model for ferredoxin import where FusB R241 acts as a molecular switch.


  • Organizational Affiliation
    • Department of Biochemistry, University of Cambridge, CB2 1GA Cambridge, United Kingdom. Electronic address: mw915@cam.ac.uk.

Macromolecule Content 

  • Total Structure Weight: 21.66 kDa 
  • Atom Count: 1,777 
  • Modeled Residue Count: 198 
  • Deposited Residue Count: 198 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Protein TonB,Ferredoxin-1, chloroplastic198Pectobacterium carotovorumMutation(s): 0 
Gene Names: ECA0877PETF
UniProt
Find proteins for P00221 (Spinacia oleracea)
Explore P00221 
Go to UniProtKB:  P00221
Find proteins for Q6D8U5 (Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672))
Explore Q6D8U5 
Go to UniProtKB:  Q6D8U5
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsQ6D8U5P00221
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free:  0.205 (Depositor), 0.214 (DCC) 
  • R-Value Work:  0.159 (Depositor), 0.171 (DCC) 
  • R-Value Observed: 0.161 (Depositor) 
Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 66.678α = 90
b = 67.446β = 90
c = 85.969γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
xia2data reduction
xia2data scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
University of CambridgeUnited Kingdom--

Revision History  (Full details and data files)

  • Version 1.0: 2025-04-23
    Type: Initial release
  • Version 1.1: 2025-11-05
    Changes: Database references
  • Version 1.2: 2026-05-27
    Changes: Database references