8VUK | pdb_00008vuk

The crystal structure of Brucella abortus FtrB at 1.3 Angstrom resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.30 Å
  • R-Value Free: 
    0.198 (Depositor), 0.198 (DCC) 
  • R-Value Work: 
    0.179 (Depositor), 0.181 (DCC) 
  • R-Value Observed: 
    0.181 (Depositor) 

Starting Model: in silico
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wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

In Vitro Structural and Functional Studies of a Novel Cupredoxin, FtrB, from Brucella abortus 2308.

Kerkan, A.Hart, K.Martin, D.W.Pajski, J.Aidoo, B.Garcia, B.L.Roy, S.Dasgupta, S.Hematian, S.Santisteban-Veiga, A.Schaaf, N.J.Banerjee, S.

(2025) ACS Omega 10: 12653-12670

  • DOI: https://doi.org/10.1021/acsomega.5c00690
  • Primary Citation of Related Structures:  
    8VUK

  • PubMed Abstract: 

    FtrABCD is a four-component iron transporter found in several Gram-negative bacteria. Previous data confirm that FtrABCD can only utilize Fe 2+ and the inner membrane permease, FtrC, from this system, like its eukaryotic homologue, Ftr1p, is predicted to utilize the free energy released during Fe 2+ oxidation for the transport. Periplasmic FtrB from this system is coancestral with known copper oxidases, and the conserved D118 and H121 are predicted to bind to Cu 2+ , forming an active enzyme. In this work, we report structural data for recombinant wild-type and D118A and H121A mutants from Brucella abortus 2308 which confirm a β-sheet-rich structure which is distinct from known cupredoxins. Calorimetric studies on the wild-type protein show μM affinities for Cu 2+ and an Fe 2+ mimic (Mn 2+ ), which facilitate the formation of the active enzyme and the enzyme-substrate complex, respectively. In contrast, the D118A mutant failed to bind Cu 2+ . Finally, the electrochemical data reported here revealed biologically accessible reduction potentials for the Cu 2+ ion in the active enzyme which also showed a pseudozero-order rate of Fe 2+ oxidation at pH 6.5 and could oxidize Fe 2+ 3.5-times faster than its rate of autoxidation. Taken together, this report provides experimental data that support structural and functional predictions of FtrB under in vitro conditions.


  • Organizational Affiliation
    • Department of Chemistry, East Carolina University, Science and Technology Building, Room 409, Greenville, North Carolina 27858, United States.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
EfeO-type cupredoxin-like domain-containing protein90Brucella abortusMutation(s): 0 
Gene Names: BAbS19_II07770
UniProt
Find proteins for Q2YK41 (Brucella abortus (strain 2308))
Explore Q2YK41 
Go to UniProtKB:  Q2YK41
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2YK41
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.30 Å
  • R-Value Free:  0.198 (Depositor), 0.198 (DCC) 
  • R-Value Work:  0.179 (Depositor), 0.181 (DCC) 
  • R-Value Observed: 0.181 (Depositor) 
Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 25.811α = 83.41
b = 27.033β = 69.64
c = 30.821γ = 71.81
Software Package:
Software NamePurpose
PHENIXrefinement
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2025-01-22
    Type: Initial release
  • Version 1.1: 2025-08-06
    Changes: Database references