5MVO

FoxE P43212 crystal structure of Rhodopseudomonas ferrooxidans SW2 putative iron oxidase

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.67 Å
  • R-Value Free: 0.174 
  • R-Value Work: 0.174 
  • R-Value Observed: 0.174 

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Literature

Crystallization and preliminary crystallographic studies of FoxE from Rhodobacter ferrooxidans SW2, an Fe(II) oxidoreductase involved in photoferrotrophy.

Pereira, L., Saraiva, I.H., Coelho, R., Newman, D.K., Louro, R.O., Frazao, C.

(2012) Acta Crystallogr Sect F Struct Biol Cryst Commun 68: 1106-1108

  • DOI: https://doi.org/10.1107/S174430911203271X
  • Primary Citation of Related Structures:  
    5MVO

  • PubMed Abstract: 

    FoxE is a protein encoded by the foxEYZ operon of Rhodobacter ferrooxidans SW2 that is involved in Fe(II)-based anoxygenic photosynthesis (`photoferrotrophy'). It is thought to reside in the periplasm, where it stimulates light-dependent Fe(II) oxidation. It contains 259 residues, including two haem c-binding motifs. As no three-dimensional model is available and there is no structure with a similar sequence, crystals of FoxE were produced. They diffracted to 2.44 Å resolution using synchrotron radiation at the Fe edge. The phase problem was solved by SAD using SHELXC/D/E and the experimental maps confirmed the presence of two haems per molecule.

    • Organizational Affiliation: 

    Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa, Apartado 127, 2781-901 Oeiras, Portugal.


Macromolecules
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(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
FoxE
A, B, C
291Rhodobacter sp. SW2Mutation(s): 0 
Gene Names: foxE
UniProt
Find proteins for A3DTD8 (Rhodobacter sp. SW2)
Explore A3DTD8 
Go to UniProtKB:  A3DTD8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA3DTD8
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
HEC
Query on HEC
Download Ideal Coordinates CCD File 
D [auth A]
E [auth A]
H [auth B]
I [auth B]
M [auth C]
D [auth A],
E [auth A],
H [auth B],
I [auth B],
M [auth C],
N [auth C]
HEME C
C34 H34 Fe N4 O4
HXQIYSLZKNYNMH-LJNAALQVSA-N
PO4
Query on PO4
Download Ideal Coordinates CCD File 
F [auth A]
G [auth A]
J [auth B]
K [auth B]
O [auth C]
F [auth A],
G [auth A],
J [auth B],
K [auth B],
O [auth C],
P [auth C]
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
CU
Query on CU
Download Ideal Coordinates CCD File 
L [auth B],
Q [auth C]		COPPER (II) ION
Cu
JPVYNHNXODAKFH-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.67 Å
  • R-Value Free: 0.174 
  • R-Value Work: 0.174 
  • R-Value Observed: 0.174 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 116.85α = 90
b = 116.85β = 90
c = 191.13γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
FCTPortugalSFRH/BPD/84404/2012(IHS)
MOSTMICROPortugalLisboa-01-0145-FEDER-007660

Revision History  (Full details and data files)

  • Version 1.0: 2018-02-28
    Type: Initial release
  • Version 1.1: 2024-01-17
    Changes: Data collection, Database references, Derived calculations, Refinement description