3W5J

Crystal structure of GDP-bound NfeoB from Gallionella capsiferriformans


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.932 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.191 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structure of an atypical FeoB G-domain reveals a putative domain-swapped dimer.

Deshpande, C.N.McGrath, A.P.Font, J.Guilfoyle, A.P.Maher, M.J.Jormakka, M.

(2013) Acta Crystallogr.,Sect.F 69: 399-404

  • DOI: 10.1107/S1744309113005939
  • Primary Citation of Related Structures:  3W5I

  • PubMed Abstract: 
  • FeoB is a transmembrane protein involved in ferrous iron uptake in prokaryotic organisms. FeoB comprises a cytoplasmic soluble domain termed NFeoB and a C-terminal polytopic transmembrane domain. Recent structures of NFeoB have revealed two structura ...

    FeoB is a transmembrane protein involved in ferrous iron uptake in prokaryotic organisms. FeoB comprises a cytoplasmic soluble domain termed NFeoB and a C-terminal polytopic transmembrane domain. Recent structures of NFeoB have revealed two structural subdomains: a canonical GTPase domain and a five-helix helical domain. The GTPase domain hydrolyses GTP to GDP through a well characterized mechanism, a process which is required for Fe(2+) transport. In contrast, the precise role of the helical domain has not yet been fully determined. Here, the structure of the cytoplasmic domain of FeoB from Gallionella capsiferriformans is reported. Unlike recent structures of NFeoB, the G. capsiferriformans NFeoB structure is highly unusual in that it does not contain a helical domain. The crystal structures of both apo and GDP-bound protein forms a domain-swapped dimer.


    Organizational Affiliation

    Structural Biology Program, Centenary Institute, Sydney, NSW 2042, Australia.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Ferrous iron transport protein B
A, B
204Gallionella capsiferriformans (strain ES-2)N/A
Find proteins for D9SIP4 (Gallionella capsiferriformans (strain ES-2))
Go to UniProtKB:  D9SIP4
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GDP
Query on GDP

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Download CCD File 
A
GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
 Ligand Interaction
SO4
Query on SO4

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Download CCD File 
B
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
GOL
Query on GOL

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Download CCD File 
A
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.932 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.191 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 45.760α = 90.00
b = 84.040β = 90.00
c = 95.450γ = 90.00
Software Package:
Software NamePurpose
SCALAdata scaling
Blu-Icedata collection
REFMACrefinement
PHASERphasing
MOSFLMdata reduction
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-04-24
    Type: Initial release