Biological Assembly 1  

Global Symmetry: Octahedral - O  (3D View)
Global Stoichiometry: Homo 24-mer - A24 

Biological assembly 1 assigned by authors and generated by PISA,PQS (software)

Macromolecule Content

• Total Structure Weight: 148.9 kDa 
• Atom Count: 10,498 
• Modelled Residue Count: 1,240 
• Deposited Residue Count: 1,248 
• Unique protein chains: 1

 1SOF

Crystal structure of the azotobacter vinelandii bacterioferritin at 2.6 A resolution

• PDB DOI: 10.2210/pdb1SOF/pdb

• Classification: ELECTRON TRANSPORT
• Organism(s): Azotobacter vinelandii
• Mutation(s): No 


• Deposited: 2004-03-14 Released: 2005-04-05 
• Deposition Author(s): Liu, H.L., Huang, J.F., Bi, R.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.246 
• R-Value Work: 0.196 
• R-Value Observed: 0.196 

Literature

2.6 A resolution crystal structure of the bacterioferritin from Azotobacter vinelandii

Liu, H.L., Zhou, H.N., Xing, W.M., Zhao, J.F., Li, S.X., Huang, J.F., Bi, R.C.

(2004) FEBS Lett 573: 93-98

• PubMed: 15327981 
• DOI: 10.1016/j.febslet.2004.07.054
• Primary Citation of Related Structures:  
  1SOF


• PubMed Abstract: 
  

The crystal structure of the bacterioferritin from Azotobacter vinelandii has been determined at 2.6 A resolution. Both the low occupancy of one iron ion in the dinuclear iron center and the deviation of its adjacent residue His130 from the center suggest migration of the iron ion from the dinuclear iron site to the inner nucleation site. The concerted movement of His130 and Glu47 may admit a dynamic gating mechanism for shift of the oxidized iron ion. Ba2+ binding to the fourfold channel implicates that the channel bears Fe2+ conductivity and selectivity to provide a route for iron access to the inner cavity during core formation.

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Organizational Affiliation: 

Institute of Biophysics, Chinese Academy of Sciences, Datun Road 15, Chaoyang District, Beijing 100101, China.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bacterioferritin	A, B, C, D, E, F, G, H	156	Azotobacter vinelandii	Mutation(s): 0  Gene Names: bfr EC: 1.16.3.1
UniProt
Find proteins for P22759 (Azotobacter vinelandii) Explore P22759  Go to UniProtKB:  P22759

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEM	CA [auth E], KA [auth G], P [auth B], T [auth C]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L
BA	L [auth A], Z [auth D]	BARIUM ION Ba XDFCIPNJCBUZJN-UHFFFAOYSA-N
FE2	AA [auth E], BA [auth E], DA [auth F], EA [auth F], HA [auth G], I [auth A], IA [auth G], J [auth A], LA [auth H], M [auth B], MA [auth H], N [auth B], Q [auth C], R [auth C], U [auth D], V [auth D]	FE (II) ION Fe CWYNVVGOOAEACU-UHFFFAOYSA-N
MG	FA [auth F], GA [auth F], JA [auth G], K [auth A], NA [auth H], O [auth B], S [auth C], W [auth D], X [auth D], Y [auth D]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.246 
• R-Value Work: 0.196 
• R-Value Observed: 0.196 
• Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 124.965	α = 90
b = 124.965	β = 90
c = 287.406	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
EPMR	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-04-05 
Deposition Author(s): Liu, H.L., Huang, J.F., Bi, R.C.

Revision History  

• Version 1.0: 2005-04-05
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance