Crystal structures of a novel open pore ferritin from the hyperthermophilic Archaeon Archaeoglobus fulgidus.

Experimental Data Snapshot

  • Resolution: 2.70 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.177 
  • R-Value Observed: 0.179 

wwPDB Validation   3D Report Full Report

This is version 1.6 of the entry. See complete history


Crystal structures of a tetrahedral open pore ferritin from the hyperthermophilic archaeon Archaeoglobus fulgidus.

Johnson, E.Cascio, D.Sawaya, M.R.Gingery, M.Schroder, I.

(2005) Structure 13: 637-648

  • DOI: https://doi.org/10.1016/j.str.2005.01.019
  • Primary Citation of Related Structures:  
    1S3Q, 1SQ3

  • PubMed Abstract: 

    Ferritins are known as important iron storage/detoxification proteins and are widely found in living organisms. This report details the 2.1 A resolution native and 2.7 A resolution iron bound structures of the ferritin from the hyperthermophilic Archaeon Archaeoglobus fulgidus, and represents the first structure of a ferritin from an archaeon, or a hyperthermophilic organism. The A. fulgidus ferritin (AfFtn) monomer has a high degree of structural similarity with archetypal ferritins from E. coli and humans, but the AfFtn quaternary structure is novel; 24 subunits assemble into a shell having tetrahedral (2-3) rather than the canonical octahedral (4-3-2) symmetry of archetypal ferritins. The difference in assembly opens four large (approximately 45 A) pores in the AfFtn shell. Two nonconservative amino acid substitutions may be critical for stabilizing the tetrahedral form.

  • Organizational Affiliation

    Department of Microbiology, Immunology, and Molecular Genetics, University of California, Los Angeles, Los Angeles, California 90095, USA. ericj@caltech.edu

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L
173Archaeoglobus fulgidus DSM 4304Mutation(s): 0 
Gene Names: FtnAF_0834
Find proteins for O29424 (Archaeoglobus fulgidus (strain ATCC 49558 / DSM 4304 / JCM 9628 / NBRC 100126 / VC-16))
Explore O29424 
Go to UniProtKB:  O29424
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO29424
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on FE

Download Ideal Coordinates CCD File 
AA [auth E]
BA [auth F]
CA [auth F]
DA [auth F]
EA [auth G]
AA [auth E],
BA [auth F],
CA [auth F],
DA [auth F],
EA [auth G],
FA [auth G],
GA [auth G],
HA [auth H],
IA [auth H],
JA [auth H],
KA [auth I],
LA [auth I],
M [auth A],
MA [auth I],
N [auth A],
NA [auth J],
O [auth A],
OA [auth J],
P [auth B],
PA [auth J],
Q [auth B],
QA [auth K],
R [auth B],
RA [auth K],
S [auth C],
SA [auth K],
T [auth C],
TA [auth L],
U [auth C],
UA [auth L],
V [auth D],
VA [auth L],
W [auth D],
X [auth D],
Y [auth E],
Z [auth E]
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
Query on MSE
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L
Experimental Data & Validation

Experimental Data

  • Resolution: 2.70 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.177 
  • R-Value Observed: 0.179 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 184.502α = 90
b = 190.243β = 90
c = 179.407γ = 90
Software Package:
Software NamePurpose
SCALEPACKdata scaling

Structure Validation

View Full Validation Report

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2005-04-12
    Type: Initial release
  • Version 1.1: 2008-04-29
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Advisory, Source and taxonomy, Version format compliance
  • Version 1.3: 2013-06-05
    Changes: Other
  • Version 1.4: 2017-10-11
    Changes: Refinement description
  • Version 1.5: 2023-08-23
    Changes: Data collection, Database references, Derived calculations, Refinement description
  • Version 1.6: 2023-11-15
    Changes: Data collection