1F37 | pdb_00001f37

STRUCTURE OF A THIOREDOXIN-LIKE [2FE-2S] FERREDOXIN FROM AQUIFEX AEOLICUS

• PDB DOI: https://doi.org/10.2210/pdb1F37/pdb

• Classification: ELECTRON TRANSPORT
• Organism(s): Aquifex aeolicus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2000-05-31 Released: 2000-07-26 
• Deposition Author(s): Yeh, A.P., Chatelet, C., Soltis, S.M., Kuhn, P., Meyer, J., Rees, D.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.270 (Depositor) 
• R-Value Work: 
  0.225 (Depositor) 
• R-Value Observed: 
  0.228 (Depositor) 

Literature

Structure of a thioredoxin-like [2Fe-2S] ferredoxin from Aquifex aeolicus.

Yeh, A.P., Chatelet, C., Soltis, S.M., Kuhn, P., Meyer, J., Rees, D.C.

(2000) J Mol Biology 300: 587-595

• PubMed: 10884354 
• DOI: https://doi.org/10.1006/jmbi.2000.3871
• Primary Citation Related Structures: 
  1F37


• PubMed Abstract: 
  

  The 2.3 A resolution crystal structure of a [2Fe-2S] cluster containing ferredoxin from Aquifex aeolicus reveals a thioredoxin-like fold that is novel among iron-sulfur proteins. The [2Fe-2S] cluster is located near the surface of the protein, at a site corresponding to that of the active-site disulfide bridge in thioredoxin. The four cysteine ligands are located near the ends of two surface loops. Two of these ligands can be substituted by non-native cysteine residues introduced throughout a stretch of the polypeptide chain that forms a protruding loop extending away from the cluster. The presence of homologs of this ferredoxin as components of more complex anaerobic and aerobic electron transfer systems indicates that this is a versatile fold for biological redox processes.

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Organizational Affiliation: 
• Division of Chemistry and Chemical Engineering 147-75CH, California Institute of Technology, Pasadena, CA, 91125, USA.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 24.95 kDa 
• Atom Count: 1,782 
• Modeled Residue Count: 219 
• Deposited Residue Count: 220 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
FERREDOXIN [2FE-2S]	A, B	110	Aquifex aeolicus	Mutation(s): 0
UniProt
Find proteins for O66511 (Aquifex aeolicus (strain VF5)) Explore O66511  Go to UniProtKB:  O66511

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FES	C [auth A], E [auth B]	FE2/S2 (INORGANIC) CLUSTER Fe2 S2 NIXDOXVAJZFRNF-UHFFFAOYSA-N
GOL	D [auth A], F [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.270 (Depositor) 
• R-Value Work:  0.225 (Depositor) 
• R-Value Observed: 0.228 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 68.079	α = 90
b = 68.079	β = 90
c = 102.519	γ = 90

Software Package:

Software Name	Purpose
MLPHARE	phasing
CNS	refinement
Blu-Ice	data collection
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-07-26 
Deposition Author(s): Yeh, A.P., Chatelet, C., Soltis, S.M., Kuhn, P., Meyer, J., Rees, D.C.

Revision History  

• Version 1.0: 2000-07-26
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.3: 2024-02-07
  Changes: Data collection, Database references, Derived calculations