Biological Assembly 1  

 3D View: Structure | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 15169.32 
• Atom Count: 1010 
• Residue Count: 132 
• Unique protein chains: 1

1SIZ

Crystal structure of the [Fe3S4]-ferredoxin from the hyperthermophilic archaeon Pyrococcus furiosus

• DOI: 10.2210/pdb1SIZ/pdb

• Classification: ELECTRON TRANSPORT
• Organism(s): Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
• Expression System: Escherichia coli


• Deposited: 2004-03-02 Released: 2004-05-25 
• Deposition Author(s): Nielsen, M.S., Harris, P., Christensen, H.E.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free: 0.289 
• R-Value Work: 0.239 

Literature

The 1.5 A Resolution Crystal Structure of [Fe3S4]-Ferredoxin from the Hyperthermophilic Archaeon Pyrococcus furiosus

Nielsen, M.S., Harris, P., Ooi, B.L., Christensen, H.E.M.

(2004) Biochemistry 43: 5188-5194

• PubMed: 15122884 
• DOI: 10.1021/bi049942x
• Primary Citation of Related Structures:  
  1SJ1


• PubMed Abstract: 
  

The structure of [Fe(3)S(4)]-ferredoxin from the hyperthermophilic archaeon Pyrococcus furiosus has been determined to 1.5 A resolution from a crystal belonging to space group P2(1) with two molecules in the asymmetric unit. The structure has been solved with molecular replacement by use of the ferredoxin from Thermotoga maritima. The fold is similar to that of related monocluster ferredoxins and contains two double-stranded antiparallel beta-sheets and two alpha-helices. The hydrophobic interaction between Trp2 and Tyr46 is confirmed, linking the C-terminus to the longer alpha-helix. The structure contains a double-conformation disulfide bond existing in a left-handed and a right-handed spiral conformation. The crystal packing reveals a beta-sheet interaction, which supports the suggestion that P. furiosus ferredoxin is a functional dimer. The extraordinary thermostability of P. furiosus ferredoxin is further discussed.

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Organizational Affiliation: 

Department of Chemistry, Building 207, Technical University of Denmark, DK-2800 Kgs. Lyngby, Denmark.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Ferredoxin	A, C	66	Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)	Mutation(s): 0  Gene Names: fdxA
Find proteins for P29603 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Go to UniProtKB:  P29603

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
F3S	A, C	FE3-S4 CLUSTER Fe3 S4 FCXHZBQOKRZXKS-MZMDZPPWAW
3CO	A, C	COBALT (III) ION Co JAWGVVJVYSANRY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free: 0.289 
• R-Value Work: 0.239 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 47.447	α = 90.00
b = 51.637	β = 90.00
c = 54.549	γ = 90.00

Software Package:

Software Name	Purpose
MOLREP	phasing
MOSFLM	data reduction
CNS	refinement
CCP4	data scaling
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2004-03-02 
• Released Date: 2004-05-25 
• Deposition Author(s): Nielsen, M.S., Harris, P., Christensen, H.E.M.

Revision History 

• Version 1.0: 2004-05-25
  Type: Initial release
• Version 1.1: 2008-04-29
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance