1R0F

Gallium-substituted rubredoxin

• PDB DOI: https://doi.org/10.2210/pdb1R0F/pdb

• Classification: ELECTRON TRANSPORT
• Organism(s): Clostridium pasteurianum
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2003-09-22 Released: 2004-02-10 
• Deposition Author(s): Maher, M., Cross, M., Wilce, M.C.J., Guss, J.M., Wedd, A.G.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.205 
• R-Value Work: 0.156 
• R-Value Observed: 0.158 

Starting Model: experimental

Literature

Metal-substituted derivatives of the rubredoxin from Clostridium pasteurianum.

Maher, M., Cross, M., Wilce, M.C., Guss, J.M., Wedd, A.G.

(2004) Acta Crystallogr D Biol Crystallogr 60: 298-303

• PubMed: 14747706 
• DOI: https://doi.org/10.1107/S090744490302794X
• Primary Citation of Related Structures:  
  1R0F, 1R0G, 1R0H, 1R0I, 1R0J


• PubMed Abstract: 
  

  Five different metal-substituted forms of Clostridium pasteurianum rubredoxin have been prepared and crystallized. The single Fe atom present in the Fe(S-Cys)(4) site of the native form of the protein was exchanged in turn for Co, Ni, Ga, Cd and Hg. All five forms of rubredoxin crystallized in space group R3 and were isomorphous with the native protein. The Co-, Ni- and Ga-substituted proteins exhibited metal sites with geometries similar to that of the Fe form (effective D(2d) local symmetry), as did the Cd and Hg proteins, but with a significant expansion of the metal-sulfur bond lengths. A knowledge of these structures contributes to a molecular understanding of the function of this simple iron-sulfur electron-transport protein.

---

Organizational Affiliation: 

School of Molecular and Microbial Biosciences, University of Sydney, New South Wales 2006, Australia. [e-mail]

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 6.12 kDa 
• Atom Count: 454 
• Modelled Residue Count: 53 
• Deposited Residue Count: 54 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Rubredoxin	A	54	Clostridium pasteurianum	Mutation(s): 0
UniProt
Find proteins for P00268 (Clostridium pasteurianum) Explore P00268  Go to UniProtKB:  P00268

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GA	B [auth A]	GALLIUM (III) ION Ga CKHJYUSOUQDYEN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.205 
• R-Value Work: 0.156 
• R-Value Observed: 0.158 
• Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.285	α = 90
b = 64.285	β = 90
c = 32.848	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-02-10 
Deposition Author(s): Maher, M., Cross, M., Wilce, M.C.J., Guss, J.M., Wedd, A.G.

Revision History  

• Version 1.0: 2004-02-10
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-10-25
  Changes: Data collection, Database references, Derived calculations, Refinement description