Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 43.90 kDa 
• Atom Count: 3568 
• Residue Count: 388 
• Unique protein chains: 1

2GPC

The crystal structure of the enzyme Fe-superoxide dismutase from Trypanosoma cruzi

• DOI: 10.2210/pdb2GPC/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Trypanosoma cruzi
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2006-04-17 Released: 2007-08-28 
• Deposition Author(s): Navarro, M.V.A.S., Garratt, R.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.198 
• R-Value Work: 0.154 
• R-Value Observed: 0.157 

Literature

Systematic structural studies of iron superoxide dismutases from human parasites and a statistical coupling analysis of metal binding specificity

Bachega, J.F., Navarro, M.V., Bleicher, L., Bortoleto-Bugs, R.K., Dive, D., Hoffmann, P., Viscogliosi, E., Garratt, R.C.

(2009) Proteins 77: 26-37

• PubMed: 19384994 
• DOI: 10.1002/prot.22412
• Primary Citation of Related Structures:  
  3ESF, 2GOJ, 2GPC


• PubMed Abstract: 
  

Superoxide dismutases (SODs) are a crucial class of enzymes in the combat against intracellular free radical damage. They eliminate superoxide radicals by converting them into hydrogen peroxide and oxygen. In spite of their very different life cycles and infection strategies, the human parasites Plasmodium falciparum, Trypanosoma cruzi and Trypanosoma brucei are known to be sensitive to oxidative stress. Thus the parasite Fe-SODs have become attractive targets for novel drug development. Here we report the crystal structures of FeSODs from the trypanosomes T. brucei at 2.0 A and T. cruzi at 1.9 A resolution, and that from P. falciparum at a higher resolution (2.0 A) to that previously reported. The homodimeric enzymes are compared to the related human MnSOD with particular attention to structural aspects which are relevant for drug design. Although the structures possess a very similar overall fold, differences between the enzymes at the entrance to the channel which leads to the active site could be identified. These lead to a slightly broader and more positively charged cavity in the parasite enzymes. Furthermore, a statistical coupling analysis (SCA) for the whole Fe/MnSOD family reveals different patterns of residue coupling for Mn and Fe SODs, as well as for the dimeric and tetrameric states. In both cases, the statistically coupled residues lie adjacent to the conserved core surrounding the metal center and may be expected to be responsible for its fine tuning, leading to metal ion specificity.

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Organizational Affiliation: 

Institute of Physics of São Carlos, University of São Paulo, CEP 13560-970, São Carlos, SP, Brazil.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
iron superoxide dismutase	A, B	194	Trypanosoma cruzi	Mutation(s): 0  EC: 1.15.1.1
Find proteins for Q4DI29 (Trypanosoma cruzi (strain CL Brener)) Explore Q4DI29  Go to UniProtKB:  Q4DI29

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FE2	A, B	FE (II) ION Fe CWYNVVGOOAEACU-UHFFFAOYSA-N
MG	A	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
OCS	A,B	L-PEPTIDE LINKING	C3 H7 N O5 S		CYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.198 
• R-Value Work: 0.154 
• R-Value Observed: 0.157 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 109.626	α = 90
b = 38.985	β = 105.85
c = 91.073	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2006-04-17 
• Released Date: 2007-08-28 
Deposition Author(s): Navarro, M.V.A.S., Garratt, R.C.

Revision History 

• Version 1.0: 2007-08-28
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance