Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Hetero 4-mer - A2B2 

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

Macromolecule Content

• Total Structure Weight: 68.53 kDa 
• Atom Count: 4485 
• Modelled Residue Count: 574 
• Deposited Residue Count: 618 
• Unique protein chains: 2

2RII

Crystal Structure of Human Peroxiredoxin I in complex with Sulfiredoxin

• DOI: 10.2210/pdb2RII/pdb

• Classification: OXIDOREDUCTASE COMPLEX
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2007-10-11 Released: 2008-01-08 
• Deposition Author(s): Jonsson, T.J., Johnson, L.C., Lowther, W.T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.308 
• R-Value Work: 0.239 
• R-Value Observed: 0.242 

Literature

Structure of the sulphiredoxin-peroxiredoxin complex reveals an essential repair embrace.

Jonsson, T.J., Johnson, L.C., Lowther, W.T.

(2008) Nature 451: 98-101

• PubMed: 18172504 
• DOI: 10.1038/nature06415
• Primary Citation of Related Structures:  
  2RII


• PubMed Abstract: 
  

Typical 2-Cys peroxiredoxins (Prxs) have an important role in regulating hydrogen peroxide-mediated cell signalling. In this process, Prxs can become inactivated through the hyperoxidation of an active site Cys residue to Cys sulphinic acid. The unique repair of this moiety by sulphiredoxin (Srx) restores peroxidase activity and terminates the signal. The hyperoxidized form of Prx exists as a stable decameric structure with each active site buried. Therefore, it is unclear how Srx can access the sulphinic acid moiety. Here we present the 2.6 A crystal structure of the human Srx-PrxI complex. This complex reveals the complete unfolding of the carboxy terminus of Prx, and its unexpected packing onto the backside of Srx away from the Srx active site. Binding studies and activity analyses of site-directed mutants at this interface show that the interaction is required for repair to occur. Moreover, rearrangements in the Prx active site lead to a juxtaposition of the Prx Gly-Gly-Leu-Gly and Srx ATP-binding motifs, providing a structural basis for the first step of the catalytic mechanism. The results also suggest that the observed interactions may represent a common mode for other proteins to bind to Prxs.

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Organizational Affiliation: 

Center for Structural Biology and Department of Biochemistry, Wake Forest University School of Medicine, Medical Center Boulevard, Winston-Salem, North Carolina 27157, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Peroxiredoxin-1	A, B	199	Homo sapiens	Mutation(s): 3  Gene Names: PRDX1, PAGA, PAGB, TDPX2 EC: 1.11.1.15 (PDB Primary Data), 1.11.1.24 (UniProt)
Find proteins for Q06830 (Homo sapiens) Explore Q06830  Go to UniProtKB:  Q06830
NIH Common Fund Data Resources
PHAROS:  Q06830 GTEx:  ENSG00000117450

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Sulfiredoxin-1	X, Y	110	Homo sapiens	Mutation(s): 0  Gene Names: SRXN1, C20orf139, SRX, SRX1 EC: 1.8.98.2
Find proteins for Q9BYN0 (Homo sapiens) Explore Q9BYN0  Go to UniProtKB:  Q9BYN0
NIH Common Fund Data Resources
PHAROS:  Q9BYN0 GTEx:  ENSG00000271303

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	X, Y	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.308 
• R-Value Work: 0.239 
• R-Value Observed: 0.242 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.921	α = 90
b = 85.045	β = 90
c = 130.832	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
CBASS	data collection
d*TREK	data reduction
d*TREK	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2007-10-11 
• Released Date: 2008-01-08 
Deposition Author(s): Jonsson, T.J., Johnson, L.C., Lowther, W.T.

Revision History  

• Version 1.0: 2008-01-08
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2013-09-18
  Changes: Derived calculations