2RII

Crystal Structure of Human Peroxiredoxin I in complex with Sulfiredoxin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.308 
  • R-Value Work: 0.239 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

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

  • DOI: 10.1038/nature06415

  • 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 uniq ...

    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.


    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

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Peroxiredoxin-1
A, B
199Homo sapiensMutation(s): 3 
Gene Names: PRDX1 (PAGA, PAGB, TDPX2)
EC: 1.11.1.15
Find proteins for Q06830 (Homo sapiens)
Go to Gene View: PRDX1
Go to UniProtKB:  Q06830
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Sulfiredoxin-1
X, Y
110Homo sapiensMutation(s): 0 
Gene Names: SRXN1 (C20orf139, SRX, SRX1)
EC: 1.8.98.2
Find proteins for Q9BYN0 (Homo sapiens)
Go to Gene View: SRXN1
Go to UniProtKB:  Q9BYN0
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download SDF File 
Download CCD File 
X, Y
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.308 
  • R-Value Work: 0.239 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 54.921α = 90.00
b = 85.045β = 90.00
c = 130.832γ = 90.00
Software Package:
Software NamePurpose
CBASSdata collection
d*TREKdata scaling
PHASERphasing
d*TREKdata reduction
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

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