5JCG

Structure of Human Peroxiredoxin 3 as three stacked rings


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.183 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structures of Human Peroxiredoxin 3 Suggest Self-Chaperoning Assembly that Maintains Catalytic State.

Yewdall, N.A.Venugopal, H.Desfosses, A.Abrishami, V.Yosaatmadja, Y.Hampton, M.B.Gerrard, J.A.Goldstone, D.C.Mitra, A.K.Radjainia, M.

(2016) Structure 24: 1120-1129

  • DOI: 10.1016/j.str.2016.04.013

  • PubMed Abstract: 
  • Peroxiredoxins are antioxidant proteins primarily responsible for detoxification of hydroperoxides in cells. On exposure to various cellular stresses, peroxiredoxins can acquire chaperone activity, manifested as quaternary reorganization into a high ...

    Peroxiredoxins are antioxidant proteins primarily responsible for detoxification of hydroperoxides in cells. On exposure to various cellular stresses, peroxiredoxins can acquire chaperone activity, manifested as quaternary reorganization into a high molecular weight (HMW) form. Acidification, for example, causes dodecameric rings of human peroxiredoxin 3 (HsPrx3) to stack into long helical filaments. In this work, a 4.1-Å resolution structure of low-pH-instigated helical filaments was elucidated, showing a locally unfolded active site and partially folded C terminus. A 2.8-Å crystal structure of HsPrx3 was determined at pH 8.5 under reducing conditions, wherein dodecameric rings are arranged as a short stack, with symmetry similar to low-pH filaments. In contrast to previous observations, the crystal structure displays both a fully folded active site and ordered C terminus, suggesting that the HsPrx3 HMW form maintains catalytic activity. We propose a new role for the HMW form as a self-chaperoning assembly maintaining HsPrx3 function under stress.


    Organizational Affiliation

    School of Biological Sciences, University of Auckland, Private Bag 92019, Auckland 1010, New Zealand.,Biocomputing Unit, Centro Nacional de Biotecnologia - CSIC, C/Darwin 3, 28049 Madrid, Spain.,School of Biological Sciences, University of Auckland, Private Bag 92019, Auckland 1010, New Zealand. Electronic address: d.goldstone@auckland.ac.nz.,School of Biological Sciences, University of Auckland, Private Bag 92019, Auckland 1010, New Zealand. Electronic address: mazdak.radjainia@monash.edu.,School of Biological Sciences, University of Auckland, Private Bag 92019, Auckland 1010, New Zealand. Electronic address: a.mitra@auckland.ac.nz.,School of Biological Sciences, University of Auckland, Private Bag 92019, Auckland 1010, New Zealand; MacDiarmid Institute for Advanced Materials and Nanotechnology, Victoria University, Wellington 6140, New Zealand; School of Chemical Sciences, University of Auckland, Auckland 1010, New Zealand; Callaghan Innovation Research Limited, Lower Hutt 5040, New Zealand.,School of Biological Sciences, University of Auckland, Private Bag 92019, Auckland 1010, New Zealand; Biomolecular Interaction Centre and School of Biological Sciences, University of Canterbury, Private Bag 4800, Christchurch 8140, New Zealand.,Centre for Free Radical Research, Department of Pathology, University of Otago Christchurch, Christchurch 8011, New Zealand.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Thioredoxin-dependent peroxide reductase, mitochondrial
A, B, C, D, E, F, G, H, I
201Homo sapiensMutation(s): 0 
Gene Names: PRDX3 (AOP1)
EC: 1.11.1.15
Find proteins for P30048 (Homo sapiens)
Go to Gene View: PRDX3
Go to UniProtKB:  P30048
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.183 
  • Space Group: I 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 133.188α = 90.00
b = 168.730β = 90.00
c = 221.550γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
Aimlessdata scaling
REFMACrefinement
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
RSNZNew ZealandRDF-UOA-1303

Revision History 

  • Version 1.0: 2016-05-25
    Type: Initial release
  • Version 1.1: 2016-06-15
    Type: Database references
  • Version 1.2: 2016-07-20
    Type: Database references