5UCX

Structure of S78C Human Peroxiredoxin 3 as three stacked rings


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.194 
  • R-Value Observed: 0.196 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Quaternary structure influences the peroxidase activity of peroxiredoxin 3.

Yewdall, N.A.Peskin, A.V.Hampton, M.B.Goldstone, D.C.Pearce, F.G.Gerrard, J.A.

(2018) Biochem Biophys Res Commun 497: 558-563

  • DOI: https://doi.org/10.1016/j.bbrc.2018.02.093
  • Primary Citation of Related Structures:  
    5UCX

  • PubMed Abstract: 

    Peroxiredoxins are abundant peroxidase enzymes that are key regulators of the cellular redox environment. A major subgroup of these proteins, the typical 2-Cys peroxiredoxins, can switch between dimers and decameric or dodecameric rings, during the catalytic cycle. The necessity of this change in quaternary structure for function as a peroxidase is not fully understood. In order to explore this, human peroxiredoxin 3 (Prx3) protein was engineered to form both obligate dimers (S75E Prx3) and stabilised dodecameric rings (S78C Prx3), uncoupling structural transformations from the catalytic cycle. The obligate dimer, S75E Prx3, retained catalytic activity towards hydrogen peroxide, albeit significantly lower than the wildtype and S78C proteins, suggesting an evolutionary advantage of having higher order self-assemblies.


  • Organizational Affiliation

    School of Biological Sciences, University of Auckland, Auckland 1010, New Zealand; Biomolecular Interaction Centre and School of Biological Sciences, University of Canterbury, Christchurch 8140, New Zealand. Electronic address: n.a.yewdall@tue.nl.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Thioredoxin-dependent peroxide reductase, mitochondrial
A, B, C, D, E
A, B, C, D, E, F, G, H, I
201Homo sapiensMutation(s): 1 
Gene Names: PRDX3AOP1
EC: 1.11.1.15
UniProt & NIH Common Fund Data Resources
Find proteins for P30048 (Homo sapiens)
Explore P30048 
Go to UniProtKB:  P30048
PHAROS:  P30048
GTEx:  ENSG00000165672 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP30048
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.194 
  • R-Value Observed: 0.196 
  • Space Group: I 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 133.449α = 90
b = 167.59β = 90
c = 221.52γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata collection
Aimlessdata scaling
PDB_EXTRACTdata extraction
MOSFLMdata reduction
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Army Research OfficeUnited States--

Revision History  (Full details and data files)

  • Version 1.0: 2018-01-10
    Type: Initial release
  • Version 1.1: 2018-02-21
    Changes: Database references
  • Version 1.2: 2018-02-28
    Changes: Database references
  • Version 1.3: 2018-03-14
    Changes: Database references
  • Version 1.4: 2024-03-06
    Changes: Data collection, Database references