Biological Assembly 1  

 3D View: Structure

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

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

Macromolecule Content

• Total Structure Weight: 50.14 kDa 
• Atom Count: 3574 
• Residue Count: 438 
• Unique protein chains: 1

1PRX

HORF6 A NOVEL HUMAN PEROXIDASE ENZYME

• DOI: 10.2210/pdb1PRX/pdb

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


• Deposited: 1998-04-03 Released: 1998-06-17 
• Deposition Author(s): Choi, H.-J., Kang, S.W., Yang, C.-H., Rhee, S.G., Ryu, S.-E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.259 
• R-Value Work: 0.191 
• R-Value Observed: 0.191 

Literature

Crystal structure of a novel human peroxidase enzyme at 2.0 A resolution.

Choi, H.J., Kang, S.W., Yang, C.H., Rhee, S.G., Ryu, S.E.

(1998) Nat Struct Biol 5: 400-406

• PubMed: 9587003 
• DOI: 10.1038/nsb0598-400
• Primary Citation of Related Structures:  
  1PRX


• PubMed Abstract: 
  

Hydrogen peroxide (H2O2) has been implicated recently as an intracellular messenger that affects cellular processes including protein phosphorylation, transcription and apoptosis. A set of novel peroxidases, named peroxiredoxins (Prx), regulate the intracellular concentration of H2O2 by reducing it in the presence of an appropriate electron donor. The crystal structure of a human Prx enzyme, hORF6, reveals that the protein contains two discrete domains and forms a dimer. The N-terminal domain has a thioredoxin fold and the C-terminal domain is used for dimerization. The active site cysteine (Cys 47), which exists as cysteine-sulfenic acid in the crystal, is located at the bottom of a relatively narrow pocket. The positively charged environment surrounding Cys 47 accounts for the peroxidase activity of the enzyme, which contains no redox cofactors.

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Organizational Affiliation: 

Division of Protein Engineering, Korea Research Institute of Bioscience and Biotechnology, KIST, Yusong, Taejon, South Korea.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HORF6	A, B	224	Homo sapiens	Mutation(s): 2  Gene Names: PRDX6, AOP2, KIAA0106 EC: 1.11.1.27 (UniProt), 3.1.1.4 (UniProt)
Find proteins for P30041 (Homo sapiens) Explore P30041  Go to UniProtKB:  P30041
NIH Common Fund Data Resources
PHAROS  P30041 GTEx  ENSG00000117592

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CSO	A,B	L-PEPTIDE LINKING	C3 H7 N O3 S		CYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.259 
• R-Value Work: 0.191 
• R-Value Observed: 0.191 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 47.85	α = 90
b = 75.17	β = 110.21
c = 63.3	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
R-AXIS	data reduction
R-AXIS	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1998-04-03 
• Released Date: 1998-06-17 
Deposition Author(s): Choi, H.-J., Kang, S.W., Yang, C.-H., Rhee, S.G., Ryu, S.-E.

Revision History 

• Version 1.0: 1998-06-17
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance