4ACJ

Crystal structure of the TLDC domain of Oxidation resistance protein 2 from zebrafish

• PDB DOI: https://doi.org/10.2210/pdb4ACJ/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Danio rerio
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2011-12-15 Released: 2012-02-08 
• Deposition Author(s): Blaise, M., B Alsarraf, H.M.A., Wong, J.E.M.M., Midtgaard, S.R., Laroche, F., Schack, L., Spaink, H., Stougaard, J., Thirup, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 0.97 Å
• R-Value Free: 0.138 
• R-Value Work: 0.119 
• R-Value Observed: 0.119 

Literature

Crystal Structure of the Tldc Domain of Oxidation Resistance Protein 2 from Zebrafish.

Blaise, M., Alsarraf, H.M., Wong, J.E., Midtgaard, S.R., Laroche, F., Schack, L., Spaink, H., Stougaard, J., Thirup, S.

(2012) Proteins 80: 1694

• PubMed: 22434723 
• DOI: https://doi.org/10.1002/prot.24050
• Primary Citation of Related Structures:  
  4ACJ


• PubMed Abstract: 
  

  The oxidation resistance proteins (OXR) help to protect eukaryotes from reactive oxygen species. The sole C-terminal domain of the OXR, named TLDc is sufficient to perform this function. However, the mechanism by which oxidation resistance occurs is poorly understood. We present here the crystal structure of the TLDc domain of the oxidation resistance protein 2 from zebrafish. The structure was determined by X-ray crystallography to atomic resolution (0.97Å) and adopts an overall globular shape. Two antiparallel β-sheets form a central β-sandwich, surrounded by two helices and two one-turn helices. The fold shares low structural similarity to known structures.

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Organizational Affiliation: 

Department of Molecular Biology and Genetics, Centre for Carbohydrate Recognition and Signalling, Aarhus University, Aarhus, Denmark. [e-mail]

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content

• Total Structure Weight: 18.9 kDa 
• Atom Count: 1,718 
• Modelled Residue Count: 167 
• Deposited Residue Count: 167 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
WU\:FB25H12 PROTEIN,	A	167	Danio rerio	Mutation(s): 0
UniProt
Find proteins for A9JTH8 (Danio rerio) Explore A9JTH8  Go to UniProtKB:  A9JTH8

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 0.97 Å
• R-Value Free: 0.138 
• R-Value Work: 0.119 
• R-Value Observed: 0.119 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 65.62	α = 90
b = 69.11	β = 90
c = 36.27	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-02-08 
Deposition Author(s): Blaise, M., B Alsarraf, H.M.A., Wong, J.E.M.M., Midtgaard, S.R., Laroche, F., Schack, L., Spaink, H., Stougaard, J., Thirup, S.

Revision History  

• Version 1.0: 2012-02-08
  Type: Initial release
  
• Version 1.1: 2012-05-23
  Changes: Other
• Version 1.2: 2018-01-17
  Changes: Advisory, Data collection