4WFU

Bovine allergen Bos d 2 in the trigonal space group P3221.

• PDB DOI: https://doi.org/10.2210/pdb4WFU/pdb

• Classification: ALLERGEN
• Organism(s): Bos taurus
• Expression System: Komagataella pastoris
• Mutation(s): No 


• Deposited: 2014-09-17 Released: 2015-09-16 
• Deposition Author(s): Niemi, M.H., Rouvinen, J.
• Funding Organization(s): Academy of Finland

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 0.232 
• R-Value Work: 0.211 
• R-Value Observed: 0.212 

Literature

Dimerization of lipocalin allergens.

Niemi, M.H., Rytkonen-Nissinen, M., Miettinen, I., Janis, J., Virtanen, T., Rouvinen, J.

(2015) Sci Rep 5: 13841-13841

• PubMed: 26346541 
• DOI: https://doi.org/10.1038/srep13841
• Primary Citation of Related Structures:  
  4WFU, 4WFV


• PubMed Abstract: 
  

  Lipocalins are one of the most important groups of inhalant animal allergens. The analysis of structural features of these proteins is important to get insights into their allergenicity. We have determined two different dimeric crystal structures for bovine dander lipocalin Bos d 2, which was earlier described as a monomeric allergen. The crystal structure analysis of all other determined lipocalin allergens also revealed oligomeric structures which broadly utilize inherent structural features of the β-sheet in dimer formation. According to the moderate size of monomer-monomer interfaces, most of these dimers would be transient in solution. Native mass spectrometry was employed to characterize quantitatively transient dimerization of two lipocalin allergens, Bos d 2 and Bos d 5, in solution.

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Organizational Affiliation: 

Department of Chemistry and Biocenter Kuopio, University of Eastern Finland, PO BOX 111, 80101 Joensuu, Finland.

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: 17.87 kDa 
• Atom Count: 1,338 
• Modelled Residue Count: 151 
• Deposited Residue Count: 156 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Allergen Bos d 2	A	156	Bos taurus	Mutation(s): 0
UniProt
Find proteins for Q28133 (Bos taurus) Explore Q28133  Go to UniProtKB:  Q28133

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 0.232 
• R-Value Work: 0.211 
• R-Value Observed: 0.212 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 75.5	α = 90
b = 75.5	β = 90
c = 95.19	γ = 120

Software Package:

Software Name	Purpose
XDS	data reduction
PHENIX	refinement
Coot	model building
XSCALE	data scaling

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2015-09-16 
Deposition Author(s): Niemi, M.H., Rouvinen, J.

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Funding Organization	Location	Grant Number
Academy of Finland	Finland	137988

Revision History  

• Version 1.0: 2015-09-16
  Type: Initial release
  
• Version 1.1: 2024-01-10
  Changes: Data collection, Database references, Refinement description