4Z3L

CRYSTAL STRUCTURE OF BIRCH POLLEN ALLERGEN BET V 1 MUTANT G26L, D69I, P90L, K97I

• PDB DOI: https://doi.org/10.2210/pdb4Z3L/pdb

• Classification: ALLERGEN
• Organism(s): Betula pendula
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2015-03-31 Released: 2015-11-25 
• Deposition Author(s): Freier, R., Brandstetter, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.256 
• R-Value Work: 0.212 
• R-Value Observed: 0.214 

Literature

Fold stability during endolysosomal acidification is a key factor for allergenicity and immunogenicity of the major birch pollen allergen.

Machado, Y., Freier, R., Scheiblhofer, S., Thalhamer, T., Mayr, M., Briza, P., Grutsch, S., Ahammer, L., Fuchs, J.E., Wallnoefer, H.G., Isakovic, A., Kohlbauer, V., Hinterholzer, A., Steiner, M., Danzer, M., Horejs-Hoeck, J., Ferreira, F., Liedl, K.R., Tollinger, M., Lackner, P., Johnson, C.M., Brandstetter, H., Thalhamer, J., Weiss, R.

(2016) J Allergy Clin Immunol 137: 1525-1534

• PubMed: 26559323 
• DOI: https://doi.org/10.1016/j.jaci.2015.09.026
• Primary Citation of Related Structures:  
  4Z3L


• PubMed Abstract: 
  

  The search for intrinsic factors, which account for a protein's capability to act as an allergen, is ongoing. Fold stability has been identified as a molecular feature that affects processing and presentation, thereby influencing an antigen's immunologic properties.

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Organizational Affiliation: 

Department of Molecular Biology, University of Salzburg, Salzburg, Austria.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Biological Assembly 4  

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

Biological assembly 4 assigned by authors.

Biological Assembly 5  

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

Biological assembly 5 assigned by authors.

Biological Assembly 6  

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

Biological assembly 6 assigned by authors.

Macromolecule Content

• Total Structure Weight: 106.44 kDa 
• Atom Count: 7,745 
• Modelled Residue Count: 954 
• Deposited Residue Count: 954 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Major pollen allergen Bet v 1-A	A, B, C, D [auth E], E [auth F], F [auth D]	159	Betula pendula	Mutation(s): 4  Gene Names: BETVIA, BETVI
UniProt
Find proteins for P15494 (Betula pendula) Explore P15494  Go to UniProtKB:  P15494

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	G [auth A], H [auth A], I [auth A], J [auth B], K [auth B], L [auth B], M [auth B], N [auth C], O [auth E], P [auth F], Q [auth F], R [auth F], S [auth F], T [auth F]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.256 
• R-Value Work: 0.212 
• R-Value Observed: 0.214 
• Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 122.29	α = 90
b = 143.34	β = 90
c = 148.08	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
Aimless	data scaling
PHASER	phasing
PDB_EXTRACT	data extraction
Coot	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-11-25 
Deposition Author(s): Freier, R., Brandstetter, H.

Revision History  

• Version 1.0: 2015-11-25
  Type: Initial release
  
• Version 1.1: 2016-05-18
  Changes: Database references
• Version 1.2: 2024-01-10
  Changes: Data collection, Database references, Refinement description