Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Cyclic - C3  (3D View)
Global Stoichiometry: Homo 3-mer - A3 

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

Biological Assembly 2  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Cyclic - C3  (3D View)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 95.27 kDa 
• Atom Count: 5706 
• Modelled Residue Count: 732 
• Deposited Residue Count: 836 
• Unique protein chains: 1

3S7E

Crystal structure of Ara h 1

• PDB DOI: 10.2210/pdb3S7E/pdb

• Classification: ALLERGEN
• Organism(s): Arachis hypogaea
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2011-05-26 Released: 2011-09-21 
• Deposition Author(s): Chruszcz, M., Maleki, S.J., Solberg, R., Minor, W.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.71 Å
• R-Value Free: 0.260 
• R-Value Work: 0.236 
• R-Value Observed: 0.238 

Literature

Structural and Immunologic Characterization of Ara h 1, a Major Peanut Allergen.

Chruszcz, M., Maleki, S.J., Majorek, K.A., Demas, M., Bublin, M., Solberg, R., Hurlburt, B.K., Ruan, S., Mattisohn, C.P., Breiteneder, H., Minor, W.

(2011) J Biol Chem 286: 39318-39327

• PubMed: 21917921 
• DOI: 10.1074/jbc.M111.270132
• Primary Citation of Related Structures:  
  3S7E, 3S7I


• PubMed Abstract: 
  

Allergic reactions to peanuts and tree nuts are major causes of anaphylaxis in the United States. We compare different properties of natural and recombinant versions of Ara h 1, a major peanut allergen, through structural, immunologic, and bioinformatics analyses. Small angle x-ray scattering studies show that natural Ara h 1 forms higher molecular weight aggregates in solution. In contrast, the full-length recombinant protein is partially unfolded and exists as a monomer. The crystal structure of the Ara h 1 core (residues 170-586) shows that the central part of the allergen has a bicupin fold, which is in agreement with our bioinformatics analysis. In its crystalline state, the core region of Ara h 1 forms trimeric assemblies, while in solution the protein exists as higher molecular weight assemblies. This finding reveals that the residues forming the core region of the protein are sufficient for formation of Ara h 1 trimers and higher order oligomers. Natural and recombinant variants of proteins tested in in vitro gastric and duodenal digestion assays show that the natural protein is the most stable form, followed by the recombinant Ara h 1 core fragment and the full-length recombinant protein. Additionally, IgE binding studies reveal that the natural and recombinant allergens have different patterns of interaction with IgE antibodies. The molecular basis of cross-reactivity between vicilin allergens is also elucidated.

---

Organizational Affiliation: 

Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, Virginia 22908, USA. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Allergen Ara h 1, clone P41B	A, B	418	Arachis hypogaea	Mutation(s): 0
UniProt
Find proteins for P43238 (Arachis hypogaea) Explore P43238  Go to UniProtKB:  P43238

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CL	C [auth A], D [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.71 Å
• R-Value Free: 0.260 
• R-Value Work: 0.236 
• R-Value Observed: 0.238 
• Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 93.368	α = 90
b = 93.368	β = 90
c = 237.111	γ = 120

Software Package:

Software Name	Purpose
HKL-3000	data collection
HKL-3000	phasing
MOLREP	phasing
REFMAC	refinement
Coot	model building
CCP4	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-05-26 
• Released Date: 2011-09-21 
Deposition Author(s): Chruszcz, M., Maleki, S.J., Solberg, R., Minor, W.

Revision History  

• Version 1.0: 2011-09-21
  Type: Initial release
  
• Version 1.1: 2011-12-14
  Changes: Database references
• Version 1.2: 2022-04-13
  Changes: Database references, Derived calculations, Structure summary