2AS8

Crystal structure of mature and fully active Der p 1 allergen

• PDB DOI: https://doi.org/10.2210/pdb2AS8/pdb

• Classification: HYDROLASE
• Organism(s): Dermatophagoides pteronyssinus
• Expression System: Komagataella pastoris
• Mutation(s): Yes 


• Deposited: 2005-08-23 Released: 2005-12-06 
• Deposition Author(s): de Halleux, S., Stura, E., VanderElst, L., Carlier, V., Jacquemin, M., Saint-Remy, J.-M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.252 
• R-Value Work: 0.185 
• R-Value Observed: 0.188 

Literature

Three-dimensional structure and IgE-binding properties of mature fully active Der p 1, a clinically relevant major allergen

de Halleux, S., Stura, E., VanderElst, L., Carlier, V., Jacquemin, M., Saint-Remy, J.-M.

(2006) J Allergy Clin Immunol 117: 571-576

• PubMed: 16522455 
• DOI: https://doi.org/10.1016/j.jaci.2005.11.032
• Primary Citation of Related Structures:  
  2AS8


• PubMed Abstract: 
  

  Der p 1 is a 25-kd allergen with cysteine protease activity. Sensitization to Der p 1 affects a large proportion of individuals with allergy, resulting in rhinitis, asthma, and/or atopic dermatitis.

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Organizational Affiliation: 

Center for Molecular and Vascular Biology, University of Leuven, Belgium.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 50.11 kDa 
• Atom Count: 4,313 
• Modelled Residue Count: 444 
• Deposited Residue Count: 444 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Major mite fecal allergen Der p 1	A, B	222	Dermatophagoides pteronyssinus	Mutation(s): 1  EC: 3.4.22
UniProt
Find proteins for P08176 (Dermatophagoides pteronyssinus) Explore P08176  Go to UniProtKB:  P08176

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MG	C [auth A], D [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.252 
• R-Value Work: 0.185 
• R-Value Observed: 0.188 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 75.12	α = 90
b = 78.43	β = 90
c = 83.774	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-12-06 
Deposition Author(s): de Halleux, S., Stura, E., VanderElst, L., Carlier, V., Jacquemin, M., Saint-Remy, J.-M.

Revision History  

• Version 1.0: 2005-12-06
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-11
  Changes: Refinement description
• Version 1.4: 2021-11-10
  Changes: Database references, Derived calculations
• Version 1.5: 2023-10-25
  Changes: Data collection, Refinement description