2WQL

CRYSTAL STRUCTURE OF THE MAJOR CARROT ALLERGEN DAU C 1

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.222 

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This is version 1.2 of the entry. See complete history. 


Literature

Structure of the Major Carrot Allergen Dau C 1.

Markovic-Housley, Z., Basle, A., Padavattan, S., Maderegger, B., Schirmer, T., Hoffmann-Sommergruber, K.

(2009) Acta Crystallogr D Biol Crystallogr 65: 1206

  • DOI: https://doi.org/10.1107/S0907444909034854
  • Primary Citation of Related Structures:  
    2WQL

  • PubMed Abstract: 

    Dau c 1 is a major allergen of carrot (Daucus carota) which displays IgE cross-reactivity with the homologous major birch-pollen allergen Bet v 1. The crystal structure of Dau c 1 has been determined to a resolution of 2.7 A, revealing tight dimers. The structure of Dau c 1 is similar to those of the major allergens from celery, Api g 1, and birch pollen, Bet v 1. Electron density has been observed in the hydrophobic cavity of each monomer and has been modelled with polyethylene glycol oligomers of varying length. Comparison of the surface topology and physicochemical properties of Dau c 1 and Bet v 1 revealed that they may have some, but not all, epitopes in common. This is in agreement with the observation that the majority of carrot-allergic patients have Bet v 1 cross-reactive IgE antibodies, whereas others have Dau c 1-specific IgE antibodies which do not recognize Bet v 1.

    • Organizational Affiliation: 

    Core Program of Structural Biology and Biophysics, Biozentrum, University of Basel, CH-4056 Basel, Switzerland. zora.housley@unibas.ch


Macromolecules
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(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
MAJOR ALLERGEN DAU C 1
A, B, C, D
154Daucus carotaMutation(s): 4 
UniProt
Find proteins for O04298 (Daucus carota)
Explore O04298 
Go to UniProtKB:  O04298
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO04298
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
P4C
Query on P4C
Download Ideal Coordinates CCD File 
E [auth A],
K [auth B],
S [auth C],
Y [auth D]		O-ACETALDEHYDYL-HEXAETHYLENE GLYCOL
C14 H28 O8
CTLLATPOKUEFSQ-UHFFFAOYSA-N
PEG
Query on PEG
Download Ideal Coordinates CCD File 
F [auth A]
L [auth B]
M [auth B]
N [auth B]
T [auth C]
F [auth A],
L [auth B],
M [auth B],
N [auth B],
T [auth C],
Z [auth D]
DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
CL
Query on CL
Download Ideal Coordinates CCD File 
AA [auth D]
BA [auth D]
CA [auth D]
DA [auth D]
G [auth A]
AA [auth D],
BA [auth D],
CA [auth D],
DA [auth D],
G [auth A],
H [auth A],
I [auth A],
J [auth A],
O [auth B],
P [auth B],
Q [auth B],
R [auth B],
U [auth C],
V [auth C],
W [auth C],
X [auth C]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.222 
  • Space Group: P 41 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 189.948α = 90
b = 189.948β = 90
c = 189.948γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2009-09-01
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Advisory, Refinement description, Version format compliance
  • Version 1.2: 2023-12-20
    Changes: Data collection, Database references, Derived calculations, Other, Refinement description