6GER | pdb_00006ger

Wheat b-amylase, a clinically relevant food allergen

• PDB DOI: https://doi.org/10.2210/pdb6GER/pdb

• Classification: HYDROLASE
• Organism(s): Triticum aestivum
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-04-27 Released: 2018-12-19 
• Deposition Author(s): Hofer, G., Keller, W.
• Funding Organization(s): Austrian Science Fund

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.189 (Depositor), 0.193 (DCC) 
• R-Value Work: 
  0.158 (Depositor), 0.158 (DCC) 

Literature

Three-dimensional structure of the wheat beta-amylase Tri a 17, a clinically relevant food allergen.

Hofer, G., Wieser, S., Bogdos, M.K., Gattinger, P., Nakamura, R., Ebisawa, M., Makela, M., Papadopoulos, N., Valenta, R., Keller, W.

(2019) Allergy 74: 1009-1013

• PubMed: 30515829 
• DOI: https://doi.org/10.1111/all.13696
• Primary Citation Related Structures: 
  6GER

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Organizational Affiliation: 
• Institute of Molecular Biosciences, BioTechMed Graz, University of Graz, Graz, Austria.
Division of Immunopathology, Department of Pathophysiology and Allergy Research, Center for Pathophysiology, Infectiology and Immunology, Medical University of Vienna, Vienna, Austria.
Division of Medicinal Safety Science, National Institute of Health Sciences, Kanagawa, Japan.
Clinical Research Center for Allergology and Rheumatology, National Hospital Organization, Sagamihara National Hospital, Kanagawa, Japan.
Department of Allergology, Skin and Allergy Hospital, Helsinki University Central Hospital, Helsinki, Finland.
Allergy Department, 2nd Pediatric Clinic, University of Athens, Athens, Greece.
NRC Institute of Immunology FMBA of Russia, Moscow, Russia.
Laboratory for Immunopathology, Department of Clinical Immunology and Allergy, Sechenov First Moscow State Medical University, Moscow, Russia.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 57.51 kDa 
• Atom Count: 4,465 
• Modeled Residue Count: 488 
• Deposited Residue Count: 509 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-amylase	A	509	Triticum aestivum	Mutation(s): 0  Gene Names: BMY1, AMY1 EC: 3.2.1.2
UniProt
Find proteins for P93594 (Triticum aestivum) Explore P93594  Go to UniProtKB:  P93594

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.189 (Depositor), 0.193 (DCC) 
• R-Value Work:  0.158 (Depositor), 0.158 (DCC) 

Space Group: P 4₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 93.87	α = 90
b = 93.87	β = 90
c = 65.86	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
iMOSFLM	data reduction
SCALA	data scaling
PHENIX	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2018-12-19 
Deposition Author(s): Hofer, G., Keller, W.

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Funding Organization	Location	Grant Number
Austrian Science Fund	Austria	F4604
Austrian Science Fund	Austria	F4605

Revision History  

• Version 1.0: 2018-12-19
  Type: Initial release
  
• Version 1.1: 2024-05-15
  Changes: Data collection, Database references