9IS2 | pdb_00009is2

Unheat-treated beta-conglycinin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.78 Å
  • R-Value Free: 
    0.325 (Depositor), 0.324 (DCC) 
  • R-Value Work: 
    0.244 (Depositor), 0.244 (DCC) 
  • R-Value Observed: 
    0.249 (Depositor) 

Starting Model: experimental
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Literature

Structural basis for the effects of thermal treatment on soybean seed beta-conglycinin.

Li, J.Cai, M.Liu, Y.Lv, C.Zang, J.Zhao, G.Zhang, T.

(2025) Food Res Int 205: 115976-115976

  • DOI: https://doi.org/10.1016/j.foodres.2025.115976
  • Primary Citation of Related Structures:  
    9IS0, 9IS1, 9IS2

  • PubMed Abstract: 

    The production of soy protein in the food industry is inextricably linked to the thermal sterilization process. To gain a deeper understanding of the changes in protein structure during this process, we compared the structural effects of typical thermal sterilization methods (pasteurization and ultra-high temperature sterilization) on β-conglycinin. Chemical characterization of the solutions showed that two thermal sterilization methods did not affect the primary structure and overall morphology of β-conglycinin. However, the α-helix and β-sheet content were reduced. Additionally, the crystal structure of β-conglycinin after different heat treatments was successfully determined by X-ray crystallography. Notably, we precisely observed the sites where the secondary structure was altered at the atomic level. This allowed us to propose a hypothesis that the highly variable continuous antiparallel β-sheet within the C-terminal core β-barrel structural domains may represent an intermediate state influenced by temperature, acting as the initiation site for protein structure dissociation.


  • Organizational Affiliation
    • Beijing Key Laboratory of Functional Food from Plant Resources, College of Food Science and Nutritional Engineering, China Agricultural University, Beijing 100083 China.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Beta-conglycinin beta subunit 2A [auth C],
B [auth A],
C [auth B]
385Glycine maxMutation(s): 0 
Gene Names: CG-4GLYMA_20G148200
UniProt
Find proteins for P25974 (Glycine max)
Explore P25974 
Go to UniProtKB:  P25974
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP25974
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.78 Å
  • R-Value Free:  0.325 (Depositor), 0.324 (DCC) 
  • R-Value Work:  0.244 (Depositor), 0.244 (DCC) 
  • R-Value Observed: 0.249 (Depositor) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 89.019α = 90
b = 63.097β = 91.31
c = 121.85γ = 90
Software Package:
Software NamePurpose
HKL-3000data scaling
HKL-3000data reduction
PDB_EXTRACTdata extraction
PHASERphasing
PHENIXrefinement

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other governmentChina2022CXGC010602

Revision History  (Full details and data files)

  • Version 1.0: 2025-07-23
    Type: Initial release
  • Version 1.1: 2026-02-04
    Changes: Database references