9IS2 | pdb_00009is2

Unheat-treated beta-conglycinin

• PDB DOI: https://doi.org/10.2210/pdb9IS2/pdb

• Classification: PLANT PROTEIN
• Organism(s): Glycine max
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-07-16 Released: 2025-07-23 
• Deposition Author(s): Zhang, T., Li, J.Y.
• Funding Organization(s): Other government

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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

Literature

Characterization and structural analyses of beta-conglycinin after thermal sterilization

Zhang, T., Li, J.Y.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 133.47 kDa 
• Atom Count: 9,048 
• Modeled Residue Count: 1,104 
• Deposited Residue Count: 1,155 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-conglycinin beta subunit 2	A [auth C], B [auth A], C [auth B]	385	Glycine max	Mutation(s): 0  Gene Names: CG-4, GLYMA_20G148200
UniProt
Find proteins for P25974 (Glycine max) Explore P25974  Go to UniProtKB:  P25974

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 = 89.019	α = 90
b = 63.097	β = 91.31
c = 121.85	γ = 90

Software Package:

Software Name	Purpose
HKL-3000	data scaling
HKL-3000	data reduction
PDB_EXTRACT	data extraction
PHASER	phasing
PHENIX	refinement

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-07-23 
Deposition Author(s): Zhang, T., Li, J.Y.

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Funding Organization	Location	Grant Number
Other government	China	2022CXGC010602

Revision History  

• Version 1.0: 2025-07-23
  Type: Initial release