3AY8

Glutathione S-transferase unclassified 2 from Bombyx mori

• PDB DOI: https://doi.org/10.2210/pdb3AY8/pdb

• Classification: TRANSFERASE
• Organism(s): Bombyx mori
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-05-02 Released: 2011-09-07 
• Deposition Author(s): Kakuta, Y., Usuda, K., Nakashima, T., Kimura, M., Aso, Y., Yamamoto, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.227 
• R-Value Work: 0.185 
• R-Value Observed: 0.187 

Literature

Crystallographic survey of active sites of an unclassified glutathione transferase from Bombyx mori

Kakuta, Y., Usuda, K., Nakashima, T., Kimura, M., Aso, Y., Yamamoto, K.

(2011) Biochim Biophys Acta 1810: 1355-1360

• PubMed: 21756974 
• DOI: https://doi.org/10.1016/j.bbagen.2011.06.022
• Primary Citation of Related Structures:  
  3AY8


• PubMed Abstract: 
  

  Glutathione transferase (GST) catalyzes a major step in the xenobiotic detoxification pathway. We previously identified a novel, unclassified GST that is upregulated in an insecticide-resistant silkworm (Bombyx mori) upon insecticide exposure. Here, we sought to further characterize this GST, bmGSTu, by solving and refining its crystal structure and identifying its catalytic residues.

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Organizational Affiliation: 

Faculty of Agriculture, Kyushu University Graduate School, 6-10-1 Hakozaki, Higashi-ku, Fukuoka 812-8581, Japan.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 24.58 kDa 
• Atom Count: 1,955 
• Modelled Residue Count: 215 
• Deposited Residue Count: 216 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glutathione S-transferase	A	216	Bombyx mori	Mutation(s): 0
UniProt
Find proteins for Q2F690 (Bombyx mori) Explore Q2F690  Go to UniProtKB:  Q2F690

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	B [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.227 
• R-Value Work: 0.185 
• R-Value Observed: 0.187 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.398	α = 90
b = 71.398	β = 90
c = 90.344	γ = 120

Software Package:

Software Name	Purpose
ADSC	data collection
MOLREP	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-09-07 
Deposition Author(s): Kakuta, Y., Usuda, K., Nakashima, T., Kimura, M., Aso, Y., Yamamoto, K.

Revision History  

• Version 1.0: 2011-09-07
  Type: Initial release
  
• Version 1.1: 2013-06-19
  Changes: Database references
• Version 1.2: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description