3VUR

Crystal structure of Bombyx mori sigma-class glutathione transferase in complex with glutathionesulfonic acid

• PDB DOI: https://doi.org/10.2210/pdb3VUR/pdb

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


• Deposited: 2012-07-05 Released: 2013-07-10 
• Deposition Author(s): Yamamoto, K., Higashiura, A., Nakagawa, A., Suzuki, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.36 Å
• R-Value Free: 0.182 
• R-Value Work: 0.156 
• R-Value Observed: 0.158 

Literature

Crystal structure of Bombyx mori sigma-class glutathione transferase in complex with glutathionesulfonic acid

Yamamoto, K., Higashiura, A., Nakagawa, A., Suzuki, M.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 23.96 kDa 
• Atom Count: 1,960 
• Modelled Residue Count: 203 
• Deposited Residue Count: 204 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glutathione S-transferase sigma	A	204	Bombyx mori	Mutation(s): 0  Gene Names: GST sigma EC: 2.5.1.18
UniProt
Find proteins for Q5CCJ4 (Bombyx mori) Explore Q5CCJ4  Go to UniProtKB:  Q5CCJ4

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GTS	C [auth A]	GLUTATHIONE SULFONIC ACID C10 H17 N3 O9 S QGWRMTHFAZVWAM-WDSKDSINSA-N
1PE	B [auth A]	PENTAETHYLENE GLYCOL C10 H22 O6 JLFNLZLINWHATN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.36 Å
• R-Value Free: 0.182 
• R-Value Work: 0.156 
• R-Value Observed: 0.158 
• Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.41	α = 90
b = 57.41	β = 90
c = 209.665	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASES	phasing
PHENIX	refinement
HKL-2000	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-07-10 
Deposition Author(s): Yamamoto, K., Higashiura, A., Nakagawa, A., Suzuki, M.

Revision History  

• Version 1.0: 2013-07-10
  Type: Initial release
  
• Version 1.1: 2024-03-20
  Changes: Data collection, Database references, Derived calculations