5GST

REACTION COORDINATE MOTION IN AN SNAR REACTION CATALYZED BY GLUTATHIONE TRANSFERASE

• PDB DOI: https://doi.org/10.2210/pdb5GST/pdb

• Classification: TRANSFERASE
• Organism(s): Rattus rattus
• Mutation(s): No 


• Deposited: 1993-07-20 Released: 1993-10-31 
• Deposition Author(s): Ji, X., Armstrong, R.N., Gilliland, G.L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Observed: 0.192 

Literature

Snapshots along the reaction coordinate of an SNAr reaction catalyzed by glutathione transferase.

Ji, X., Armstrong, R.N., Gilliland, G.L.

(1993) Biochemistry 32: 12949-12954

• PubMed: 8241147 
• DOI: https://doi.org/10.1021/bi00211a001
• Primary Citation of Related Structures:  
  4GST, 5GST


• PubMed Abstract: 
  

  The three-dimensional structures of a class mu glutathione transferase in complex with a transition-state analogue, 1-(S-glutathionyl)-2,4,6-trinitrocyclohexadienate, and a product, 1-(S-glutathionyl)-2,4-dinitrobenzene, of a nucleophilic aromatic substitution (SNAr) reaction have been determined at 1.9- and 2.0-A resolution, respectively. The two structures represent snapshots along the reaction coordinate for the enzyme-catalyzed reaction of glutathione with 1-chloro-2,4-dinitrobenzene and reveal specific interactions between the enzyme, intermediate, and product that are important in catalysis. The geometries of the intermediate and product are used to postulate reaction coordinate motion during catalysis.

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Organizational Affiliation: 

Department of Chemistry and Biochemistry, University of Maryland, College Park 20742.

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: 52.68 kDa 
• Atom Count: 4,037 
• Modelled Residue Count: 434 
• Deposited Residue Count: 434 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GLUTATHIONE S-TRANSFERASE	A, B	217	Rattus rattus	Mutation(s): 0  EC: 2.5.1.18
UniProt
Find proteins for P04905 (Rattus norvegicus) Explore P04905  Go to UniProtKB:  P04905

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GDN	D [auth A], E [auth B]	GLUTATHIONE S-(2,4 DINITROBENZENE) C16 H19 N5 O10 S FXEUKVKGTKDDIQ-UWVGGRQHSA-N
SO4	C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Observed: 0.192 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.24	α = 90
b = 69.44	β = 106.01
c = 81.28	γ = 90

Software Package:

Software Name	Purpose
GPRLSA	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 1993-10-31 
Deposition Author(s): Ji, X., Armstrong, R.N., Gilliland, G.L.

Revision History  

• Version 1.0: 1993-10-31
  Type: Initial release
  
• Version 1.1: 2008-03-25
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-11-29
  Changes: Derived calculations, Other
• Version 1.4: 2023-08-30
  Changes: Data collection, Database references, Derived calculations, Structure summary