3LSZ | pdb_00003lsz

Crystal structure of glutathione s-transferase from Rhodobacter sphaeroides

• PDB DOI: https://doi.org/10.2210/pdb3LSZ/pdb

• Classification: TRANSFERASE
• Organism(s): Cereibacter sphaeroides 2.4.1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-02-14 Released: 2010-03-23 
• Deposition Author(s): Eswaramoorthy, S., Burley, S.K., Swaminathan, S., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.226 (Depositor), 0.219 (DCC) 
• R-Value Work: 
  0.206 (Depositor), 0.200 (DCC) 

Literature

Crystal structure of glutathione s-transferase from Rhodobacter sphaeroides

Eswaramoorthy, S., Burley, S.K., Swaminathan, S.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content 

• Total Structure Weight: 101.55 kDa 
• Atom Count: 7,270 
• Modeled Residue Count: 874 
• Deposited Residue Count: 900 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glutathione S-transferase	A, B, C, D	225	Cereibacter sphaeroides 2.4.1	Mutation(s): 0  Gene Names: RHOS4_23800, RSP_0769 EC: 2.5.1.18
UniProt
Find proteins for Q3IZT6 (Cereibacter sphaeroides (strain ATCC 17023 / DSM 158 / JCM 6121 / CCUG 31486 / LMG 2827 / NBRC 12203 / NCIMB 8253 / ATH 2.4.1.)) Explore Q3IZT6  Go to UniProtKB:  Q3IZT6

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GSH	E [auth A], G [auth B], J [auth C], L [auth D]	Glutathione C10 H17 N3 O6 S RWSXRVCMGQZWBV-WDSKDSINSA-N
TRS	F [auth A], H [auth B], K [auth C], M [auth D]	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C4 H12 N O3 LENZDBCJOHFCAS-UHFFFAOYSA-O
GOL	I [auth B], N [auth D]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B, C, D	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Biologically Interesting Molecules (External Reference) 

1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_002593 (GSH)	E [auth A], G [auth B], J [auth C], L [auth D]	Glutathione	Peptide-like / Oxidation-reduction

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.226 (Depositor), 0.219 (DCC) 
• R-Value Work:  0.206 (Depositor), 0.200 (DCC) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 167.92	α = 90
b = 50.398	β = 125.51
c = 133.228	γ = 90

Software Package:

Software Name	Purpose
CBASS	data collection
SHELXS	phasing
SHARP	phasing
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-03-23 
Deposition Author(s): Eswaramoorthy, S., Burley, S.K., Swaminathan, S., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2010-03-23
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2021-02-10
  Changes: Database references, Derived calculations, Structure summary
• Version 1.3: 2025-03-26
  Changes: Data collection, Database references, Structure summary