6MWS | pdb_00006mws

crystal structure of the reduced Grx1 from Saccharomyces cerevisiae

• PDB DOI: https://doi.org/10.2210/pdb6MWS/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Saccharomyces cerevisiae S288C
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-10-30 Released: 2019-05-15 
• Deposition Author(s): Maghool, S., Maher, J.M.
• Funding Organization(s): Australian Research Council (ARC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.22 Å
• R-Value Free: 
  0.172 (Depositor), 0.178 (DCC) 
• R-Value Work: 
  0.148 (Depositor), 0.158 (DCC) 
• R-Value Observed: 
  0.149 (Depositor) 

Literature

High-resolution crystal structure of the reduced Grx1 from Saccharomyces cerevisiae.

Maghool, S., La Fontaine, S., Maher, M.J.

(2019) Acta Crystallogr F Struct Biol Commun 75: 392-396

• PubMed: 31045569 
• DOI: https://doi.org/10.1107/S2053230X19003327
• Primary Citation Related Structures: 
  6MWS


• PubMed Abstract: 
  

  Grx1, a cytosolic thiol-disulfide oxidoreductase, actively maintains cellular redox homeostasis using glutathione substrates (reduced, GSH, and oxidized, GSSG). Here, the crystallization of reduced Grx1 from the yeast Saccharomyces cerevisiae (yGrx1) in space group P2 ₁ 2 ₁ 2 ₁ and its structure solution and refinement to 1.22 Å resolution are reported. To study the structure-function relationship of yeast Grx1, the crystal structure of reduced yGrx1 was compared with the existing structures of the oxidized and glutathionylated forms. These comparisons revealed structural differences in the conformations of residues neighbouring the Cys27-Cys30 active site which accompany alterations in the redox status of the protein.

---

Organizational Affiliation: 
• Department of Biochemistry and Genetics, La Trobe Institute for Molecular Science, La Trobe University, Melbourne, Victoria, Australia.
School of Life and Environmental Sciences, Deakin University, Melbourne, Victoria, Australia.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 12.9 kDa 
• Atom Count: 980 
• Modeled Residue Count: 108 
• Deposited Residue Count: 115 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glutaredoxin-1	A	115	Saccharomyces cerevisiae S288C	Mutation(s): 0  Gene Names: GRX1, YCL035C, YCL35C EC: 2.5.1.18 (UniProt), 1.11.1.9 (UniProt)
UniProt
Find proteins for P25373 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P25373  Go to UniProtKB:  P25373

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	B [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.22 Å
• R-Value Free:  0.172 (Depositor), 0.178 (DCC) 
• R-Value Work:  0.148 (Depositor), 0.158 (DCC) 
• R-Value Observed: 0.149 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 41.364	α = 90
b = 51.779	β = 90
c = 57.193	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2019-05-15 
Deposition Author(s): Maghool, S., Maher, J.M.

---

Funding Organization	Location	Grant Number
Australian Research Council (ARC)	Australia	DP140102746

Revision History  

• Version 1.0: 2019-05-15
  Type: Initial release
  
• Version 1.1: 2020-01-01
  Changes: Author supporting evidence
• Version 1.2: 2024-11-13
  Changes: Data collection, Database references, Structure summary