3C1S | pdb_00003c1s

Crystal structure of GRX1 in glutathionylated form

• PDB DOI: https://doi.org/10.2210/pdb3C1S/pdb

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


• Deposited: 2008-01-24 Released: 2008-12-09 
• Deposition Author(s): Yu, J., Zhou, C.Z.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.253 (Depositor), 0.247 (DCC) 
• R-Value Work: 
  0.221 (Depositor), 0.211 (DCC) 
• R-Value Observed: 
  0.221 (Depositor) 

Starting Model: experimental

Literature

Glutathionylation-triggered conformational changes of glutaredoxin Grx1 from the yeast Saccharomyces cerevisiae.

Yu, J., Zhang, N.N., Yin, P.D., Cui, P.X., Zhou, C.Z.

(2008) Proteins 72: 1077-1083

• PubMed: 18473363 
• DOI: https://doi.org/10.1002/prot.22096
• Primary Citation Related Structures: 
  3C1R, 3C1S

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Organizational Affiliation: 
• Hefei National Laboratory for Physical Sciences at Microscale and School of Life Sciences, University of Science and Technology of China, Hefei Anhui 230027, People's Republic of China.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 13.72 kDa 
• Atom Count: 940 
• Modeled Residue Count: 107 
• Deposited Residue Count: 118 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glutaredoxin-1	A	118	Saccharomyces cerevisiae	Mutation(s): 0  Gene Names: GRX1 EC: 1.20.4.1 (PDB Primary Data), 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
GSH	B [auth A]	Glutathione C10 H17 N3 O6 S RWSXRVCMGQZWBV-WDSKDSINSA-N

Biologically Interesting Molecules (External Reference) 

1 Unique

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.253 (Depositor), 0.247 (DCC) 
• R-Value Work:  0.221 (Depositor), 0.211 (DCC) 
• R-Value Observed: 0.221 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 32.195	α = 90
b = 77.571	β = 90
c = 100.29	γ = 90

Software Package:

Software Name	Purpose
AMoRE	phasing
CNS	refinement
MAR345dtb	data collection
AUTOMAR	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-12-09 
Deposition Author(s): Yu, J., Zhou, C.Z.

Revision History  

• Version 1.0: 2008-12-09
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description