3GX8 | pdb_00003gx8

Structural and biochemical characterization of yeast monothiol glutaredoxin Grx5

• PDB DOI: https://doi.org/10.2210/pdb3GX8/pdb

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


• Deposited: 2009-04-01 Released: 2010-04-14 
• Deposition Author(s): Wang, Y., He, Y.X., Yu, J., Xiong, Y., Chen, Y., Zhou, C.Z.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.67 Å
• R-Value Free: 
  0.200 (Depositor), 0.195 (DCC) 
• R-Value Work: 
  0.175 (Depositor), 0.169 (DCC) 
• R-Value Observed: 
  0.176 (Depositor) 

Starting Model: experimental

Literature

Structural and biochemical characterization of yeast monothiol glutaredoxin Grx5

Wang, Y., He, Y.X., Yu, J., Xiong, Y., Chen, Y., Zhou, C.Z.

To be published.

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: 13.55 kDa 
• Atom Count: 977 
• Modeled Residue Count: 111 
• Deposited Residue Count: 121 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Monothiol glutaredoxin-5, mitochondrial	A	121	Saccharomyces cerevisiae	Mutation(s): 0  Gene Names: GRX5
UniProt
Find proteins for Q02784 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q02784  Go to UniProtKB:  Q02784

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.67 Å
• R-Value Free:  0.200 (Depositor), 0.195 (DCC) 
• R-Value Work:  0.175 (Depositor), 0.169 (DCC) 
• R-Value Observed: 0.176 (Depositor) 

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 85.12	α = 90
b = 85.12	β = 90
c = 48.95	γ = 120

Software Package:

Software Name	Purpose
MAR345dtb	data collection
MOLREP	phasing
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-04-14 
Deposition Author(s): Wang, Y., He, Y.X., Yu, J., Xiong, Y., Chen, Y., Zhou, C.Z.

Revision History  

• Version 1.0: 2010-04-14
  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