9RF1 | pdb_00009rf1

Structure of human GPX4-U46C-R152K mutant

• PDB DOI: https://doi.org/10.2210/pdb9RF1/pdb

• Classification: STRUCTURAL PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2025-06-04 Released: 2025-12-03 
• Deposition Author(s): Mourao, A., Sattler, M., Popowicz, G.
• Funding Organization(s): Helmholtz Association

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.284 (Depositor), 0.284 (DCC) 
• R-Value Work: 
  0.215 (Depositor), 0.215 (DCC) 
• R-Value Observed: 
  0.219 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of human GPX4-U46C-R152K

Mourao, A., Sattler, M., Popowicz, G.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 39.21 kDa 
• Atom Count: 2,886 
• Modeled Residue Count: 335 
• Deposited Residue Count: 344 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phospholipid hydroperoxide glutathione peroxidase GPX4	A, B	172	Homo sapiens	Mutation(s): 2  Gene Names: GPX4 EC: 1.11.1.12 (PDB Primary Data), 1.11.1.9 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P36969 (Homo sapiens) Explore P36969  Go to UniProtKB:  P36969
PHAROS:  P36969 GTEx:  ENSG00000167468

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.284 (Depositor), 0.284 (DCC) 
• R-Value Work:  0.215 (Depositor), 0.215 (DCC) 
• R-Value Observed: 0.219 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 35.392	α = 90
b = 62.952	β = 100.791
c = 75.442	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-12-03 
Deposition Author(s): Mourao, A., Sattler, M., Popowicz, G.

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Funding Organization	Location	Grant Number
Helmholtz Association	Germany	--

Revision History  

• Version 1.0: 2025-12-03
  Type: Initial release
  
• Version 1.1: 2025-12-17
  Changes: Derived calculations