5L71

Crystal structure of mouse phospholipid hydroperoxide glutathione peroxidase 4 (GPx4)

PDB DOI: https://doi.org/10.2210/pdb5L71/pdb

Classification: OXIDOREDUCTASE
Organism(s): Mus musculus
Expression System: Escherichia coli
Mutation(s): Yes
Membrane Protein: Yes OPM

Deposited: 2016-06-01 Released: 2016-10-19
Deposition Author(s): Janowski, R., Scanu, S., Madl, T., Niessing, D.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.193
R-Value Work: 0.151
R-Value Observed: 0.153

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Crystal and solution structural studies of mouse phospholipid hydroperoxide glutathione peroxidase 4.

Janowski, R., Scanu, S., Niessing, D., Madl, T.

(2016) Acta Crystallogr F Struct Biol Commun 72: 743-749

PubMed: 27710939 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1107/S2053230X16013686
Primary Citation of Related Structures:
5L71

PubMed Abstract:
The mammalian glutathione peroxidase (GPx) family is a key component of the cellular antioxidative defence system. Within this family, GPx4 has unique features as it accepts a large class of hydroperoxy lipid substrates and has a plethora of biological functions, including sperm maturation, regulation of apoptosis and cerebral embryogenesis. In this paper, the structure of the cytoplasmic isoform of mouse phospholipid hydroperoxide glutathione peroxidase (O70325-2 GPx4) with selenocysteine 46 mutated to cysteine is reported solved at 1.8 Å resolution using X-ray crystallography. Furthermore, solution data of an isotope-labelled GPx protein are presented.

Organizational Affiliation

Group Intracellular Transport and RNA Biology, Institute of Structural Biology, Helmholtz Zentrum München - German Research Center for Environmental Health, Ingolstädter Landstrasse 1, 85764 Neuherberg, Germany.

Macromolecule Content

Total Structure Weight: 19.75 kDa
Atom Count: 1,545
Modelled Residue Count: 165
Deposited Residue Count: 171
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phospholipid hydroperoxide glutathione peroxidase, mitochondrial	A	171	Mus musculus	Mutation(s): 1 Gene Names: Gpx4 EC: 1.11.1.12 (PDB Primary Data), 1.11.1.9 (UniProt) Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for O70325 (Mus musculus) Explore O70325 Go to UniProtKB: O70325
IMPC: MGI:104767
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O70325
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain B [auth A] SDF format, chain C [auth A] SDF format, chain D [auth A] MOL2 format, chain B [auth A] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] mmCIF format, chain B [auth A] mmCIF format, chain C [auth A] mmCIF format, chain D [auth A]	B [auth A], C [auth A], D [auth A]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Focus chain C [auth A] Focus chain D [auth A]