6HN3 image
Deposition Date 2018-09-13
Release Date 2020-04-01
Last Version Date 2024-01-24
Entry Detail
PDB ID:
6HN3
Keywords:
Title:
wildtype form (apo) of human GPX4 with Se-Cys46
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.01 Å
R-Value Free:
0.13
R-Value Work:
0.11
R-Value Observed:
0.11
Space Group:
P 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Phospholipid hydroperoxide glutathione peroxidase
Gene (Uniprot):GPX4
Chain IDs:A
Chain Length:176
Number of Molecules:1
Biological Source:Homo sapiens
Primary Citation
Crystal structures of the selenoprotein glutathione peroxidase 4 in its apo form and in complex with the covalently bound inhibitor ML162.
Acta Crystallogr D Struct Biol 77 237 248 (2021)
PMID: 33559612 DOI: 10.1107/S2059798320016125

Abstact

Wild-type human glutathione peroxidase 4 (GPX4) was co-expressed with SBP2 (selenocysteine insertion sequence-binding protein 2) in human HEK cells to achieve efficient production of this selenocysteine-containing enzyme on a preparative scale for structural biology. The protein was purified and crystallized, and the crystal structure of the wild-type form of GPX4 was determined at 1.0 Å resolution. The overall fold and the active site are conserved compared with previously determined crystal structures of mutated forms of GPX4. A mass-spectrometry-based approach was developed to monitor the reaction of the active-site selenocysteine Sec46 with covalent inhibitors. This, together with the introduction of a surface mutant (Cys66Ser), enabled the crystal structure determination of GPX4 in complex with the covalent inhibitor ML162 [(S)-enantiomer]. The mass-spectrometry-based approach described here opens the path to further co-complex crystal structures of this potential cancer drug target in complex with covalent inhibitors.

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Primary Citation of related structures