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(-) Description

Authors :  C. Johansson, K. L. Kavanagh, A. Rojkova, O. Gileadi, F. Von Delft, C. Arrowsmith, J. Weigelt, M. Sundstrom, A. Edwards, U. Oppermann, St Genomics Consortium (Sgc)
Date :  25 Apr 06  (Deposition) - 09 May 06  (Release) - 13 Jul 11  (Revision)
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A
Keywords :  Gpx4, Gshpx-4, Phospholipid Hydroperoxide, Structural Genomics, Structural Genomics Consortium, Sgc, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
Reference :  C. Johansson, K. L. Kavanagh, A. Rojkova, O. Gileadi, F. Von Delft, C. Arrowsmith, J. Weigelt, M. Sundstrom, A. Edwards, U. Oppermann, Structural Genomics Consortium (Sgc)
Crystal Structure Of The Selenocysteine To Glycine Mutant O Human Glutathione Peroxidase 4(Gpx4)
To Be Published
PubMed: search

(-) Compounds

    EC Number1.11.1.12
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymPHGPX, GPX-4

 Structural Features

(-) Chains, Units

Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2GS3)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2GS3)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (3, 3)

Asymmetric/Biological Unit (3, 3)
1GLUTATHIONE_PEROXID_3PS51355 Glutathione peroxidase profile.GPX4_HUMAN31-197  1A:36-197
2GLUTATHIONE_PEROXID_1PS00460 Glutathione peroxidases active site.GPX4_HUMAN61-76  1A:61-76
3GLUTATHIONE_PEROXID_2PS00763 Glutathione peroxidases signature 2.GPX4_HUMAN98-105  1A:98-105

(-) Exons   (7, 7)

Asymmetric/Biological Unit (7, 7)
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:171
 aligned with GPX4_HUMAN | P36969 from UniProtKB/Swiss-Prot  Length:197

    Alignment length:171
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196 
               SCOP domains d2gs3a_ A: automated matches                                                                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------T----------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----GLUTATHIONE_PEROXID_3  PDB: A:36-197 UniProt: 31-197                                                                                                                    PROSITE (1)
                PROSITE (2) ----------------------------------GLUTATHIONE_PERO---------------------GLUTATHI-------------------------------------------------------------------------------------------- PROSITE (2)
           Transcript 1 (1) 1.Exon 1.2  PDB: A:29-60          ------------------------------------------------Exon 1.4  PDB: A:109-159 UniProt: 109-159          --------Exon 1.6            Exon 1.7   Transcript 1 (1)
           Transcript 1 (2) ---------------------------------Exon 1.3  PDB: A:60-108 UniProt: 60-108          --------------------------------------------------Exon 1.5 ------------------------------ Transcript 1 (2)
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196 

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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2GS3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2GS3)

(-) Gene Ontology  (15, 15)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (GPX4_HUMAN | P36969)
molecular function
    GO:0004602    glutathione peroxidase activity    Catalysis of the reaction: 2 glutathione + hydrogen peroxide = oxidized glutathione + 2 H2O.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0004601    peroxidase activity    Catalysis of the reaction: donor + hydrogen peroxide = oxidized donor + 2 H2O.
    GO:0047066    phospholipid-hydroperoxide glutathione peroxidase activity    Catalysis of the reaction: a lipid hydroperoxide + 2 reduced glutathione = 2 H2O + lipid + 2 oxidized glutathione.
biological process
    GO:0098869    cellular oxidant detoxification    Any process carried out at the cellular level that reduces or removes the toxicity superoxide radicals or hydrogen peroxide.
    GO:0019372    lipoxygenase pathway    The chemical reactions and pathways by which an unsaturated fatty acid (such as arachidonic acid or linolenic acid) is converted to other compounds, and in which the first step is hydroperoxide formation catalyzed by lipoxygenase.
    GO:0007275    multicellular organism development    The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0006644    phospholipid metabolic process    The chemical reactions and pathways involving phospholipids, any lipid containing phosphoric acid as a mono- or diester.
    GO:0006979    response to oxidative stress    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0005739    mitochondrion    A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.


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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

        GPX4_HUMAN | P369692obi 5h5q 5h5r 5h5s

(-) Related Entries Specified in the PDB File

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