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Crystal structure of peroxiredoxin Ahp1 from Saccharomyces cerevisiae in complex with thioredoxin Trx2
Biology and Chemistry Report
4DSS
  •   Structure Details   Hide

    Structure Keywords

    Keywords OXIDOREDUCTASE/TRANSPORT PROTEIN
    Text Electron Transport, OXIDOREDUCTASE, PEROXIREDOXIN, Thioredoxin-2, Thioredoxin Fold, Thioredoxin-like Fold, Alkyl hydroperoxide reductase, OXIDOREDUCTASE-TRANSPORT PROTEIN complex

    Polymeric Molecules

    Chain A
    Description Peroxiredoxin type-2 
    Mutation C62S 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 19116.7 
    Source Method genetically manipulated  
    Entity Name AHPC1, Cytoplasmic thiol peroxidase 3, cTPx 3, Peroxiredoxin type II, Peroxisomal alkyl hydroperoxide reductase, TPx type II, Thiol-specific antioxidant II, TSA II, Thioredoxin peroxidase type II, Thioredoxin reductase type II 
    Chain B
    Description Thioredoxin-2 
    Mutation C34S 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 12215.0 
    Source Method genetically manipulated  
    Entity Name Thioredoxin II, TR-II, Thioredoxin-1 

     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A AHP1_YEAST D6VYA9     
    B TRX2_YEAST D6VUZ2     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    1.11.1.15      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A
    GO ID   Ontology GO Term Definition
    10038   Response to Metal Ion  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 a Metal Ion Stimulus. 
    34599   Cellular Response to Oxidative Stress  Any Process That Results in a Change in State or Activity of a Cell (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. 
    45454   Cell Redox Homeostasis  Any Process That Maintains the Redox Environment of a Cell or Compartment Within a Cell. 
    55114   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. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    4601   Peroxidase Activity  Catalysis of the Reaction: Donor + Hydrogen Peroxide = Oxidized Donor + 2 H2o. 
    8379   Thioredoxin Peroxidase Activity  Catalysis of the Reaction: Thioredoxin + Hydrogen Peroxide = Thioredoxin Disulfide + H2o. 
    16209   Antioxidant Activity  Inhibition of the Reactions Brought About by Dioxygen (o2) or Peroxides. Usually the Antioxidant Is Effective Because It Can Itself Be More Easily Oxidized Than the Substance Protected. the Term Is Often Applied to Components That Can Trap Free Radicals Thereby Breaking the Chain Reaction That Normally Leads to Extensive Biological Damage. 
    16491   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. 
    51920   Peroxiredoxin Activity  Catalysis of the Reaction: 2 R' Sh + Rooh = R' S S R' + H2o + Roh. 
    Chain B
    GO ID   Ontology GO Term Definition
    11   Vacuole Inheritance  The Distribution of Vacuoles Into Daughter Cells After Mitosis or Meiosis Mediated by Interactions Between Vacuoles and the Cytoskeleton. 
    103   Sulfate Assimilation  The Pathways by Which Inorganic Sulfate Is Processed and Incorporated Into Sulfated Compounds. 
    6662   Glycerol Ether Metabolic Process  The Chemical Reactions and Pathways Involving Glycerol Ethers Any Anhydride Formed Between Two Organic Hydroxy Compounds One of Which Is Glycerol. 
    6749   Glutathione Metabolic Process  The Chemical Reactions and Pathways Involving Glutathione the Tripeptide Glutamylcysteinylglycine Which Acts As a Coenzyme For Some Enzymes and As an Antioxidant in the Protection of Sulfhydryl Groups in Enzymes and Other Proteins; It Has a Specific Role in the Reduction of Hydrogen Peroxide (h2o2) and Oxidized Ascorbate and It Participates in the Gamma Glutamyl Cycle. 
    6888   Er to Golgi Vesicle Mediated Transport  The Directed Movement of Substances From the Endoplasmic Reticulum (er) to the Golgi Mediated by Cop Ii Vesicles. Small Cop Ii Coated Vesicles Form From the Er and Then Fuse Directly with the Cis Golgi. Larger Structures Are Transported Along Microtubules to the Cis Golgi. 
    6890   Retrograde Vesicle Mediated Transport Golgi to Er  The Directed Movement of Substances From the Golgi Back to the Endoplasmic Reticulum Mediated by Vesicles Bearing Specific Protein Coats Such As Copi or Cog. 
    9263   Deoxyribonucleotide Biosynthetic Process  The Chemical Reactions and Pathways Resulting in the Formation of a Deoxyribonucleotide a Compound Consisting of Deoxyribonucleoside (a Base Linked to a Deoxyribose Sugar) Esterified with a Phosphate Group At Either the 3' or 5' Hydroxyl Group of the Sugar. 
    15031   Protein Transport  The Directed Movement of Proteins Into Out of or Within a Cell or Between Cells by Means of Some Agent Such As a Transporter or Pore. 
    42144   Vacuole Fusion Non Autophagic  The Fusion of Two Vacuole Membranes to Form a Single Vacuole. 
    45454   Cell Redox Homeostasis  Any Process That Maintains the Redox Environment of a Cell or Compartment Within a Cell. 
    55114   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. 
    80058   Protein Deglutathionylation  The Protein Modification Process in Which a Glutathione Molecule Is Removed From a Protein Amino Acid by Breaking a Disulfide Linkage. 
    139   Golgi Membrane  The Lipid Bilayer Surrounding Any of the Compartments of the Golgi Apparatus. 
    324   Fungal Type Vacuole  A Vacuole That Has Both Lytic and Storage Functions. the Fungal Vacuole Is a Large Membrane Bounded Organelle That Functions As a Reservoir For the Storage of Small Molecules (including Polyphosphate Amino Acids Several Divalent Cations (e.g. Calcium) Other Ions and Other Small Molecules) As Well As Being the Primary Compartment For Degradation. It Is an Acidic Compartment Containing an Ensemble of Acid Hydrolases. At Least in S. Cerevisiae There Are Indications That the Morphology of the Vacuole Is Variable and Correlated with the Cell Cycle with Logarithmically Growing Cells Having a Multilobed Reticulated Vacuole While Stationary Phase Cells Contain a Single Large Structure. 
    5634   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. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    5794   Golgi Apparatus  A Compound Membranous Cytoplasmic Organelle of Eukaryotic Cells Consisting of Flattened Ribosome Free Vesicles Arranged in a More or Less Regular Stack. the Golgi Apparatus Differs From the Endoplasmic Reticulum in Often Having Slightly Thicker Membranes Appearing in Sections As a Characteristic Shallow Semicircle So That the Convex Side (cis or Entry Face) Abuts the Endoplasmic Reticulum Secretory Vesicles Emerging From the Concave Side (trans or Exit Face). in Vertebrate Cells There Is Usually One Such Organelle While in Invertebrates and Plants Where They Are Known Usually As Dictyosomes There May Be Several Scattered in the Cytoplasm. the Golgi Apparatus Processes Proteins Produced On the Ribosomes of the Rough Endoplasmic Reticulum; Such Processing Includes Modification of the Core Oligosaccharides of Glycoproteins and the Sorting and Packaging of Proteins For Transport to a Variety of Cellular Locations. Three Different Regions of the Golgi Are Now Recognized Both in Terms of Structure and Function: Cis in the Vicinity of the Cis Face Trans in the Vicinity of the Trans Face and Medial Lying Between the Cis and Trans Regions. 
    5829   Cytosol  The Part of the Cytoplasm That Does Not Contain Organelles But Which Does Contain Other Particulate Matter Such As Protein Complexes. 
    16020   Membrane  Double Layer of Lipid Molecules That Encloses All Cells and in Eukaryotes Many Organelles; May Be a Single or Double Lipid Bilayer; Also Includes Associated Proteins. 
    15035   Protein Disulfide Oxidoreductase Activity  Catalysis of the Reaction: a Protein with Reduced Sulfide Groups = a Protein with Oxidized Disulfide Bonds. 
    15036   Disulfide Oxidoreductase Activity  Catalysis of the Reaction: Substrate with Reduced Sulfide Groups = Substrate with Oxidized Disulfide Bonds. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain B
    Common Name Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain S288C
    Gene g7746, trx1, trx2, ygr209c
    Host Scientific Name Escherichia coli  
    Host Strain Rosetta (de3)
    Host Vector Type Plasmid
    Host Plasmid Name pET28a-derived


    Chain A
    Common Name Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain S288C
    Gene ahp1, l2916, l9354.5, ylr109w
    Host Scientific Name Escherichia coli  
    Host Strain Rosetta (de3)
    Host Vector Type Plasmid
    Host Plasmid Name pET29a-derived


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    VII - 853123     thioredoxin TRX2 TRX2    
    XII - 850799     Ahp1p AHP1