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Crystal Structure of the Heterotrimeric EGChead Peripheral Stalk Complex of the Yeast Vacuolar ATPase - second conformation
Biology and Chemistry Report
4EFA
  •   Structure Details   Hide

    Structure Keywords

    Keywords HYDROLASE
    Text heterotrimer, peripheral stalk, vacuolar ATPase, HYDROLASE

    Polymeric Molecules

    Chain C
    Description V-type proton ATPase subunit C 
    Fragment UNP Residues 158-277 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 14586.6 
    Source Method genetically manipulated  
    Entity Name V-ATPase subunit C, V-ATPase 42 kDa subunit, Vacuolar proton pump subunit C 
    Chain G
    Description V-type proton ATPase subunit G 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 13218.4 
    Source Method genetically manipulated  
    Entity Name V-ATPase subunit G, V-ATPase 13 kDa subunit, Vacuolar proton pump subunit G 
    Chain E
    Description V-type proton ATPase subunit E 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 26508.6 
    Source Method genetically manipulated  
    Entity Name V-ATPase subunit E, V-ATPase 27 kDa subunit, Vacuolar proton pump subunit E 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    SO4  SULFATE ION  O4 S   96.06  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    C VATC_YEAST D6VXK7     
    G VATG_YEAST D3DKY7     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    3.6.3.14      
    3.6.3.14      
    3.6.3.14      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain C
    GO ID   Ontology GO Term Definition
    15991   ATP Hydrolysis Coupled Proton Transport  The Transport of Protons Against an Electrochemical Gradient Using Energy From ATP Hydrolysis. 
    33180   Proton Transporting V Type Atpase V1 Domain  A Protein Complex That Forms Part of a Proton Transporting V Type Atpase and Catalyzes ATP Hydrolysis. the V1 Complex Consists Of: (1) a Globular Headpiece with Three Alternating Copies of Subunits a and B That Form a Ring (2) a Central Rotational Stalk Composed of Single Copies of Subunits D and F and (3) a Peripheral Stalk Made of Subunits C E G and H. Subunits a and B Mediate the Hydrolysis of ATP At Three Reaction Sites Associated with Subunit A. 
    15078   Hydrogen Ion Transmembrane Transporter Activity  Catalysis of the Transfer of Hydrogen Ions From One Side of a Membrane to the Other. 
    Chain E
    GO ID   Ontology GO Term Definition
    6810   Transport  The Directed Movement of Substances (such As Macromolecules Small Molecules Ions) Into Out of or Within a Cell or Between Cells or Within a Multicellular Organism by Means of Some Agent Such As a Transporter or Pore. 
    6811   Ion Transport  The Directed Movement of Charged Atoms or Small Charged Molecules Into Out of or Within a Cell or Between Cells by Means of Some Agent Such As a Transporter or Pore. 
    7035   Vacuolar Acidification  Any Process That Reduces the Ph of the Vacuole Measured by the Concentration of the Hydrogen Ion. 
    15991   ATP Hydrolysis Coupled Proton Transport  The Transport of Protons Against an Electrochemical Gradient Using Energy From ATP Hydrolysis. 
    15992   Proton Transport  The Directed Movement of Protons (hydrogen Ions) Into Out of or Within a Cell or Between Cells by Means of Some Agent Such As a Transporter or Pore. 
    221   Vacuolar Proton Transporting V Type Atpase V1 Domain  The V1 Domain of a Proton Transporting V Type Atpase Found in the Vacuolar Membrane. 
    329   Fungal Type Vacuole Membrane  The Lipid Bilayer Surrounding a Vacuole the Shape of Which Correlates with Cell Cycle Phase. the Membrane Separates Its Contents From the Cytoplasm of the Cell. an Example of This Structure Is Found in Saccharomyces Cerevisiae. 
    5773   Vacuole  A Closed Structure Found Only in Eukaryotic Cells That Is Completely Surrounded by Unit Membrane and Contains Liquid Material. Cells Contain One or Several Vacuoles That May Have Different Functions From Each Other. Vacuoles Have a Diverse Array of Functions. They Can Act As a Storage Organelle For Nutrients or Waste Products As a Degradative Compartment As a Cost Effective Way of Increasing Cell Size and As a Homeostatic Regulator Controlling Both Turgor Pressure and Ph of the Cytosol. 
    5774   Vacuolar Membrane  The Lipid Bilayer Surrounding the Vacuole and Separating Its Contents From the Cytoplasm of the Cell. 
    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. 
    33178   Proton Transporting Two Sector Atpase Complex Catalytic Domain  A Protein Complex That Forms Part of a Proton Transporting Two Sector Atpase Complex and Catalyzes ATP Hydrolysis or Synthesis. the Catalytic Domain (f1 V1 or A1) Comprises a Hexameric Catalytic Core and a Central Stalk and Is Peripherally Associated with the Membrane When the Two Sector Atpase Is Assembled. 
    5515   Protein Binding  Interacting Selectively and Non Covalently with Any Protein or Protein Complex (a Complex of Two or More Proteins That May Include Other Nonprotein Molecules). 
    46961   Proton Transporting Atpase Activity Rotational Mechanism  Catalysis of the Transfer of Protons From One Side of a Membrane to the Other According to the Reaction: ATP + H2o + H+(in) = Adp + Phosphate + H+(out) by a Rotational Mechanism. 
    Chain G
    GO ID   Ontology GO Term Definition
    6810   Transport  The Directed Movement of Substances (such As Macromolecules Small Molecules Ions) Into Out of or Within a Cell or Between Cells or Within a Multicellular Organism by Means of Some Agent Such As a Transporter or Pore. 
    6811   Ion Transport  The Directed Movement of Charged Atoms or Small Charged Molecules Into Out of or Within a Cell or Between Cells by Means of Some Agent Such As a Transporter or Pore. 
    7035   Vacuolar Acidification  Any Process That Reduces the Ph of the Vacuole Measured by the Concentration of the Hydrogen Ion. 
    15992   Proton Transport  The Directed Movement of Protons (hydrogen Ions) Into Out of or Within a Cell or Between Cells by Means of Some Agent Such As a Transporter or Pore. 
    55085   Transmembrane Transport  The Process in Which a Solute Is Transported From One Side of a Membrane to the Other. 
    1902600   Hydrogen Ion Transmembrane Transport  The Directed Movement of Hydrogen Ion (proton) Across a Membrane. 
    221   Vacuolar Proton Transporting V Type Atpase V1 Domain  The V1 Domain of a Proton Transporting V Type Atpase Found in the Vacuolar Membrane. 
    16471   Vacuolar Proton Transporting V Type Atpase Complex  A Proton Transporting Two Sector Atpase Complex Found in the Vacuolar Membrane Where It Acts As a Proton Pump to Mediate Acidification of the Vacuolar Lumen. 
    16820   Hydrolase Activity Acting On Acid Anhydrides Catalyzing Transmembrane Movement of Substances  Catalysis of the Hydrolysis of an Acid Anhydride to Directly Drive the Transport of a Substance Across a Membrane. 
    46961   Proton Transporting Atpase Activity Rotational Mechanism  Catalysis of the Transfer of Protons From One Side of a Membrane to the Other According to the Reaction: ATP + H2o + H+(in) = Adp + Phosphate + H+(out) by a Rotational Mechanism. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain E
    Common Name Baker's Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain ATCC 204508 / S288C
    Gene o6241, vat5, vma4, yor332w
    Host Scientific Name Escherichia coli  
    Host Strain Rosetta2
    Host Vector Type Plasmid
    Host Plasmid Name pMALc2e


    Chain G
    Common Name Baker's Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain ATCC 204508 / S288C
    Gene vma10, yhr039bc, yhr039c-a, yhr039c-b
    Host Scientific Name Escherichia coli  
    Host Strain Rosetta2
    Host Vector Type Plasmid
    Host Plasmid Name pMALc2e


    Chain C
    Common Name Baker's Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain ATCC 204508 / S288C
    Gene vat3, vatc, vma5, ykl080w, ykl410
    Host Scientific Name Escherichia coli  
    Host Strain Rosetta2
    Host Vector Type Plasmid
    Host Plasmid Name pMALc2e


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    XV - 854509     H(+)-transporting V1 sector ATPase subunit E VMA4    
    XI - 853782     H(+)-transporting V1 sector ATPase subunit C VMA5    
    VIII - 856435     H(+)-transporting V1 sector ATPase subunit G VMA10