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The structure of F1-ATPase from Saccharomyces cerevisiae inhibited by its regulatory protein IF1
Biology and Chemistry Report
3ZIA
  •   Structure Details   Hide

    Structure Keywords

    Keywords HYDROLASE
    Text HYDROLASE, NATURAL INHIBITOR, CATALYSIS, INTERMEDIATE

    Polymeric Molecules

    Chain A,B,C,K,L,M
    Description ATP SYNTHASE SUBUNIT ALPHA, MITOCHONDRIAL 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 55008.1 
    Source Method natural source  
    Entity Name F1-ATPASE 
    Chain D,E,F,N,O,P
    Description ATP SYNTHASE SUBUNIT BETA, MITOCHONDRIAL 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 51181.7 
    Source Method natural source  
    Entity Name F1-ATPASE 
    Chain G,Q
    Description ATP SYNTHASE SUBUNIT GAMMA, MITOCHONDRIAL 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 30657.4 
    Source Method natural source  
    Entity Name F-ATPASE GAMMA SUBUNIT, F1-ATPASE 
    Chain H,R
    Description ATP SYNTHASE SUBUNIT DELTA, MITOCHONDRIAL 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 14565.5 
    Source Method natural source  
    Entity Name F-ATPASE DELTA SUBUNIT, F1-ATPASE 
    Chain I,S
    Description ATP SYNTHASE SUBUNIT EPSILON, MITOCHONDRIAL 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 6618.4 
    Source Method natural source  
    Entity Name ATPASE SUBUNIT EPSILON, F1-ATPASE 
    Chain J,T
    Description ATPASE INHIBITOR, MITOCHONDRIAL 
    Fragment INHIBITOR PROTEIN, UNP RESIDUES 23-75 
    Mutation YES 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 7341.3 
    Source Method genetically manipulated  
    Entity Name F1-ATPASE INHIBITOR PROTEIN 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    ADP  ADENOSINE-5'-DIPHOSPHATE  C10 H15 N5 O10 P2   427.20  View 
    ATP  ADENOSINE-5'-TRIPHOSPHATE  C10 H16 N5 O13 P3   507.18  View 
    EDO  1,2-ETHANEDIOL  C2 H6 O2   62.07  View 
    MG  MAGNESIUM ION  Mg   24.31  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,B,C,K,L,M ATPA_YEAST D6VPQ6     
    D,E,F,N,O,P ATPB_YEAST D6VWU0     
    G,Q ATPG_YEAST D6VQ39     
    H,R ATPD_YEAST D6VRY4     
    I,S ATP5E_YEAST D6W399     
    J,T ATIF_YEAST D6VRH1     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    D E F N O P  3.6.3.14      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A,B,C,K,L,M
    GO ID   Ontology GO Term Definition
    6200   ATP Catabolic Process  The Chemical Reactions and Pathways Resulting in the Breakdown of ATP Adenosine 5' Triphosphate a Universally Important Coenzyme and Enzyme Regulator. 
    6754   ATP Biosynthetic Process  The Chemical Reactions and Pathways Resulting in the Formation of ATP Adenosine 5' Triphosphate a Universally Important Coenzyme and Enzyme Regulator. 
    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. 
    15986   ATP Synthesis Coupled Proton Transport  The Transport of Protons Across a Membrane to Generate an Electrochemical Gradient (proton Motive Force) That Powers ATP Synthesis. 
    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. 
    46034   ATP Metabolic Process  The Chemical Reactions and Pathways Involving ATP Adenosine Triphosphate a Universally Important Coenzyme and Enzyme Regulator. 
    5739   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. 
    5743   Mitochondrial Inner Membrane  The Inner I.e. Lumen Facing Lipid Bilayer of the Mitochondrial Envelope. It Is Highly Folded to Form Cristae. 
    5754   Mitochondrial Proton Transporting ATP Synthase Catalytic Core  The Hexamer Comprising Three Alpha and Three Beta Subunits That Possesses the Catalytic Activity of the Mitochondrial Hydrogen Transporting ATP Synthase. 
    5758   Mitochondrial Intermembrane Space  The Region Between the Inner and Outer Lipid Bilayers of the Mitochondrial Envelope. 
    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. 
    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. 
    42645   Mitochondrial Nucleoid  The Region of a Mitochondrion to Which the DNA Is Confined. 
    45261   Proton Transporting ATP Synthase Complex Catalytic Core F(1)  The Sector of a Hydrogen Transporting ATP Synthase Complex in Which the Catalytic Activity Resides; It Comprises the Catalytic Core and Central Stalk and Is Peripherally Associated with a Membrane Such As the Plasma Membrane or the Mitochondrial Inner Membrane When the Entire ATP Synthase Is Assembled. 
    166   Nucleotide Binding  Interacting Selectively and Non Covalently with a Nucleotide Any Compound Consisting of a Nucleoside That Is Esterified with (ortho)phosphate or an Oligophosphate At Any Hydroxyl Group On the Ribose or Deoxyribose. 
    5524   ATP Binding  Interacting Selectively and Non Covalently with ATP Adenosine 5' Triphosphate a Universally Important Coenzyme and Enzyme Regulator. 
    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. 
    16887   Atpase Activity  Catalysis of the Reaction: ATP + H2o = Adp + Phosphate + 2 H+. May or May Not Be Coupled to Another Reaction. 
    46933   Proton Transporting ATP Synthase Activity Rotational Mechanism  Catalysis of the Transfer of Protons From One Side of a Membrane to the Other According to the Reaction: Adp + H2o + Phosphate + H+(in) = ATP + H+(out) by a Rotational Mechanism. 
    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 D,E,F,N,O,P
    GO ID   Ontology GO Term Definition
    6200   ATP Catabolic Process  The Chemical Reactions and Pathways Resulting in the Breakdown of ATP Adenosine 5' Triphosphate a Universally Important Coenzyme and Enzyme Regulator. 
    6754   ATP Biosynthetic Process  The Chemical Reactions and Pathways Resulting in the Formation of ATP Adenosine 5' Triphosphate a Universally Important Coenzyme and Enzyme Regulator. 
    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. 
    15986   ATP Synthesis Coupled Proton Transport  The Transport of Protons Across a Membrane to Generate an Electrochemical Gradient (proton Motive Force) That Powers ATP Synthesis. 
    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. 
    46034   ATP Metabolic Process  The Chemical Reactions and Pathways Involving ATP Adenosine Triphosphate a Universally Important Coenzyme and Enzyme Regulator. 
    5739   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. 
    5743   Mitochondrial Inner Membrane  The Inner I.e. Lumen Facing Lipid Bilayer of the Mitochondrial Envelope. It Is Highly Folded to Form Cristae. 
    5754   Mitochondrial Proton Transporting ATP Synthase Catalytic Core  The Hexamer Comprising Three Alpha and Three Beta Subunits That Possesses the Catalytic Activity of the Mitochondrial Hydrogen Transporting ATP Synthase. 
    5758   Mitochondrial Intermembrane Space  The Region Between the Inner and Outer Lipid Bilayers of the Mitochondrial Envelope. 
    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. 
    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. 
    45261   Proton Transporting ATP Synthase Complex Catalytic Core F(1)  The Sector of a Hydrogen Transporting ATP Synthase Complex in Which the Catalytic Activity Resides; It Comprises the Catalytic Core and Central Stalk and Is Peripherally Associated with a Membrane Such As the Plasma Membrane or the Mitochondrial Inner Membrane When the Entire ATP Synthase Is Assembled. 
    166   Nucleotide Binding  Interacting Selectively and Non Covalently with a Nucleotide Any Compound Consisting of a Nucleoside That Is Esterified with (ortho)phosphate or an Oligophosphate At Any Hydroxyl Group On the Ribose or Deoxyribose. 
    5524   ATP Binding  Interacting Selectively and Non Covalently with ATP Adenosine 5' Triphosphate a Universally Important Coenzyme and Enzyme Regulator. 
    16787   Hydrolase Activity  Catalysis of the Hydrolysis of Various Bonds E.g. C O C N C C Phosphoric Anhydride Bonds Etc. Hydrolase Is the Systematic Name For Any Enzyme of EC Class 3. 
    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. 
    16887   Atpase Activity  Catalysis of the Reaction: ATP + H2o = Adp + Phosphate + 2 H+. May or May Not Be Coupled to Another Reaction. 
    46933   Proton Transporting ATP Synthase Activity Rotational Mechanism  Catalysis of the Transfer of Protons From One Side of a Membrane to the Other According to the Reaction: Adp + H2o + Phosphate + H+(in) = ATP + H+(out) by a Rotational Mechanism. 
    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,Q
    GO ID   Ontology GO Term Definition
    15986   ATP Synthesis Coupled Proton Transport  The Transport of Protons Across a Membrane to Generate an Electrochemical Gradient (proton Motive Force) That Powers ATP Synthesis. 
    45261   Proton Transporting ATP Synthase Complex Catalytic Core F(1)  The Sector of a Hydrogen Transporting ATP Synthase Complex in Which the Catalytic Activity Resides; It Comprises the Catalytic Core and Central Stalk and Is Peripherally Associated with a Membrane Such As the Plasma Membrane or the Mitochondrial Inner Membrane When the Entire ATP Synthase Is Assembled. 
    46933   Proton Transporting ATP Synthase Activity Rotational Mechanism  Catalysis of the Transfer of Protons From One Side of a Membrane to the Other According to the Reaction: Adp + H2o + Phosphate + H+(in) = ATP + H+(out) by a Rotational Mechanism. 
    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 H,R
    GO ID   Ontology GO Term Definition
    15986   ATP Synthesis Coupled Proton Transport  The Transport of Protons Across a Membrane to Generate an Electrochemical Gradient (proton Motive Force) That Powers ATP Synthesis. 
    45261   Proton Transporting ATP Synthase Complex Catalytic Core F(1)  The Sector of a Hydrogen Transporting ATP Synthase Complex in Which the Catalytic Activity Resides; It Comprises the Catalytic Core and Central Stalk and Is Peripherally Associated with a Membrane Such As the Plasma Membrane or the Mitochondrial Inner Membrane When the Entire ATP Synthase Is Assembled. 
    46933   Proton Transporting ATP Synthase Activity Rotational Mechanism  Catalysis of the Transfer of Protons From One Side of a Membrane to the Other According to the Reaction: Adp + H2o + Phosphate + H+(in) = ATP + H+(out) by a Rotational Mechanism. 
    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 I,S
    GO ID   Ontology GO Term Definition
    6200   ATP Catabolic Process  The Chemical Reactions and Pathways Resulting in the Breakdown of ATP Adenosine 5' Triphosphate a Universally Important Coenzyme and Enzyme Regulator. 
    6754   ATP Biosynthetic Process  The Chemical Reactions and Pathways Resulting in the Formation of ATP Adenosine 5' Triphosphate a Universally Important Coenzyme and Enzyme Regulator. 
    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. 
    15986   ATP Synthesis Coupled Proton Transport  The Transport of Protons Across a Membrane to Generate an Electrochemical Gradient (proton Motive Force) That Powers ATP Synthesis. 
    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. 
    275   Mitochondrial Proton Transporting ATP Synthase Complex Catalytic Core F(1)  The Catalytic Sector of the Mitochondrial Hydrogen Transporting ATP Synthase; It Comprises the Catalytic Core and Central Stalk and Is Peripherally Associated with the Mitochondrial Inner Membrane When the Entire ATP Synthase Is Assembled. 
    5739   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. 
    5743   Mitochondrial Inner Membrane  The Inner I.e. Lumen Facing Lipid Bilayer of the Mitochondrial Envelope. It Is Highly Folded to Form Cristae. 
    5756   Mitochondrial Proton Transporting ATP Synthase Central Stalk  One of Two Stalks That Connect the Catalytic Core of the Hydrogen Transporting ATP Synthase to the Mitochondrial Membrane Associated F0 Proteins; Rotates Within the Catalytic Core During Catalysis. 
    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. 
    45261   Proton Transporting ATP Synthase Complex Catalytic Core F(1)  The Sector of a Hydrogen Transporting ATP Synthase Complex in Which the Catalytic Activity Resides; It Comprises the Catalytic Core and Central Stalk and Is Peripherally Associated with a Membrane Such As the Plasma Membrane or the Mitochondrial Inner Membrane When the Entire ATP Synthase Is Assembled. 
    16787   Hydrolase Activity  Catalysis of the Hydrolysis of Various Bonds E.g. C O C N C C Phosphoric Anhydride Bonds Etc. Hydrolase Is the Systematic Name For Any Enzyme of EC Class 3. 
    16887   Atpase Activity  Catalysis of the Reaction: ATP + H2o = Adp + Phosphate + 2 H+. May or May Not Be Coupled to Another Reaction. 
    46933   Proton Transporting ATP Synthase Activity Rotational Mechanism  Catalysis of the Transfer of Protons From One Side of a Membrane to the Other According to the Reaction: Adp + H2o + Phosphate + H+(in) = ATP + H+(out) by a Rotational Mechanism. 
    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 J,T
    GO ID   Ontology GO Term Definition
    45980   Negative Regulation of Nucleotide Metabolic Process  Any Process That Stops Prevents or Reduces the Frequency Rate or Extent of the Chemical Reactions and Pathways Involving Nucleotides. 
    5739   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. 
    4857   Enzyme Inhibitor Activity  Stops Prevents or Reduces the Activity of an Enzyme. 


     
  •   Gene Details   Hide

    Natural Source

    Chain D,E,F,N,O,P
    Common Name Baker's Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain W303-A1
    Chain I,S
    Common Name Baker's Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain W303-1A
    Chain G,Q
    Common Name Baker's Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain W303-1A
    Chain A,B,C,K,L,M
    Common Name Baker's Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain W303-1A
    Chain H,R
    Common Name Baker's Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain W303-1A

    Genetic Source

    Chain J,T
    Common Name Baker's Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain W303-A1
    Host Scientific Name Escherichia coli  
    Host Variant C41
    Host Strain Bl21(de3)
    Host Vector Type Plasmid


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    II - 852177     F1F0 ATP synthase subunit alpha ATP1    
    II - 852327     F1F0 ATP synthase subunit gamma ATP3    
    X - 853585     F1F0 ATP synthase subunit beta ATP2    
    IV - 851560     F1F0 ATP synthase subunit delta ATP16    
    IV - 851347     Inh1p INH1    
    XVI - 855857     F1F0 ATP synthase subunit epsilon ATP15