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H2-reduced structure of E. coli hydrogenase-1
Biology and Chemistry Report
3UQY
  •   Structure Details   Hide

    Structure Keywords

    Keywords OXIDOREDUCTASE
    Text MEMBRANE-BOUND HYDROGENASE, OXIDOREDUCTASE

    Polymeric Molecules

    Chain S,T
    Description Hydrogenase-1 small chain 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 36815.0 
    Source Method genetically manipulated  
    Entity Name HYD1, Membrane-bound hydrogenase 1 small subunit, NiFe hydrogenase 
    Chain L,M
    Description Hydrogenase-1 large chain 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 64752.0 
    Source Method genetically manipulated  
    Entity Name HYD1, Membrane-bound hydrogenase 1 large subunit, NiFe hydrogenase 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    CL  CHLORIDE ION  Cl   35.45  View 
    F3S  FE3-S4 CLUSTER  Fe3 S4   295.80  View 
    F4S  FE4-S3 CLUSTER  Fe4 S3   319.58  View 
    FCO  CARBONMONOXIDE-(DICYANO) IRON  C3 Fe N2 O   135.89  View 
    GOL  GLYCEROL  C3 H8 O3   92.09  View 
    LMT  DODECYL-BETA-D-MALTOSIDE  C24 H46 O11   510.62  View 
    MG  MAGNESIUM ION  Mg   24.31  View 
    NI  NICKEL (II) ION  Ni   58.69  View 
    SF4  IRON/SULFUR CLUSTER  Fe4 S4   351.64  View 
    SO4  SULFATE ION  O4 S   96.06  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    L,M MBHL_ECOLI P0ACD8     
    S,T MBHS_ECOLI P69739     

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    S T  1.12.99.6      
    L M  1.12.99.6      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain L,M
    GO ID   Ontology GO Term Definition
    6113   Fermentation  The Anaerobic Enzymatic Conversion of Organic Compounds Especially Carbohydrates Coupling the Oxidation and Reduction of Nad/h and the Generation of Adenosine Triphosphate (atp). 
    9061   Anaerobic Respiration  The Enzymatic Release of Energy From Inorganic and Organic Compounds (especially Carbohydrates and Fats) Which Uses Compounds Other Than Oxygen (e.g. Nitrate Sulfate) As the Terminal Electron Acceptor. 
    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. 
    5886   Plasma Membrane  The Membrane Surrounding a Cell That Separates the Cell From Its External Environment. It Consists of a Phospholipid Bilayer and Associated Proteins. 
    16020   Membrane  A Lipid Bilayer Along with All the Proteins and Protein Complexes Embedded in It an Attached to It. 
    30288   Outer Membrane Bounded Periplasmic Space  The Region Between the Inner (cytoplasmic or Plasma) Membrane and Outer Membrane of Organisms with Two Membranes Such As Gram Negative Bacteria. These Periplasmic Spaces Are Relatively Thick and Contain a Thin Cell Wall. 
    44569   [ni Fe] Hydrogenase Complex  A Microbial Enzyme Complex Which Contains Nickel and Iron in Its Active Site. in Acetomicrobium Flavidum It Is an Alpha 2 Beta 2 Tetramer. 
    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). 
    8901   Ferredoxin Hydrogenase Activity  Catalysis of the Reaction: 2 Reduced Ferredoxin + 2 H+ = 2 Oxidized Ferredoxin + H2. 
    9055   Electron Carrier Activity  Any Molecular Entity That Serves As an Electron Acceptor and Electron Donor in an Electron Transport Chain. an Electron Transport Chain Is a Process in Which a Series of Electron Carriers Operate Together to Transfer Electrons From Donors to Any of Several Different Terminal Electron Acceptors to Generate a Transmembrane Electrochemical Gradient. 
    16151   Nickel Cation Binding  Interacting Selectively and Non Covalently with Nickel (ni) Cations. 
    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. 
    33748   Hydrogenase (acceptor) Activity  Catalysis of the Reaction: H2 + a = Ah2. 
    46872   Metal Ion Binding  Interacting Selectively and Non Covalently with Any Metal Ion. 
    Chain S,T
    GO ID   Ontology GO Term Definition
    6113   Fermentation  The Anaerobic Enzymatic Conversion of Organic Compounds Especially Carbohydrates Coupling the Oxidation and Reduction of Nad/h and the Generation of Adenosine Triphosphate (atp). 
    9061   Anaerobic Respiration  The Enzymatic Release of Energy From Inorganic and Organic Compounds (especially Carbohydrates and Fats) Which Uses Compounds Other Than Oxygen (e.g. Nitrate Sulfate) As the Terminal Electron Acceptor. 
    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. 
    5886   Plasma Membrane  The Membrane Surrounding a Cell That Separates the Cell From Its External Environment. It Consists of a Phospholipid Bilayer and Associated Proteins. 
    9375   Ferredoxin Hydrogenase Complex  An Enzyme Complex That Catalyzes the Oxidation of Reduced Ferredoxin. Hydrogenase Contains Iron Sulfur Clusters and Some Contain Nickel; It Can Use Molecular Hydrogen For the Reduction of a Variety of Substances. 
    16020   Membrane  A Lipid Bilayer Along with All the Proteins and Protein Complexes Embedded in It an Attached to It. 
    16021   Integral Component of Membrane  The Component of a Membrane Consisting of the Gene Products and Protein Complexes Having At Least Some Part of Their Peptide Sequence Embedded in the Hydrophobic Region of the Membrane. 
    31237   Intrinsic Component of Periplasmic Side of Plasma Membrane  The Component of a Plasma Membrane Consisting of Gene Products and Protein Complexes That Penetrate the Periplasmic Side of the Plasma Membrane Only Either Directly or Via Some Covalently Attached Hydrophobic Anchor. 
    44569   [ni Fe] Hydrogenase Complex  A Microbial Enzyme Complex Which Contains Nickel and Iron in Its Active Site. in Acetomicrobium Flavidum It Is an Alpha 2 Beta 2 Tetramer. 
    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). 
    8901   Ferredoxin Hydrogenase Activity  Catalysis of the Reaction: 2 Reduced Ferredoxin + 2 H+ = 2 Oxidized Ferredoxin + H2. 
    9055   Electron Carrier Activity  Any Molecular Entity That Serves As an Electron Acceptor and Electron Donor in an Electron Transport Chain. an Electron Transport Chain Is a Process in Which a Series of Electron Carriers Operate Together to Transfer Electrons From Donors to Any of Several Different Terminal Electron Acceptors to Generate a Transmembrane Electrochemical Gradient. 
    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. 
    33748   Hydrogenase (acceptor) Activity  Catalysis of the Reaction: H2 + a = Ah2. 
    46872   Metal Ion Binding  Interacting Selectively and Non Covalently with Any Metal Ion. 
    51536   Iron Sulfur Cluster Binding  Interacting Selectively and Non Covalently with an Iron Sulfur Cluster a Combination of Iron and Sulfur Atoms. 
    51538   3 Iron 4 Sulfur Cluster Binding  Interacting Selectively and Non Covalently with a 3 Iron 4 Sulfur (3fe 4s) Cluster; This Cluster Consists of Three Iron Atoms with the Inorganic Sulfur Atoms Found Between the Irons and Acting As Bridging Ligands. It Is Essentially a 4fe 4s Cluster with One Iron Missing. 
    51539   4 Iron 4 Sulfur Cluster Binding  Interacting Selectively and Non Covalently with a 4 Iron 4 Sulfur (4fe 4s) Cluster; This Cluster Consists of Four Iron Atoms with the Inorganic Sulfur Atoms Found Between the Irons and Acting As Bridging Ligands. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain L,M
    Scientific Name Escherichia coli  
    Strain MC4100
    Gene b0973, hyab, jw0955
    Host Scientific Name Escherichia coli  
    Host Strain Fth004


    Chain S,T
    Scientific Name Escherichia coli  
    Strain MC4100
    Gene b0972, hyaa, jw0954
    Host Scientific Name Escherichia coli  
    Host Strain Fth004