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Crystal structure of orotidine 5'-monophosphate decarboxylase from Metallosphaera sedula complexed with inhibitor BMP
Biology and Chemistry Report
3VE7
  •   Structure Details   Hide

    Structure Keywords

    Keywords LYASE/LYASE INHIBITOR
    Text tim barrel fold, orotidine 5'-monophosphate decarboxylase, inhibitor BMP, LYASE-LYASE INHIBITOR complex

    Polymeric Molecules

    Chain A,B
    Description Orotidine-5'-phosphate decarboxylase 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 23434.3 
    Source Method genetically manipulated  

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    ACY  ACETIC ACID  C2 H4 O2   60.05  View 
    BMP  6-HYDROXYURIDINE-5'-PHOSPHATE  C9 H13 N2 O10 P   340.18  View 
    SO4  SULFATE ION  O4 S   96.06  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,B A4YI54_METS5 A4YI54     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    A B  4.1.1.23      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A,B
    GO ID   Ontology GO Term Definition
    6207   'de Novo' Pyrimidine Nucleobase Biosynthetic Process  The Chemical Reactions and Pathways Resulting in the Formation of Pyrimidine Nucleobases 1 3 Diazine Organic Nitrogenous Bases Beginning with the Synthesis of a Pyrimidine Ring From Simpler Precursors. 
    8152   Metabolic Process  The Chemical Reactions and Pathways Including Anabolism and Catabolism by Which Living Organisms Transform Chemical Substances. Metabolic Processes Typically Transform Small Molecules But Also Include Macromolecular Processes Such As DNA Repair and Replication and Protein Synthesis and Degradation. 
    3824   Catalytic Activity  Catalysis of a Biochemical Reaction At Physiological Temperatures. in Biologically Catalyzed Reactions the Reactants Are Known As Substrates and the Catalysts Are Naturally Occurring Macromolecular Substances Known As Enzymes. Enzymes Possess Specific Binding Sites For Substrates and Are Usually Composed Wholly or Largely of Protein But RNA That Has Catalytic Activity (ribozyme) Is Often Also Regarded As Enzymatic. 
    4590   Orotidine 5' Phosphate Decarboxylase Activity  Catalysis of the Reaction: H(+) + Orotidine 5' Phosphate = Co(2) + Ump. 
    16829   Lyase Activity  Catalysis of the Cleavage of C C C O C N and Other Bonds by Other Means Than by Hydrolysis or Oxidation or Conversely Adding a Group to a Double Bond. They Differ From Other Enzymes in That Two Substrates Are Involved in One Reaction Direction But Only One in the Other Direction. When Acting On the Single Substrate a Molecule Is Eliminated and This Generates Either a New Double Bond or a New Ring. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain A,B
    Scientific Name Metallosphaera sedula dsm 5348  
    Strain ATCC 51363 / DSM 5348
    Gene msed_1966
    Host Scientific Name Escherichia coli