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Crystal structure of HemD (PA5259) from Pseudomonas aeruginosa (PAO1) at 2.22 A resolution
Biology and Chemistry Report
  •   Structure Details   Hide

    Structure Keywords

    Keywords LYASE
    Text HEME-biosynthesis, Uroporphyrinogen-III synthase, cytoplasmic, LYASE

    Polymeric Molecules

    Chain A
    Description Uroporphyrinogen-III synthase 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 27588.6 
    Source Method genetically manipulated  
    Entity Name UROS, Hydroxymethylbilane hydrolyase [cyclizing], Uroporphyrinogen-III cosynthase 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    CL  CHLORIDE ION  Cl   35.45  View 
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A HEM4_PSEAE P48246     

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A
    GO ID   Ontology GO Term Definition
    6779   Porphyrin Containing Compound Biosynthetic Process  The Chemical Reactions and Pathways Resulting in the Formation of Any Member of a Large Group of Derivatives or Analogs of Porphyrin. Porphyrin Consists of a Ring of Four Pyrrole Nuclei Linked Each to the Next At Their Alpha Positions Through a Methine Group. 
    6782   Protoporphyrinogen Ix Biosynthetic Process  The Chemical Reactions and Pathways Resulting in the Formation of Protoporphyrinogen Ix. 
    33014   Tetrapyrrole Biosynthetic Process  The Chemical Reactions and Pathways Leading to the Formation of Tetrapyrroles Natural Pigments Containing Four Pyrrole Rings Joined by One Carbon Units Linking Position 2 of One Pyrrole Ring to Position 5 of the Next. 
    4852   Uroporphyrinogen Iii Synthase Activity  Catalysis of the Reaction: Hydroxymethylbilane = H(2)o + Uroporphyrinogen Iii. 
    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
    Scientific Name Pseudomonas aeruginosa  
    Strain PAO1
    Gene hemd, pa5259
    Host Scientific Name Escherichia coli  
    Host Strain Bl21(de3)
    Host Vector Type Plasmid
    Host Plasmid Name pET28a

    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    - - 879724     uroporphyrinogen-III synthase HEMD