POP-OUT | CLOSE
 
STRUCTURE OF PORPHOBILINOGEN DEAMINASE REVEALS A FLEXIBLE MULTIDOMAIN POLYMERASE WITH A SINGLE CATALYTIC SITE
Biology and Chemistry Report
1PDA
  •   Structure Details   Hide

    Structure Keywords

    Keywords TRANSFERASE
    Text PORPHYRIN, TRANSFERASE

    Polymeric Molecules

    Chain A
    Description PORPHOBILINOGEN DEAMINASE 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 33892.1 
    Source Method genetically manipulated  

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    ACY  ACETIC ACID  C2 H4 O2   60.05  View 
    DPM  3-[5-{[3-(2-carboxyethyl)-4-(carboxymethyl)-5-methyl-1H-pyrrol-2-yl]methyl}-4-(carboxymethyl)-1H-pyrrol-3-yl]propanoic acid  C20 H24 N2 O8   420.41  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A HEM3_ECOLI P06983     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc Catalytic Site(s)
    2.5.1.61        
    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. 
    6783   Heme Biosynthetic Process  The Chemical Reactions and Pathways Resulting in the Formation of Heme Any Compound of Iron Complexed in a Porphyrin (tetrapyrrole) Ring From Less Complex Precursors. 
    18160   Peptidyl Pyrromethane Cofactor Linkage  The Covalent Binding of a Pyrromethane (dipyrrin) Cofactor to Protein Via the Sulfur Atom of Cysteine Forming Dipyrrolylmethanemethyl L Cysteine. 
    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. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    4418   Hydroxymethylbilane Synthase Activity  Catalysis of the Reaction: H(2)o + 4 Porphobilinogen = Hydroxymethylbilane + 4 Nh(4)(+). 
    16740   Transferase Activity  Catalysis of the Transfer of a Group E.g. a Methyl Group Glycosyl Group Acyl Group Phosphorus Containing or Other Groups From One Compound (generally Regarded As the Donor) to Another Compound (generally Regarded As the Acceptor). Transferase Is the Systematic Name For Any Enzyme of EC Class 2. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain A
    Scientific Name Escherichia coli  
    Genus Escherichia