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CRYSTAL STRUCTURE OF PHOSPHONATE-INHIBITED D-ALA-D-ALA PEPTIDASE REVEALS AN ANALOG OF A TETRAHEDRAL TRANSITION STATE
Biology and Chemistry Report
1MPL
  •   Structure Details   Hide

    Structure Keywords

    Keywords HYDROLASE
    Text TRANSITION STATE ANALOG, PEPTIDOGLYCAN, PENICILLIN BINDING PROTEIN, HYDROLASE

    Polymeric Molecules

    Chain A
    Description D-alanyl-D-alanine carboxypeptidase 
    Fragment DD-Peptidase 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 37422.9 
    Source Method natural source  
    Entity Name D-ALANYL-D-ALANINE TRANSPEPTIDASE, DD- peptidase, DD-carboxypeptidase 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    GOL  GLYCEROL  C3 H8 O3   92.09  View 
    RE1  GLYCYL-L-A-AMINOPIMELYL-E-(D-2-AMINOETHYL)PHOSPHONATE  C11 H21 N3 O7 P   338.27  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A DAC_STRSR P15555     

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc Catalytic Site(s)
    3.4.16.4        
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A
    GO ID   Ontology GO Term Definition
    6508   Proteolysis  The Hydrolysis of Proteins Into Smaller Polypeptides And/or Amino Acids by Cleavage of Their Peptide Bonds. 
    8360   Regulation of Cell Shape  Any Process That Modulates the Surface Configuration of a Cell. 
    9252   Peptidoglycan Biosynthetic Process  The Chemical Reactions and Pathways Resulting in the Formation of Peptidoglycans Any of a Class of Glycoconjugates Found in Bacterial Cell Walls. 
    71555   Cell Wall Organization  A Process That Results in the Assembly Arrangement of Constituent Parts or Disassembly of the Cell Wall the Rigid or Semi Rigid Envelope Lying Outside the Cell Membrane of Plant Fungal and Most Prokaryotic Cells Maintaining Their Shape and Protecting Them From Osmotic Lysis. 
    5576   Extracellular Region  The Space External to the Outermost Structure of a Cell. For Cells Without External Protective or External Encapsulating Structures This Refers to Space Outside of the Plasma Membrane. This Term Covers the Host Cell Environment Outside an Intracellular Parasite. 
    4180   Carboxypeptidase Activity  Catalysis of the Hydrolysis of the Terminal or Penultimate Peptide Bond At the C Terminal End of a Peptide or Polypeptide. 
    8233   Peptidase Activity  Catalysis of the Hydrolysis of a Peptide Bond. a Peptide Bond Is a Covalent Bond Formed When the Carbon Atom From the Carboxyl Group of One Amino Acid Shares Electrons with the Nitrogen Atom From the Amino Group of a Second Amino Acid. 
    9002   Serine Type D Ala D Ala Carboxypeptidase Activity  Catalysis of the Reaction: (ac)2 L Lys D Alanyl D Alanine + H2o = (ac)2 L Lys D Alanine + D Alanine. 
    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. 


     
  •   Gene Details   Hide

    Natural Source

    Chain A
    Scientific Name Streptomyces sp.  
    Genus Streptomyces
    Strain R61