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Crystal Structure of New Delhi Metallo-beta-Lactamase-1 D223A mutant from Klebsiella pneumoniae
Biology and Chemistry Report
4GYQ
  •   Structure Details   Hide

    Structure Keywords

    Keywords HYDROLASE
    Text Structural Genomics, PSI-Biology, Midwest Center for Structural Genomics, MCSG, Structures of Mtb Proteins Conferring Susceptibility to Known Mtb Inhibitors, MTBI, alpha-beta-beta-alpha fold, hydrolase

    Polymeric Molecules

    Chain A,B,C,D
    Description Beta-lactamase NDM-1 
    Mutation D223A 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 25674.1 
    Source Method genetically manipulated  
    Entity Name NDM-1, Metallo-beta-lactamase NDM-1 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    EDO  1,2-ETHANEDIOL  C2 H6 O2   62.07  View 
    MG  MAGNESIUM ION  Mg   24.31  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,B,C,D BLAN1_KLEPN C7C422     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    A B C D  3.5.2.6      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A,B,C,D
    GO ID   Ontology GO Term Definition
    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. 
    46677   Response to Antibiotic  Any Process That Results in a Change in State or Activity of a Cell or an Organism (in Terms of Movement Secretion Enzyme Production Gene Expression Etc.) As a Result of an Antibiotic Stimulus. an Antibiotic Is a Chemical Substance Produced by a Microorganism Which Has the Capacity to Inhibit the Growth of or to Kill Other Microorganisms. 
    42597   Periplasmic Space  The Region Between the Inner (cytoplasmic) and Outer Membrane (gram Negative Bacteria) or Cytoplasmic Membrane and Cell Wall (fungi and Gram Positive Bacteria). 
    8800   Beta Lactamase Activity  Catalysis of the Reaction: a Beta Lactam + H2o = a Substituted Beta Amino Acid. 
    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. 
    46872   Metal Ion Binding  Interacting Selectively and Non Covalently with Any Metal Ion. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain A,B,C,D
    Scientific Name Klebsiella pneumoniae  
    Gene blandm-1
    Host Scientific Name Escherichia coli  
    Host Strain Bl21 Magic
    Host Vector Type Plasmid
    Host Plasmid Name pMCSG7


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    - - 11934636     Metallo Beta Lactamase PNDMMAR_P010    
    - - 13913959     NDM-1 metallo-beta-lactamase BLANDM-1    
    - - 13914060     metallo-beta-lactamase, NDM-1 BLANDM-1    
    - - 13914125     metallo-beta-lactamase (MBL) NDM-1 BLANDM-1    
    - - 13914405     NDM-1 metallo-beta-lactamase D647_P3097    
    - - 14258327     beta-lactamase-encoding gene BLANDM-1    
    - - 14858116     metallo-beta-lactamase, NDM-1 BLANDM-1    
    - - 15407950     NDM_carbapenemase BLANDM-1    
    - - 17373266     metallo-beta-lactamase NDM-1 BLANDM-1    
    - - 18983573     New Delhi metallo-beta-lactamase BLANDM-1