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An Information Portal to 105025 Biological Macromolecular Structures

Improved crystal structure of Pseudomonas aeruginosa OprD
Biology and Chemistry Report
3SY7
  •   Structure Details   Hide

    Structure Keywords

    Keywords membrane protein
    Text beta-barrel, channel, outer membrane, membrane protein

    Polymeric Molecules

    Chain A
    Description Porin D 
    Fragment unp residues 24-443 
    Mutation V140F 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 46950.7 
    Source Method genetically manipulated  
    Entity Name Imipenem/basic amino acid-specific outer membrane pore, Outer membrane protein D2 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    C8E  (HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE  C16 H34 O5   306.44  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A PORD_PSEAE P32722     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    3.4.21      
    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. 
    6810   Transport  The Directed Movement of Substances (such As Macromolecules Small Molecules Ions) Into Out of or Within a Cell or Between Cells or Within a Multicellular Organism by Means of Some Agent Such As a Transporter or Pore. 
    6811   Ion Transport  The Directed Movement of Charged Atoms or Small Charged Molecules Into Out of or Within a Cell or Between Cells by Means of Some Agent Such As a Transporter or Pore. 
    15802   Basic Amino Acid Transport  The Directed Movement of Basic Amino Acids Amino Acids with a Ph Above 7 Into Out of or Within a Cell or Between Cells by Means of Some Agent Such As a Transporter or Pore. 
    55085   Transmembrane Transport  The Process in Which a Solute Is Transported From One Side of a Membrane to the Other. 
    9279   Cell Outer Membrane  A Lipid Bilayer That Forms the Outermost Membrane of the Cell Envelope; Enriched in Polysaccharide and Protein; the Outer Leaflet of the Membrane Contains Specific Lipopolysaccharide Structures. 
    16020   Membrane  Double Layer of Lipid Molecules That Encloses All Cells and in Eukaryotes Many Organelles; May Be a Single or Double Lipid Bilayer; Also Includes Associated Proteins. 
    16021   Integral Component of Membrane  The Component of a Membrane Consisting of Gene Products and Protein Complexes That Have Some Part That Penetrates At Least One Leaflet of the Membrane Bilayer. This Component Includes Gene Products That Are Buried in the Bilayer with No Exposure Outside the Bilayer. 
    19867   Outer Membrane  The External Membrane of Gram Negative Bacteria or Certain Organelles Such As Mitochondria and Chloroplasts; Freely Permeable to Most Ions and Metabolites. 
    45203   Integral Component of Cell Outer Membrane  The Component of the Cell Outer Membrane Consisting of the Gene Products That Have Some Part That Penetrates At Least One Leaflet of the Membrane Bilayer. This Component Includes Gene Products That Are Buried in the Bilayer with No Exposure Outside the Bilayer. 
    46930   Pore Complex  Any Small Opening in a Membrane That Allows the Passage of Gases And/or Liquids. 
    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. 
    8236   Serine Type Peptidase Activity  Catalysis of the Hydrolysis of Peptide Bonds in a Polypeptide Chain by a Catalytic Mechanism That Involves a Catalytic Triad Consisting of a Serine Nucleophile That Is Activated by a Proton Relay Involving an Acidic Residue (e.g. Aspartate or Glutamate) and a Basic Residue (usually Histidine). 
    15288   Porin Activity  Catalysis of the Transfer of Substances Sized Less Than 1000 Da From One Side of the Membrane to the Other. the Transmembrane Portions of Porins Consist Exclusively of Beta Strands Which Form a Beta Barrel. They Are Found in the Outer Membranes of Gram Negative Bacteria Mitochondria Plastids and Possibly Acid Fast Gram Positive Bacteria. 
    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

    Genetic Source

    Chain A
    Scientific Name Pseudomonas aeruginosa  
    Gene oprd, pa0958
    Host Scientific Name Escherichia coli  


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    - - 881970     porin OPRD