POP-OUT | CLOSE
 
CRYSTAL STRUCTURE OF HUMAN EXTRACELLULAR COPPER-ZINC SUPEROXIDE DISMUTASE.
Biology and Chemistry Report
2JLP
  •   Structure Details   Hide

    Structure Keywords

    Keywords OXIDOREDUCTASE
    Text GLYCOLISATION, OXIDOREDUCTASE, HEPARIN BINDING, HEPARIN-BINDING, OXIDATIVE STRESS, ANTIOXIDANT, GLYCOPROTEIN, METAL-BINDING, CU-ZN, SECRETED, GLYCATION

    Polymeric Molecules

    Chain A,B,C,D
    Description EXTRACELLULAR SUPEROXIDE DISMUTASE (CU-ZN) 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 24197.0 
    Source Method genetically manipulated  
    Entity Name EXTRACELLULAR COPPER-ZINC SUPEROXIDE DISMUTASE, EC-SOD 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    CU  COPPER (II) ION  Cu   63.55  View 
    SCN  THIOCYANATE ION  C N S   58.08  View 
    ZN  ZINC ION  Zn   65.41  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,B,C,D SODE_HUMAN P08294     

    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)
    A B C D  1.15.1.1        
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A,B,C,D
    GO ID   Ontology GO Term Definition
    1666   Response to Hypoxia  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 a Stimulus Indicating Lowered Oxygen Tension. Hypoxia Defined As a Decline in O2 Levels Below Normoxic Levels of 20.8 20.95% Results in Metabolic Adaptation At Both the Cellular and Organismal Level. 
    6801   Superoxide Metabolic Process  The Chemical Reactions and Pathways Involving Superoxide the Superoxide Anion O2 (superoxide Free Radical) or Any Compound Containing This Species. 
    19430   Removal of Superoxide Radicals  Any Process Involved in Removing Superoxide Radicals (o2 ) From a Cell or Organism E.g. by Conversion to Dioxygen (o2) and Hydrogen Peroxide (h2o2). 
    46688   Response to Copper Ion  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 a Copper Ion Stimulus. 
    55114   Oxidation Reduction Process  A Metabolic Process That Results in the Removal or Addition of One or More Electrons to or From a Substance with or Without the Concomitant Removal or Addition of a Proton or Protons. 
    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. 
    5615   Extracellular Space  That Part of a Multicellular Organism Outside the Cells Proper Usually Taken to Be Outside the Plasma Membranes and Occupied by Fluid. 
    5634   Nucleus  A Membrane Bounded Organelle of Eukaryotic Cells in Which Chromosomes Are Housed and Replicated. in Most Cells the Nucleus Contains All of the Cell's Chromosomes Except the Organellar Chromosomes and Is the Site of RNA Synthesis and Processing. in Some Species or in Specialized Cell Types RNA Metabolism or DNA Replication May Be Absent. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    5796   Golgi Lumen  The Volume Enclosed by the Membranes of Any Cisterna or Subcompartment of the Golgi Apparatus Including the Cis and Trans Golgi Networks. 
    5802   Trans Golgi Network  The Network of Interconnected Tubular and Cisternal Structures Located Within the Golgi Apparatus On the Side Distal to the Endoplasmic Reticulum From Which Secretory Vesicles Emerge. the Trans Golgi Network Is Important in the Later Stages of Protein Secretion Where It Is Thought to Play a Key Role in the Sorting and Targeting of Secreted Proteins to the Correct Destination. 
    31012   Extracellular Matrix  A Structure Lying External to One or More Cells Which Provides Structural Support For Cells or Tissues; May Be Completely External to the Cell (as in Animals and Bacteria) or Be Part of the Cell (as in Plants). 
    70062   Extracellular Vesicular Exosome  A Membrane Bounded Vesicle That Is Released Into the Extracellular Region by Fusion of the Limiting Endosomal Membrane of a Multivesicular Body with the Plasma Membrane. 
    4784   Superoxide Dismutase Activity  Catalysis of the Reaction: 2 Superoxide + 2 H+ = O2 + Hydrogen Peroxide. 
    5507   Copper Ion Binding  Interacting Selectively and Non Covalently with Copper (cu) Ions. 
    5515   Protein Binding  Interacting Selectively and Non Covalently with Any Protein or Protein Complex (a Complex of Two or More Proteins That May Include Other Nonprotein Molecules). 
    8201   Heparin Binding  Interacting Selectively and Non Covalently with Heparin Any Member of a Group of Glycosaminoglycans Found Mainly As an Intracellular Component of Mast Cells and Which Consist Predominantly of Alternating Alpha (1 >4) Linked D Galactose and N Acetyl D Glucosamine 6 Sulfate Residues. 
    8270   Zinc Ion Binding  Interacting Selectively and Non Covalently with Zinc (zn) Ions. 
    16209   Antioxidant Activity  Inhibition of the Reactions Brought About by Dioxygen (o2) or Peroxides. Usually the Antioxidant Is Effective Because It Can Itself Be More Easily Oxidized Than the Substance Protected. the Term Is Often Applied to Components That Can Trap Free Radicals Thereby Breaking the Chain Reaction That Normally Leads to Extensive Biological Damage. 
    16491   Oxidoreductase Activity  Catalysis of an Oxidation Reduction (redox) Reaction a Reversible Chemical Reaction in Which the Oxidation State of an Atom or Atoms Within a Molecule Is Altered. One Substrate Acts As a Hydrogen or Electron Donor and Becomes Oxidized While the Other Acts As Hydrogen or Electron Acceptor and Becomes Reduced. 
    46872   Metal Ion Binding  Interacting Selectively and Non Covalently with Any Metal Ion. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain A,B,C,D
    Common Name Human
    Scientific Name Homo sapiens  
    Host Scientific Name Cricetulus griseus  
    Host Cell Line Cho Cells
    Host Tissue Ovary


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    4 4p15.2 6649     superoxide dismutase 3, extracellular SOD3    

    Single Nucleotide Polymorphisms (from LS-SNP database)

    SNP ID LsSnp Link dbSNP Link Chain PDB position Amino acid changes Secondary structure Solvent Accessibility Chromosome Chromosome position Ligand
    rs139475656 LS-SNP   dbSNP   A 39 G - > R Coil 61% (Exposed) 4 24801312
    rs2536512 LS-SNP   dbSNP   A 40 A - > T Coil 30% (Intermediate) 4 24801315
    rs17879876 LS-SNP   dbSNP   A 73 A - > T Bend 30% (Intermediate) 4 24801414
    rs201027835 LS-SNP   dbSNP   A 136 G - > A Turn 5% (Buried) 4 24801604