An Information Portal to 105906 Biological Macromolecular Structures

Crystal structure of human cytoglobin at 1.68 angstroms resolution
Biology and Chemistry Report
  •   Structure Details   Hide

    Structure Keywords

    Text cytoglobin, myoglobin, heme, oxygen transport, oxygen storage, RIKEN Structural Genomics/Proteomics Initiative, RSGI, Structural Genomics, OXYGEN STORAGE-TRANSPORT COMPLEX

    Polymeric Molecules

    Chain A,B
    Description Cytoglobin 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 21716.1 
    Source Method genetically manipulated  
    Entity Name Histoglobin, HGb, Stellate cell activation-associated protein 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    ACY  ACETIC ACID  C2 H4 O2   60.05  View 
    HEM  PROTOPORPHYRIN IX CONTAINING FE  C34 H32 Fe N4 O4   616.49  View 
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,B CYGB_HUMAN Q541Y7     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A,B
    GO ID   Ontology GO Term Definition
    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. 
    6979   Response to Oxidative Stress  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 Oxidative Stress a State Often Resulting From Exposure to High Levels of Reactive Oxygen Species E.g. Superoxide Anions Hydrogen Peroxide (h2o2) and Hydroxyl Radicals. 
    15671   Oxygen Transport  The Directed Movement of Oxygen (o2) Into Out of or Within a Cell or Between Cells by Means of Some Agent Such As a Transporter or Pore. 
    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. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    43005   Neuron Projection  A Prolongation or Process Extending From a Nerve Cell E.g. an Axon or Dendrite. 
    43025   Neuronal Cell Body  The Portion of a Neuron That Includes the Nucleus But Excludes Cell Projections Such As Axons and Dendrites. 
    4601   Peroxidase Activity  Catalysis of the Reaction: Donor + Hydrogen Peroxide = Oxidized Donor + 2 H2o. 
    5344   Oxygen Transporter Activity  Enables the Directed Movement of Oxygen Into Out of or Within a Cell or Between Cells. 
    5506   Iron Ion Binding  Interacting Selectively and Non Covalently with Iron (fe) Ions. 
    19825   Oxygen Binding  Interacting Selectively and Non Covalently with Oxygen (o2). 
    20037   Heme Binding  Interacting Selectively and Non Covalently with Heme Any Compound of Iron Complexed in a Porphyrin (tetrapyrrole) Ring. 
    46872   Metal Ion Binding  Interacting Selectively and Non Covalently with Any Metal Ion. 

  •   Gene Details   Hide

    Genetic Source

    Chain A,B
    Common Name Human
    Scientific Name Homo sapiens  
    Genus Homo
    Strain BACTERIA
    Gene cygb
    Host Scientific Name Escherichia coli bl21(de3)  
    Host Genus Escherichia
    Host Species Escherichia Coli
    Host Strain Bl21(de3)
    Host Vector Type Plasmid
    Host Plasmid Name pET15b

    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    17 17q25 114757     cytoglobin CYGB    

    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
    rs151243709 LS-SNP   dbSNP   A 35 Y - > C Helix 5% (Buried) 17 74533521 ACY
    rs11544066 LS-SNP   dbSNP   A 37 N - > S Turn 31% (Intermediate) 17 74533515
    rs139406761 LS-SNP   dbSNP   A 55 S - > L 3/10 Helix 48% (Exposed) 17 74527753
    rs146768380 LS-SNP   dbSNP   A 74 R - > Q Turn 80% (Exposed) 17 74527696
    rs199918080 LS-SNP   dbSNP   A 74 R - > W Turn 80% (Exposed) 17 74527697
    rs144056543 LS-SNP   dbSNP   A 104 S - > C Helix 43% (Exposed) 17 74527606
    rs201844279 LS-SNP   dbSNP   A 126 I - > F Helix 20% (Intermediate) 17 74527224
    rs200693197 LS-SNP   dbSNP   A 155 R - > H Helix 29% (Intermediate) 17 74527136
    rs147352008 LS-SNP   dbSNP   A 161 H - > R Helix 28% (Intermediate) 17 74527118
    rs199829443 LS-SNP   dbSNP   A 178 A - > D Turn 47% (Exposed) 17 74527067