POP-OUT | CLOSE
 
ARA7-GDP-Ca2+/VPS9a
Biology and Chemistry Report
4G01
  •   Structure Details   Hide

    Structure Keywords

    Keywords TRANSPORT PROTEIN
    Text GTPase-GDP-metal-GEF complex, vps9 domain, Ras super family, guanine nucleotide exchange factor, small GTPase, GDP/GTP binding, divalent metal binding, geranylgeranylation, TRANSPORT PROTEIN

    Polymeric Molecules

    Chain A
    Description Vacuolar protein sorting-associated protein 9A 
    Fragment VPS9 domain, UNP residues 1-265 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 30168.5 
    Source Method genetically manipulated  
    Entity Name VPS9a, AtVSP9a 
    Chain B
    Description Ras-related protein RABF2b 
    Fragment small GTPase, UNP residues 1-179 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 19887.6 
    Source Method genetically manipulated  
    Entity Name ARA7, AtRABF2b, Ras-related protein Ara-7, Ras-related protein Rab5B, AtRab5B 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    CA  CALCIUM ION  Ca   40.08  View 
    GDP  GUANOSINE-5'-DIPHOSPHATE  C10 H15 N5 O11 P2   443.20  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A VPS9A_ARATH Q9LT31     
    B RAF2B_ARATH Q9SN68     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain B
    GO ID   Ontology GO Term Definition
    6897   Endocytosis  A Vesicle Mediated Transport Process in Which Cells Take Up External Materials or Membrane Constituents by the Invagination of a Small Region of the Plasma Membrane to Form a New Membrane Bounded Vesicle. 
    5768   Endosome  A Membrane Bounded Organelle to Which Materials Ingested by Endocytosis Are Delivered. 
    5773   Vacuole  A Closed Structure Found Only in Eukaryotic Cells That Is Completely Surrounded by Unit Membrane and Contains Liquid Material. Cells Contain One or Several Vacuoles That May Have Different Functions From Each Other. Vacuoles Have a Diverse Array of Functions. They Can Act As a Storage Organelle For Nutrients or Waste Products As a Degradative Compartment As a Cost Effective Way of Increasing Cell Size and As a Homeostatic Regulator Controlling Both Turgor Pressure and Ph of the Cytosol. 
    5774   Vacuolar Membrane  The Lipid Bilayer Surrounding the Vacuole and Separating Its Contents From the Cytoplasm of the Cell. 
    5886   Plasma Membrane  The Membrane Surrounding a Cell That Separates the Cell From Its External Environment. It Consists of a Phospholipid Bilayer and Associated Proteins. 
    10008   Endosome Membrane  The Lipid Bilayer Surrounding an Endosome. 
    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. 
    31901   Early Endosome Membrane  The Lipid Bilayer Surrounding an Early Endosome. 
    166   Nucleotide Binding  Interacting Selectively and Non Covalently with a Nucleotide Any Compound Consisting of a Nucleoside That Is Esterified with (ortho)phosphate or an Oligophosphate At Any Hydroxyl Group On the Ribose or Deoxyribose. 
    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). 
    5525   GTP Binding  Interacting Selectively and Non Covalently with GTP Guanosine Triphosphate. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain B
    Common Name Mouse Ear Cress
    Scientific Name Arabidopsis thaliana  
    Gene ara-7
    Host Scientific Name Escherichia coli  


    Chain A
    Common Name Mouse Ear Cress
    Scientific Name Arabidopsis thaliana  
    Gene vps9a
    Host Scientific Name Escherichia coli  


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    3 - 821514     guanine nucleotide exchange factor VPS9a VPS9A    
    4 - 827706     Rab5 GTPase-like protein Ara7 ARA7