ARA7-GDP-Ca2+/VPS9a
4G01
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Transport Protein
    Structure Weight: 50539.38
    Molecule: Vacuolar protein sorting-associated protein 9A
    Polymer: 1 Type: protein Length: 267
    Chains: A
    Fragment: VPS9 domain, UNP residues 1-265
    Organism: Arabidopsis thaliana
    Gene Names: VPS9A VPS9 At3g19770 MMB12.26
    UniProtKB: Protein Feature View | Search PDB | Q9LT31  
    Molecule: Ras-related protein RABF2b
    Polymer: 2 Type: protein Length: 181
    Chains: B
    Fragment: small GTPase, UNP residues 1-179
    Organism: Arabidopsis thaliana
    Gene Names: RABF2B ARA-7 Gene View for RAB5B At4g19640 F24J7.190
    UniProtKB: Protein Feature View | Search PDB | Q9SN68  
     
  •   Structure Validation Hide

    View the full validation report  

     

  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Arabidopsis thaliana   Taxonomy   Common Name: Mouse-ear cress Expression System: Escherichia coli  
    Polymer: 2
    Scientific Name: Arabidopsis thaliana   Taxonomy   Common Name: Mouse-ear cress Expression System: Escherichia coli  
     
  •   Related PDB Entries Hide
    Identifier Details
    2efc   ARA7-GDP/VPS9a 
    2efd   ARA7/VPS9a 
    2efe   ARA7-GDPNH2/VPS9a 
    2efh   ARA7-GDP/VPS9a(D185N) 
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    CA
    Search 
    Download 
    CA Ca
    CALCIUM ION
    GDP
    Search 
    Download 
    GDP C10 H15 N5 O11 P2
    GUANOSINE-5'-DIPHOSPHATE
    GDP:4G01
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
 
Data in orange boxes are gathered from external resources (when available).
  Biological Assembly       
Biological assembly 1 assigned by authors and generated by PISA (software)
Downloadable viewers:
 
 
 
  •   MyPDB Personal Annotations Hide
     
  •   Deposition Summary Hide
    Authors:   Ihara, K.

    Deposition:   2012-07-09
    Release:   2013-02-27
    Last Modified (REVDAT):   2013-08-07
     
  •   Revision History    Hide
    Mouse over text for details
    2013-08-07
    Citation
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   2.20
    R-Value: 0.202 (obs.)
    R-Free: 0.273
    Space Group: P 21 21 21
    Unit Cell:
      Length [Å] Angles [°]
    a = 68.35 α = 90.00 
    b = 76.14 β = 90.00 
    c = 81.79 γ = 90.00