Crystal structure of squid rhodopsin
2ZIY
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Signaling Protein
    Structure Weight: 42626.40
    Molecule: Rhodopsin
    Polymer: 1 Type: protein Length: 372
    Chains: A
    Fragment: Truncation of C-terminal polypro by V8-protease, UNP residues 2-373:VAL18ILE confirmed by MS
    Organism: Todarodes pacificus
    Gene Name: Gene View for RHO
    UniProtKB: Protein Feature View | Search PDB | P31356  
    Membrane Protein:   Source: mpstruc
    ALPHA-HELICAL
    G Protein-Coupled Receptors (GPCRs)
    Rhodopsin, Squid
     
  •   Structure Validation Hide

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  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Todarodes pacificus   Taxonomy   Common Name: Japanese flying squid  
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    PLM
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    PLM C16 H32 O2
    PALMITIC ACID
    RET
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    RET C20 H28 O
    RETINAL
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
 
Data in orange boxes are gathered from external resources (when available).
  Biological Assembly 1       
Biological assembly 1 assigned by authors
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  •   Deposition Summary Hide
    Authors:   Miyano, M.,  Shimamura, T.

    Deposition:   2008-02-27
    Release:   2008-05-06
    Last Modified (REVDAT):   2009-02-24
     
  •   Revision History    Hide
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    2011-07-13
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  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   3.70
    R-Value: 0.302 (work)
    R-Free: 0.330
    Space Group: C 2 2 21
    Unit Cell:
      Length [Å] Angles [°]
    a = 84.32 α = 90.00 
    b = 108.75 β = 90.00 
    c = 142.16 γ = 90.00