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Structure of the endogenous iNKT cell ligand iGb3 bound to mCD1d
 
 
DOI:10.2210/pdb2q7y/pdb
2Q7Y
 
Primary Citation
spinning wheel
 
 
  •  
    Move Section Molecular Description Hide
    Classification: Immune System
    Structure Weight: 93346.97
     
    Molecule:T-cell surface glycoprotein CD1d1
    Polymer:1Type:polypeptide(L)Length:285
    Chains:A, C
    Fragment:residues 19-297
    Molecule:Beta-2-microglobulin
    Polymer:2Type:polypeptide(L)Length:99
    Chains:B, D
     
     
  •  
    Move Section Source Hide
    Polymer: 1
    Scientific Name: Mus musculus Go to NCBI Taxonomy entry Common Name: House mouse Expression System: Drosophila melanogaster  
    Polymer: 2
    Scientific Name: Mus musculus Go to NCBI Taxonomy entry Common Name: House mouse Expression System: Drosophila melanogaster  
    Polymer: 4
    Scientific Name: Synthetic construct Go to NCBI Taxonomy entry  
    Polymer: 5
    Scientific Name: Synthetic construct Go to NCBI Taxonomy entry  
     
     
  •  
    Move Section Related PDB Entries Hide
    Id Details
    1Z5L  same protein bound to alpha-galactosyl ceramide 
    2AKR  same protein bound to sulfatide 
    2FIK  same protein bound to microbial alpha-galacturonosyl ceramide 
    2GAZ  same protein bound to mycobacterial phosphatidylinositol-dimannoside 
     
     
  •  
    Move Section Ligand Chemical Component Hide
    Identifier Name Formula Interaction View Links
    BMA     BETA-D-MANNOSE C6 H12 O6 3DLigand Explorer Link out to Ligand Expos:BMA Link out to SuperLigands:BMA Link out to SuperHapten:BMA
    IGC     N-[(1S,2R,3E)-1-({[ALPHA-D-GALACTOPYRANOSYL- (1->3)-BETA-D-GALACTOPYRANOSYL-(1
    ->4)-BETA- D-GLUCOPYRANOSYL]OXY}METHYL)-2-HYDROXYHEPTADEC- 3-EN-1-YL]OCTANAMIDE     		C44 H81 N O18 3DLigand Explorer Link out to Ligand Expos:IGC Link out to SuperLigands:IGC Link out to SuperHapten:IGC
    MAN     ALPHA-D-MANNOSE C6 H12 O6 3DLigand Explorer Link out to Ligand Expos:MAN Link out to SuperLigands:MAN Link out to SuperHapten:MAN
    NAG     N-ACETYL-D-GLUCOSAMINE C8 H15 N O6 3DLigand Explorer Link out to Ligand Expos:NAG Link out to SuperLigands:NAG Link out to SuperHapten:NAG
    PLM     PALMITIC ACID C16 H32 O2 3DLigand Explorer Link out to Ligand Expos:PLM Link out to SuperLigands:PLM Link out to SuperHapten:PLM
     
     
  •  
    Move Section Derived Data Hide
     
     
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< Biological Assembly 1    Help >
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Biological assembly 1 assigned by authors and generated by PISA (software)
 
 
 
  •  
    Move Section Deposition Summary Hide
    Authors:   Zajonc, D.M.,   Wilson, I.A.,   Teyton, L.

    Deposition:   2007-06-07
    Release:   2008-04-01
    Last Modified (REVDAT):   2009-02-24
     
     
  •  
    Move Section Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Experimental Data:   Download Structure Factors  [ EDS External Link to EDS ]
    View a histogram of Resolution Resolution[Å]: 1.95
    R-Value: 0.200 (obs.)
    R-Free: 0.245
    Space Group: P 21
    Unit Cell:
      Length [Å] Angles [°]
    a = 58.94 α = 90.00 
    b = 96.22 β = 106.23 
    c = 77.93 γ = 90.00