Biological Assembly 1  

 3D View: Structure

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

 3D View: Structure

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 95.46 kDa 
• Atom Count: 6026 
• Residue Count: 744 
• Unique protein chains: 2

1CD1

CD1(MOUSE) ANTIGEN PRESENTING MOLECULE

• DOI: 10.2210/pdb1CD1/pdb

• Classification: CD1
• Organism(s): Mus musculus
• Expression System: Drosophila melanogaster
• Mutation(s): No 


• Deposited: 1997-04-02 Released: 1997-10-15 
• Deposition Author(s): Zeng, Z.H., Segelke, B.W., Wilson, I.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.67 Å
• R-Value Free: 0.330 
• R-Value Work: 0.192 
• R-Value Observed: 0.192 

Literature

Crystal structure of mouse CD1: An MHC-like fold with a large hydrophobic binding groove.

Zeng, Z., Castano, A.R., Segelke, B.W., Stura, E.A., Peterson, P.A., Wilson, I.A.

(1997) Science 277: 339-345

• PubMed: 9219685 
• DOI: 10.1126/science.277.5324.339
• Primary Citation of Related Structures:  
  1CD1


• PubMed Abstract: 
  

CD1 represents a third lineage of antigen-presenting molecules that are distantly related to major histocompatibility complex (MHC) molecules in the immune system. The crystal structure of mouse CD1d1, corresponding to human CD1d, at 2.8 resolution shows that CD1 adopts an MHC fold that is more closely related to that of MHC class I than to that of MHC class II. The binding groove, although significantly narrower, is substantially larger because of increased depth and it has only two major pockets that are almost completely hydrophobic. The extreme hydrophobicity and shape of the binding site are consistent with observations that human CD1b and CD1c can present mycobacterial cell wall antigens, such as mycolic acid and lipoarabinomannans. However, mouse CD1d1 can present very hydrophobic peptides, but must do so in a very different way from MHC class Ia and class II molecules.

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Organizational Affiliation: 

Department of Molecular Biology and the Skaggs Institute for Chemical Biology at the Scripps Research Institute, La Jolla, CA 92037, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CD1	A, C	315	Mus musculus	Mutation(s): 0  Gene Names: Cd1.1, Cd1d1
Find proteins for P11609 (Mus musculus) Explore P11609  Go to UniProtKB:  P11609

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
CD1	B, D	99	Mus musculus	Mutation(s): 0  Gene Names: CD1.1, B2m
Find proteins for P01887 (Mus musculus) Explore P01887  Go to UniProtKB:  P01887
NIH Common Fund Data Resources
IMPC  MGI:88127

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.67 Å
• R-Value Free: 0.330 
• R-Value Work: 0.192 
• R-Value Observed: 0.192 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.34	α = 90
b = 76.2	β = 102.29
c = 103.4	γ = 90

Software Package:

Software Name	Purpose
XENGEN	data collection
XENGEN	data reduction
X-PLOR	model building
X-PLOR	refinement
XENGEN	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1997-04-02 
• Released Date: 1997-10-15 
Deposition Author(s): Zeng, Z.H., Segelke, B.W., Wilson, I.A.

Revision History 

• Version 1.0: 1997-10-15
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance