Biological Assembly 1  

 3D View: Structure

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

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

Macromolecule Content

• Total Structure Weight: 56078.59 
• Atom Count: 3145 
• Residue Count: 494 
• Unique protein chains: 3

1BII

THE CRYSTAL STRUCTURE OF H-2DD MHC CLASS I IN COMPLEX WITH THE HIV-1 DERIVED PEPTIDE P18-110

• DOI: 10.2210/pdb1BII/pdb

• Classification: COMPLEX (MHC I/PEPTIDE)
• Organism(s): Mus musculus
• Expression System: Escherichia coli


• Deposited: 1998-06-11 Released: 1998-10-14 
• Deposition Author(s): Achour, A., Persson, K., Harris, R.A., Sundback, J., Sentman, C.L., Lindqvist, Y., Schneider, G., Karre, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.4 Å
• R-Value Free: 0.323 
• R-Value Work: 0.278 

Literature

The crystal structure of H-2Dd MHC class I complexed with the HIV-1-derived peptide P18-I10 at 2.4 A resolution: implications for T cell and NK cell recognition.

Achour, A., Persson, K., Harris, R.A., Sundback, J., Sentman, C.L., Lindqvist, Y., Schneider, G., Karre, K.

(1998) Immunity 9: 199-208

• PubMed: 9729040 


• PubMed Abstract: 
  

The structure of H-2Dd complexed with the HIV-derived peptide P18-I10 (RGPGRAFVTI) has been determined by X-ray crystallography at 2.4 A resolution. This MHC class I molecule has an unusual binding motif with four anchor residues in the peptide (G2, P3, R/K/H5, and I/L/F9 or 10). The cleft architecture of H-2Dd includes a deep narrow passage accomodating the N-terminal part of the peptide, explaining the obligatory G2P3 anchor motif. Toward the C-terminal half of the peptide, p5R to p8V form a type I' reverse turn; residues p6A to p9T, and in particular p7F, are readily exposed. The structure is discussed in relation to functional data available for T cell and natural killer cell recognition of the H-2Dd molecule.

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Related Citations: 

• Murine Mhc Class I H-2Dd Complex: Expression, Refolding and Crystallisation
  Achour, A.,Harris, R.A.,Persson, K.,Sundback, J.,Sentman, C.L.,Schneider, G.,Lindqvist, Y.,Karre, K.
  () TO BE PUBLISHED --: --




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Organizational Affiliation: 

Microbiology and Tumor Biology Center, Karolinska Hospital, Stockholm, Sweden.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
MHC CLASS I H-2DD	A	365	Mus musculus	Mutation(s): 0  Gene Names: H2-D1
Find proteins for P01900 (Mus musculus) Go to UniProtKB:  P01900

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
BETA-2 MICROGLOBULIN	B	119	Mus musculus	Mutation(s): 0  Gene Names: B2m
Find proteins for P01887 (Mus musculus) Go to UniProtKB:  P01887

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
DECAMERIC PEPTIDE	P	10	N/A	Mutation(s): 0
Protein Feature View is not available: No corresponding UniProt sequence found.

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.4 Å
• R-Value Free: 0.323 
• R-Value Work: 0.278 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 51.260	α = 90.00
b = 92.530	β = 90.00
c = 108.780	γ = 90.00

Software Package:

Software Name	Purpose
REFMAC	refinement
AMoRE	phasing
SCALEPACK	data scaling
DENZO	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1998-06-11 
• Released Date: 1998-10-14 
• Deposition Author(s): Achour, A., Persson, K., Harris, R.A., Sundback, J., Sentman, C.L., Lindqvist, Y., Schneider, G., Karre, K.

Revision History 

• Version 1.0: 1998-10-14
  Type: Initial release
• Version 1.1: 2008-03-24
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance