Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 44938.36 
• Atom Count: 3162 
• Residue Count: 385 
• Unique protein chains: 3

1WBX

CRYSTAL STRUCTURES OF MURINE MHC CLASS I H-2 Db AND Kb MOLECULES IN COMPLEX WITH CTL EPITOPES FROM INFLUENZA A VIRUS: IMPLICATIONS FOR TCR REPERTOIRE SELECTION AND IMMUNODOMINANCE

• DOI: 10.2210/pdb1WBX/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Mus musculus, Influenza A virus (strain A/Swine/Indiana/1726/1988 H1N1)
• Expression System: Escherichia coli BL21


• Deposited: 2004-11-05 Released: 2005-01-19 
• Deposition Author(s): Meijers, R., Lai, C., Yang, Y., Liu, J., Zhong, W., Wang, J., Reinherz, E.L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.9 Å
• R-Value Free: 0.255 
• R-Value Work: 0.198 

Literature

Crystal Structures of Murine Mhc Class I H-2 D(B) and K(B) Molecules in Complex with Ctl Epitopes from Influenza a Virus: Implications for Tcr Repertoire Selection and Immunodominance

Meijers, R., Lai, C., Yang, Y., Liu, J., Zhong, W., Wang, J., Reinherz, E.L.

(2005) J.Mol.Biol. 345: 1099

• PubMed: 15644207 
• DOI: 10.1016/j.jmb.2004.11.023
• Primary Citation of Related Structures:  
  1WBZ, 1WBY


• PubMed Abstract: 
  

Cytotoxic T lymphocyte (CTL) responses against influenza A virus in C57BL/6 mice are dominated by a small number of viral peptides among many that are capable of binding to major histocompatibility complex (MHC) class I molecules. The basis of this limited immune recognition is unknown. Here, we present X-ray structures of MHC class I molecules in complex with two immunodominant epitopes (PA(224-233)/D(b) and PB1(703-711)/K(b)) and one non-immunogenic epitope (HA(468-477)/D(b)) of the influenza A virus. The immunodominant peptides are each characterized by a bulge at the C terminus, lifting P6 and P7 residues out of the MHC groove, presenting featured structural elements to T-cell receptors (TCRs). Immune recognition of PA(224-233)/D(b) will focus largely on the exposed P7 arginine residue. In contrast, the non-immunogenic HA(468-477) peptide lacks prominent features in this C-terminal bulge. In the K(b)-bound PB1(703-711) epitope, the bulge results from a non-canonical binding motif, such that the mode of presentation of this peptide strongly resembles that of D(b)-bound peptides. Given that PA(224-233)/D(b), PB1(703-711)/K(b) and the previously defined NP(366-374)/D(b) epitopes dominate the primary response to influenza A virus in C57BL/6 mice, our findings indicate that residues of the C-terminal bulge are important in selection of the immunodominant CTL repertoire.

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Organizational Affiliation: 

Laboratory of Immunobiology, Department of Medical Oncology, Dana-Farber Cancer Institute, Harvard Medical School, Boston, MA 02115, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
H-2 CLASS I HISTOCOMPATIBILITY ANTIGEN, D-B ALPHA CHAIN	A	276	Mus musculus	Mutation(s): 0  Gene Names: H2-D1
Find proteins for P01899 (Mus musculus) Go to UniProtKB:  P01899

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
BETA-2MICROGLOBULIN	B	99	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
INFLUENZA A PEPTIDE	C	10	Influenza A virus (strain A/Swine/Indiana/1726/1988 H1N1)	Mutation(s): 0  Gene Names: HA
Find proteins for P26140 (Influenza A virus (strain A/Swine/Indiana/1726/1988 H1N1)) Go to UniProtKB:  P26140

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.9 Å
• R-Value Free: 0.255 
• R-Value Work: 0.198 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length (Å)	Angle (°)
a = 56.759	α = 90.00
b = 56.759	β = 90.00
c = 275.996	γ = 90.00

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
AMoRE	phasing
REFMAC	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2004-11-05 
• Released Date: 2005-01-19 
• Deposition Author(s): Meijers, R., Lai, C., Yang, Y., Liu, J., Zhong, W., Wang, J., Reinherz, E.L.

Revision History 

• Version 1.0: 2005-01-19
  Type: Initial release
• Version 1.1: 2011-05-08
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance