Biological Assembly 1  

 3D View: Structure | Electron Density

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 | Electron Density

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: 89.24 kDa 
• Atom Count: 6435 
• Residue Count: 768 
• Unique protein chains: 3

1EEY

Crystal Structure Determination Of HLA A2 Complexed to Peptide GP2 with the substitution (I2L/V5L/L9V)

• DOI: 10.2210/pdb1EEY/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2000-02-04 Released: 2003-06-10 
• Deposition Author(s): Sharma, A.K., Kuhns, J.J., Collins, E.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free: 0.286 
• R-Value Work: 0.248 
• R-Value Observed: 0.248 

Literature

Class I major histocompatibility complex anchor substitutions alter the conformation of T cell receptor contacts.

Sharma, A.K., Kuhns, J.J., Yan, S., Friedline, R.H., Long, B., Tisch, R., Collins, E.J.

(2001) J Biol Chem 276: 21443-21449

• PubMed: 11287414 
• DOI: 10.1074/jbc.M010791200
• Primary Citation of Related Structures:  
  1EEZ, 1EEY


• PubMed Abstract: 
  

An immunogenic peptide (GP2) derived from HER-2/neu binds to HLA-A2.1 very poorly. Some altered-peptide ligands (APL) of GP2 have increased binding affinity and generate improved cytotoxic T lymphocyte recognition of GP2-presenting tumor cells, but most do not. Increases in binding affinity of single-substitution APL are not additive in double-substitution APL. A common first assumption about peptide binding to class I major histocompatibility complex is that each residue binds independently. In addition, immunologists interested in immunotherapy frequently assume that anchor substitutions do not affect T cell receptor contact residues. However, the crystal structures of two GP2 APL show that the central residues change position depending on the identity of the anchor residue(s). Thus, it is clear that subtle changes in the identity of anchor residues may have significant effects on the positions of the T cell receptor contact residues.

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Related Citations: 

• Poor Binding of HER-2/neu Epitope (GP2) to HLA-A2.1 is Due to a Lack of Interactions with the Center of the Peptide
  Kuhns, J.J., Batalia, M.A., Yan, S., Collins, E.J.
  (1999) J Biol Chem 274: 36422

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Organizational Affiliation: 

Departments of Microbiology, the Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, North Carolina 27599, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HLA-A2.1 MHC CLASS I (HEAVY CHAIN)	A, D	275	Homo sapiens	Mutation(s): 0  Gene Names: HLA-A, HLAA
Find proteins for P04439 (Homo sapiens) Explore P04439  Go to UniProtKB:  P04439
NIH Common Fund Data Resources
PHAROS  P04439 GTEx  ENSG00000206503

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
BETA-2-MICROGLOBULIN (LIGHT CHAIN)	B, E	100	Homo sapiens	Mutation(s): 0  Gene Names: B2M, CDABP0092, HDCMA22P
Find proteins for P61769 (Homo sapiens) Explore P61769  Go to UniProtKB:  P61769
NIH Common Fund Data Resources
PHAROS  P61769 GTEx  ENSG00000166710

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
GP2 PEPTIDE	C, F	9	N/A	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free: 0.286 
• R-Value Work: 0.248 
• R-Value Observed: 0.248 
• Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.95	α = 82.07
b = 62.93	β = 76.5
c = 74.65	γ = 78.04

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2000-02-04 
• Released Date: 2003-06-10 
Deposition Author(s): Sharma, A.K., Kuhns, J.J., Collins, E.J.

Revision History 

• Version 1.0: 2003-06-10
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance