Biological Assembly 1  

 3D View: Structure | Ligand Interaction

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 | Ligand Interaction

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: 97.76 kDa 
• Atom Count: 6769 
• Residue Count: 792 
• Unique protein chains: 2

1IEA

HISTOCOMPATIBILITY ANTIGEN

• DOI: 10.2210/pdb1IEA/pdb

• Classification: HISTOCOMPATIBILITY ANTIGEN
• Organism(s): Mus musculus
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 1996-04-05 Released: 1997-06-05 
• Deposition Author(s): Fremont, D.H., Hendrickson, W.A., Marrack, P., Kappler, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.274 
• R-Value Work: 0.202 
• R-Value Observed: 0.202 

Literature

Structures of an MHC class II molecule with covalently bound single peptides.

Fremont, D.H., Hendrickson, W.A., Marrack, P., Kappler, J.

(1996) Science 272: 1001-1004

• PubMed: 8638119 
• DOI: 10.1126/science.272.5264.1001
• Primary Citation of Related Structures:  
  1IEB, 1IEA


• PubMed Abstract: 
  

The high-resolution x-ray crystal structures of the murine major histocompatibility complex (MHC) class II molecule, I-E(k), occupied by either of two antigenic peptides were determined. They reveal the structural basis for the I-E(k) peptide binding motif and suggest general principles for additional alleles. A buried cluster of acidic amino acids in the binding groove predicted to be conserved among all murine I-E and human DR MHC class II molecules suggests how pH may influence MHC binding or exchange of peptides. These structures also complement mutational studies on the importance of individual peptide residues to T cell receptor recognition.

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Organizational Affiliation: 

Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University, New York, 10032, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MHC CLASS II I-EK	A, C	192	Mus musculus	Mutation(s): 0  Gene Names: H2-Ea
Find proteins for P01904 (Mus musculus) Explore P01904  Go to UniProtKB:  P01904

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
MHC CLASS II I-EK	B, D	228	Mus musculus	Mutation(s): 0  Gene Names: H2-Eb1
Find proteins for Q31163 (Mus musculus) Explore Q31163  Go to UniProtKB:  Q31163
NIH Common Fund Data Resources
IMPC  MGI:95901

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	A, B, C, D	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.274 
• R-Value Work: 0.202 
• R-Value Observed: 0.202 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 147.02	α = 90
b = 57.09	β = 91.52
c = 117.01	γ = 90

Software Package:

Software Name	Purpose
HKL	data collection
DENZO	data reduction
SCALA	data scaling
Agrovata	data reduction
X-PLOR	model building
X-PLOR	refinement
HKL	data reduction
CCP4	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1996-04-05 
• Released Date: 1997-06-05 
Deposition Author(s): Fremont, D.H., Hendrickson, W.A., Marrack, P., Kappler, J.

Revision History 

• Version 1.0: 1997-06-05
  Type: Initial release
  
• Version 1.1: 2008-03-03
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.3: 2017-03-22
  Changes: Other
• Version 1.4: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Refinement description, Structure summary