Biological Assembly 1  

 3D View: Structure

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - ABC Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 3-mer -A2B 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 59960.66 
• Atom Count: 4228 
• Residue Count: 517 
• Unique protein chains: 4

1KG0

Structure of the Epstein-Barr Virus gp42 Protein Bound to the MHC class II Receptor HLA-DR1

• DOI: 10.2210/pdb1KG0/pdb

• Classification: Viral protein/Immune system
• Organism(s): Homo sapiens, Epstein-Barr virus (strain B95-8), Influenza A virus (strain A/Aichi/2/1968 H3N2)
• Expression System: Escherichia coli, Trichoplusia ni


• Deposited: 2001-11-25 Released: 2002-03-27 
• Deposition Author(s): Mullen, M.M., Haan, K.M., Longnecker, R., Jardetzky, T.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free: 0.247 
• R-Value Work: 0.221 

Literature

Structure of the Epstein-Barr virus gp42 protein bound to the MHC class II receptor HLA-DR1.

Mullen, M.M., Haan, K.M., Longnecker, R., Jardetzky, T.S.

(2002) Mol.Cell 9: 375-385

• PubMed: 11864610 


• PubMed Abstract: 
  

Epstein-Barr virus (EBV) causes infectious mononucleosis, establishes long-term latent infections, and is associated with a variety of human tumors. The EBV gp42 glycoprotein binds MHC class II molecules, playing a critical role in infection of B lymphocytes. EBV gp42 belongs to the C-type lectin superfamily, with homology to NK receptors of the immune system. We report the crystal structure of gp42 bound to the human MHC class II molecule HLA-DR1. The gp42 binds HLA-DR1 using a surface site that is distinct from the canonical lectin and NK receptor ligand binding sites. At the canonical ligand binding site, gp42 forms a large hydrophobic groove, which could interact with other ligands necessary for EBV entry, providing a mechanism for coupling MHC recognition and membrane fusion.

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Organizational Affiliation: 

Department of Biochemistry, Molecular Biology and Cell Biology, Northwestern University, Evanston, IL 60208, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
MHC class II Receptor HLA-DR1	A	180	Homo sapiens	Mutation(s): 0  Gene Names: HLA-DRA (HLA-DRA1)
Find proteins for P01903 (Homo sapiens) Go to Gene View: HLA-DRA Go to UniProtKB:  P01903

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
MHC class II Receptor HLA-DR1	B	188	Homo sapiens	Mutation(s): 0  Gene Names: HLA-DRB1
Find proteins for P04229 (Homo sapiens) Go to Gene View: HLA-DRB1 Go to UniProtKB:  P04229

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
Hemagglutinin HA Peptide	D	13	Influenza A virus (strain A/Aichi/2/1968 H3N2)	Mutation(s): 0  Gene Names: HA
Find proteins for P03437 (Influenza A virus (strain A/Aichi/2/1968 H3N2)) Go to UniProtKB:  P03437

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details
gp42 Protein	C	136	Epstein-Barr virus (strain B95-8)	Mutation(s): 0
Find proteins for P03205 (Epstein-Barr virus (strain B95-8)) Go to UniProtKB:  P03205

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free: 0.247 
• R-Value Work: 0.221 
• Space Group: P 6₃ 2 2

Unit Cell:

Length (Å)	Angle (°)
a = 170.400	α = 90.00
b = 170.400	β = 90.00
c = 101.000	γ = 120.00

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2001-11-25 
• Released Date: 2002-03-27 
• Deposition Author(s): Mullen, M.M., Haan, K.M., Longnecker, R., Jardetzky, T.S.

Revision History 

• Version 1.0: 2002-03-27
  Type: Initial release
• Version 1.1: 2008-04-27
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2016-11-23
  Type: Structure summary