4GG6

Protein complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.285 
  • R-Value Work: 0.246 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Biased T Cell Receptor Usage Directed against Human Leukocyte Antigen DQ8-Restricted Gliadin Peptides Is Associated with Celiac Disease

Broughton, S.E.Petersen, J.Theodossis, A.Scally, S.W.Loh, K.L.Thompson, A.van Bergen, J.Kooy-Winkelaar, Y.Henderson, K.N.Beddoe, T.Tye-Din, J.A.Mannering, S.I.Purcell, A.W.McCluskey, J.Anderson, R.P.Koning, F.Reid, H.H.Rossjohn, J.

(2012) Immunity --: --

  • DOI: 10.1016/j.immuni.2012.07.013
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Celiac disease is a human leukocyte antigen (HLA)-DQ2- and/or DQ8-associated T cell-mediated disorder that is induced by dietary gluten. Although it is established how gluten peptides bind HLA-DQ8 and HLA-DQ2, it is unclear how such peptide-HLA compl ...

    Celiac disease is a human leukocyte antigen (HLA)-DQ2- and/or DQ8-associated T cell-mediated disorder that is induced by dietary gluten. Although it is established how gluten peptides bind HLA-DQ8 and HLA-DQ2, it is unclear how such peptide-HLA complexes are engaged by the T cell receptor (TCR), a recognition event that triggers disease pathology. We show that biased TCR usage (TRBV9(∗)01) underpins the recognition of HLA-DQ8-α-I-gliadin. The structure of a prototypical TRBV9(∗)01-TCR-HLA-DQ8-α-I-gliadin complex shows that the TCR docks centrally above HLA-DQ8-α-I-gliadin, in which all complementarity-determining region-β (CDRβ) loops interact with the gliadin peptide. Mutagenesis at the TRBV9(∗)01-TCR-HLA-DQ8-α-I-gliadin interface provides an energetic basis for the Vβ bias. Moreover, CDR3 diversity accounts for TRBV9(∗)01(+) TCRs exhibiting differing reactivities toward the gliadin epitopes at various deamidation states. Accordingly, biased TCR usage is an important factor in the pathogenesis of DQ8-mediated celiac disease.


    Organizational Affiliation

    The Department of Biochemistry and Molecular Biology, School of Biomedical Sciences, Monash University, Clayton, Victoria, Australia.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
HLA class II histocompatibility antigen, DQ alpha 1 chain
A, C
192Homo sapiensMutation(s): 0 
Gene Names: HLA-DQA1
Find proteins for P01909 (Homo sapiens)
Go to Gene View: HLA-DQA1
Go to UniProtKB:  P01909
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
HLA class II histocompatibility antigen, DQ beta 1 chain
B, D
215Homo sapiensMutation(s): 0 
Gene Names: HLA-DQB1 (HLA-DQB)
Find proteins for P01920 (Homo sapiens)
Go to Gene View: HLA-DQB1
Go to UniProtKB:  P01920
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
T-CELL RECEPTOR, SP3.4 ALPHA CHAIN
E, G
207Homo sapiensMutation(s): 0 
Find proteins for K7N5N2 (Homo sapiens)
Go to UniProtKB:  K7N5N2
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
T-CELL RECEPTOR, SP3.4 BETA CHAIN
F, H
245Homo sapiensMutation(s): 0 
Gene Names: TRBC1
Find proteins for P01850 (Homo sapiens)
Go to UniProtKB:  P01850
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
Peptide from Alpha/beta-gliadin MM1
I, J
18Triticum aestivumMutation(s): 2 
Find proteins for P18573 (Triticum aestivum)
Go to UniProtKB:  P18573
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download SDF File 
Download CCD File 
A, C
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.285 
  • R-Value Work: 0.246 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 111.708α = 90.00
b = 134.325β = 90.00
c = 140.304γ = 90.00
Software Package:
Software NamePurpose
Blu-Icedata collection
PHASERphasing
HKL-2000data scaling
HKL-2000data reduction
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-10-24
    Type: Initial release