2XN9

Crystal structure of the ternary complex between human T cell receptor, staphylococcal enterotoxin H and human major histocompatibility complex class II


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.272 
  • R-Value Work: 0.222 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

The Structure of Superantigen Complexed with Tcr and Mhc Reveals Novel Insights Into Superantigenic T Cell Activation.

Saline, M.Rodstrom, K.E.J.Fischer, G.Orekhov, V.Y.Karlsson, B.G.Lindkvist-Petersson, K.

(2010) Nat.Commun. 1: 119

  • DOI: 10.1038/ncomms1117
  • Primary Citation of Related Structures:  2XNA

  • PubMed Abstract: 
  • Superantigens (SAgs) are bacterial toxins that interact with immunoreceptors, T cell receptor (TCR) and major histocompatibility complex (MHC) class II, conventionally through the variable β-domain of TCR (TCRVβ). They induce a massive release of cyt ...

    Superantigens (SAgs) are bacterial toxins that interact with immunoreceptors, T cell receptor (TCR) and major histocompatibility complex (MHC) class II, conventionally through the variable β-domain of TCR (TCRVβ). They induce a massive release of cytokines, which can lead to diseases such as food poisoning and toxic shock syndrome. In this study, we report the X-ray structure of the ternary complex between staphylococcal enterotoxin H (SEH) and its human receptors, MHC class II and TCR. The structure demonstrates that SEH predominantly interacts with the variable α-domain of TCR (TCRVα), which is supported by nuclear magnetic resonance (NMR) analyses. Furthermore, there is no contact between MHC and TCR upon complex formation. Structural analyses suggest that the major contact points to TCRVα are conserved among other bacterial SAgs. Consequently, a new dimension of SAg biology emerges, suggesting that in addition to the conventional interactions with the TCRVβ domain, SAgs can also activate T cells through the TCRVα domain.


    Organizational Affiliation

    1] Swedish NMR Centre at University of Gothenburg, Box 465, Göteborg S-405 30, Sweden. [2] Department of Chemistry, University of Gothenburg, Box 462, Göteborg S-405 30, Sweden. [3] Swedish NMR Centre at University of Gothenburg, Box 465, Göteborg S-405 30, Sweden. [4].




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
T CELL RECEPTOR ALPHA CHAIN C REGION
A
204Homo sapiensGene Names: TRAC (TCRA)
Find proteins for P01848 (Homo sapiens)
Go to UniProtKB:  P01848
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
T CELL RECEPTOR BETA-1 CHAIN C REGION
B
244Homo sapiensGene Names: TRBC1
Find proteins for P01850 (Homo sapiens)
Go to UniProtKB:  P01850
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
ENTEROTOXIN H
C
217Staphylococcus aureusGene Names: entH (seh)
Find proteins for P0A0M0 (Staphylococcus aureus)
Go to UniProtKB:  P0A0M0
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
HLA CLASS II HISTOCOMPATIBILITY ANTIGEN, DR ALPHA CHAIN,
D
182Homo sapiensGene Names: HLA-DRA (HLA-DRA1)
Find proteins for P01903 (Homo sapiens)
Go to Gene View: HLA-DRA
Go to UniProtKB:  P01903
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
MAJOR HISTOCOMPATIBILITY COMPLEX CLASS II BETA CHAIN
E
190Homo sapiensGene Names: HLA-DRB1
Find proteins for P04229 (Homo sapiens)
Go to Gene View: HLA-DRB1
Go to UniProtKB:  P04229
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
HEMAGGLUTININ
F
13Influenza A virus (strain A/Equine/Jillin/1/1989 H3N8)Gene Names: HA
Find proteins for Q03909 (Influenza A virus (strain A/Equine/Jillin/1/1989 H3N8))
Go to UniProtKB:  Q03909
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

Download SDF File 
Download CCD File 
C
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
GOL
Query on GOL

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Download CCD File 
A, B
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.272 
  • R-Value Work: 0.222 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 191.180α = 90.00
b = 48.890β = 113.55
c = 166.720γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
SCALAdata scaling
MOSFLMdata reduction
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-11-24
    Type: Initial release
  • Version 1.1: 2011-08-03
    Type: Database references, Non-polymer description, Version format compliance