4UDU

Crystal structure of staphylococcal enterotoxin E in complex with a T cell receptor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.246 
  • R-Value Observed: 0.247 

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This is version 1.3 of the entry. See complete history


Literature

Structure of Staphylococcal Enterotoxin E in Complex with Tcr Defines the Role of Tcr Loop Positioning in Superantigen Recognition.

Rodstrom, K.E.J.Regenthal, P.Lindkvist-Petersson, K.

(2015) PLoS One 10: 01319

  • DOI: https://doi.org/10.1371/journal.pone.0131988
  • Primary Citation of Related Structures:  
    4UDT, 4UDU

  • PubMed Abstract: 

    T cells are crucial players in cell-mediated immunity. The specificity of their receptor, the T cell receptor (TCR), is central for the immune system to distinguish foreign from host antigens. Superantigens are bacterial toxins capable of inducing a toxic immune response by cross-linking the TCR and the major histocompatibility complex (MHC) class II and circumventing the antigen specificity. Here, we present the structure of staphylococcal enterotoxin E (SEE) in complex with a human T cell receptor, as well as the unligated T cell receptor structure. There are clear structural changes in the TCR loops upon superantigen binding. In particular, the HV4 loop moves to circumvent steric clashes upon complex formation. In addition, a predicted ternary model of SEE in complex with both TCR and MHC class II displays intermolecular contacts between the TCR α-chain and the MHC, suggesting that the TCR α-chain is of importance for complex formation.


  • Organizational Affiliation

    Department of Experimental Medical Science, Lund University, BMC C13, 22 184, Lund, Sweden.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
T CELL RECEPTOR ALPHA CHAIN, T-CELL RECEPTOR ALPHA CHAIN C REGION206Homo sapiensMutation(s): 1 
Gene Names: TRACTCRA
UniProt & NIH Common Fund Data Resources
Find proteins for P01848 (Homo sapiens)
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Go to UniProtKB:  P01848
PHAROS:  P01848
Find proteins for A0A0B4J277 (Homo sapiens)
Explore A0A0B4J277 
Go to UniProtKB:  A0A0B4J277
PHAROS:  A0A0B4J277
GTEx:  ENSG00000211802 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsP01848A0A0B4J277
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
PROTEIN TRBV7-9, T-CELL RECEPTOR BETA-2 CHAIN C REGION243Homo sapiensMutation(s): 4 
Gene Names: TCRBV6S4A1TRBV7-9TRBC2TCRBC2
UniProt & NIH Common Fund Data Resources
Find proteins for A0A5B9 (Homo sapiens)
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Go to UniProtKB:  A0A5B9
PHAROS:  A0A5B9
Find proteins for A0A5A3 (Homo sapiens)
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Go to UniProtKB:  A0A5A3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsA0A5B9A0A5A3
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
ENTEROTOXIN TYPE E233Staphylococcus aureusMutation(s): 0 
Gene Names: ENTE
UniProt
Find proteins for P12993 (Staphylococcus aureus)
Explore P12993 
Go to UniProtKB:  P12993
Entity Groups  
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UniProt GroupP12993
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.246 
  • R-Value Observed: 0.247 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 63.134α = 90
b = 78.544β = 90
c = 180.805γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-06-24
    Type: Initial release
  • Version 1.1: 2015-07-15
    Changes: Database references
  • Version 1.2: 2017-03-15
    Changes: Source and taxonomy
  • Version 1.3: 2023-12-20
    Changes: Data collection, Database references, Derived calculations, Other, Refinement description