2QIL | pdb_00002qil

TOXIC SHOCK SYNDROME TOXIN-1 AT 2.07 A RESOLUTION


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.07 Å
  • R-Value Work: 
    0.204 (Depositor) 
  • R-Value Observed: 
    0.204 (Depositor) 

wwPDB Validation 3D Report Full Report

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This is version 1.3 of the entry. See complete history

Literature

The refined crystal structure of toxic shock syndrome toxin-1 at 2.07 A resolution.

Papageorgiou, A.C.Brehm, R.D.Leonidas, D.D.Tranter, H.S.Acharya, K.R.

(1996) J Mol Biology 260: 553-569

  • DOI: https://doi.org/10.1006/jmbi.1996.0421
  • Primary Citation Related Structures: 
    2QIL

  • PubMed Abstract: 

    The pyrogenic toxin toxic shock syndrome toxin-1 from Staphylococcus aureus is a causative agent of the toxic shock syndrome disease. It belongs to a family of proteins known as superantigens that cross-link major histocompatibility class II molecules and T-cell receptors leading to the activation of a substantial number of T cells. The crystal structure of this protein has been refined to 2.07 A with an Rcryst value of 20.4% for 51,240 reflections. The final model contains three molecules in the asymmetric unit with good stereochemistry and a root-mean-square deviation of 0.009 A and 1.63 from ideality for bond lengths and bond angles, respectively. The overall fold is considerably similar to that of other known microbial superantigens (staphylococcal enterotoxins). However, a detailed structural analysis shows that toxic shock syndrome toxin-1 lacks several structural features that affect its specificity for V beta elements of the T-cell receptor and also its recognition by major histocompatibility class II molecules.


  • Organizational Affiliation
    • School of Biology and Biochemistry, University of Bath, Claverton Down, UK.

Macromolecule Content 

  • Total Structure Weight: 66.31 kDa 
  • Atom Count: 4,855 
  • Modeled Residue Count: 582 
  • Deposited Residue Count: 582 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
TOXIC SHOCK SYNDROME TOXIN-1
A, B, C
194Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for P06886 (Staphylococcus aureus)
Explore P06886 
Go to UniProtKB:  P06886
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP06886
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.07 Å
  • R-Value Work:  0.204 (Depositor) 
  • R-Value Observed: 0.204 (Depositor) 
Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 109.56α = 90
b = 177.6β = 90
c = 98.13γ = 90
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORrefinement
MOSFLMdata reduction
Agrovatadata scaling
X-PLORphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1997-08-12
    Type: Initial release
  • Version 1.1: 2008-03-25
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2024-02-21
    Changes: Data collection, Database references, Other, Refinement description