3MFG | pdb_00003mfg

Crystal structure of Toxic Shock Syndrome Toxin 1 (TSST-1) in complex with the human T cell receptor beta chain Vbeta2.1 (EP-8)

• PDB DOI: https://doi.org/10.2210/pdb3MFG/pdb

• Classification: TOXIN/IMMUNE SYSTEM
• Organism(s): Staphylococcus aureus subsp. aureus N315, Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-04-02 Released: 2010-11-24 
• Deposition Author(s): Bonsor, D.A., Sundberg, E.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.37 Å
• R-Value Free: 
  0.283 (Depositor), 0.276 (DCC) 
• R-Value Work: 
  0.234 (Depositor), 0.228 (DCC) 
• R-Value Observed: 
  0.237 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of Toxic Shock Syndrome Toxin 1 (TSST-1) in complex with the human T cell receptor beta chain Vbeta2.1 (EP-8)

Bonsor, D.A., Sundberg, E.J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 35.3 kDa 
• Atom Count: 2,450 
• Modeled Residue Count: 301 
• Deposited Residue Count: 312 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Toxic shock syndrome toxin-1	A	194	Staphylococcus aureus subsp. aureus N315	Mutation(s): 0  Gene Names: tst, SA1819

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
V_segment translation product	B	118	Homo sapiens	Mutation(s): 0  Gene Names: TCRBV2S1
UniProt
Find proteins for A0A5B4 (Homo sapiens) Explore A0A5B4  Go to UniProtKB:  A0A5B4

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], D [auth B], E [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	F [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.37 Å
• R-Value Free:  0.283 (Depositor), 0.276 (DCC) 
• R-Value Work:  0.234 (Depositor), 0.228 (DCC) 
• R-Value Observed: 0.237 (Depositor) 

Space Group: I 4 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 242.62	α = 90
b = 242.62	β = 90
c = 47.14	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
Blu-Ice	data collection

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-11-24 
Deposition Author(s): Bonsor, D.A., Sundberg, E.J.

Revision History  

• Version 1.0: 2010-11-24
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.2: 2023-09-06
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.3: 2024-10-30
  Changes: Structure summary