6AF4

Toxin-Antitoxin module from Streptococcus pneumoniae

• PDB DOI: https://doi.org/10.2210/pdb6AF4/pdb

• Classification: TOXIN
• Organism(s): Streptococcus pneumoniae TIGR4
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-08-08 Released: 2019-08-14 
• Deposition Author(s): Kang, S.M., Kim, D.H., Jin, C.
• Funding Organization(s): National Research Foundation (Korea)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free: 0.254 
• R-Value Work: 0.216 
• R-Value Observed: 0.218 

Starting Model: experimental

Literature

Toxin-Antitoxin module from Streptococcus pneumoniae

Kang, S.M., Kim, D.H., Jin, C.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 110.05 kDa 
• Atom Count: 6,810 
• Modelled Residue Count: 834 
• Deposited Residue Count: 952 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HigB toxin	A, C, E, G	141	Streptococcus pneumoniae TIGR4	Mutation(s): 0  Gene Names: higB
UniProt
Find proteins for A0A0H2UQ08 (Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)) Explore A0A0H2UQ08  Go to UniProtKB:  A0A0H2UQ08

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
HigA antitoxin	B, D, F, H	97	Streptococcus pneumoniae TIGR4	Mutation(s): 0  Gene Names: higA
UniProt
Find proteins for A0A0H2UQ20 (Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)) Explore A0A0H2UQ20  Go to UniProtKB:  A0A0H2UQ20

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free: 0.254 
• R-Value Work: 0.216 
• R-Value Observed: 0.218 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.903	α = 90
b = 73.403	β = 90.08
c = 98.321	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-08-14 
Deposition Author(s): Kang, S.M., Kim, D.H., Jin, C.

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Funding Organization	Location	Grant Number
National Research Foundation (Korea)	Korea, Republic Of	2018R1A2A1A19018526

Revision History  

• Version 1.0: 2019-08-14
  Type: Initial release
  
• Version 1.1: 2023-11-22
  Changes: Data collection, Database references, Refinement description