1UB4

crystal structure of MazEF complex

• PDB DOI: https://doi.org/10.2210/pdb1UB4/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Escherichia coli
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2003-03-28 Released: 2003-05-20 
• Deposition Author(s): Kamada, K., Hanaoka, F., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.232 (Depositor) 
• R-Value Work: 
  0.210 (Depositor) 
• R-Value Observed: 
  0.248 (Depositor) 

Literature

Crystal Structure of the MazE/MazF Complex. Molecular Bases of Antidote-Toxin Recognition

Kamada, K., Hanaoka, F., Burley, S.K.

(2003) Mol Cell 11: 875-884

• PubMed: 12718874 
• DOI: https://doi.org/10.1016/s1097-2765(03)00097-2
• Primary Citation of Related Structures:  
  1UB4


• PubMed Abstract: 
  

  A structure of the Escherichia coli chromosomal MazE/MazF addiction module has been determined at 1.7 A resolution. Addiction modules consist of stable toxin and unstable antidote proteins that govern bacterial cell death. MazE (antidote) and MazF (toxin) form a linear heterohexamer composed of alternating toxin and antidote homodimers (MazF(2)-MazE(2)-MazF(2)). The MazE homodimer contains a beta barrel from which two extended C termini project, making interactions with flanking MazF homodimers that resemble the plasmid-encoded toxins CcdB and Kid. The MazE/MazF heterohexamer structure documents that the mechanism of antidote-toxin recognition is common to both chromosomal and plasmid-borne addiction modules, and provides general molecular insights into toxin function, antidote degradation in the absence of toxin, and promoter DNA binding by antidote/toxin complexes.

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Organizational Affiliation: 

Laboratories of Molecular Biophysics, The Rockefeller University, 1230 York Avenue, New York, New York 10021, USA.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 6-mer - A4B2 

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

Macromolecule Content

• Total Structure Weight: 33.62 kDa 
• Atom Count: 2,493 
• Modelled Residue Count: 278 
• Deposited Residue Count: 305 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MazF protein	A, B	110	Escherichia coli	Mutation(s): 0  Gene Names: mazF EC: 3.1.27
UniProt
Find proteins for P0AE70 (Escherichia coli (strain K12)) Explore P0AE70  Go to UniProtKB:  P0AE70

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
MazE protein	C	85	Escherichia coli	Mutation(s): 0  Gene Names: MazE
UniProt
Find proteins for P0AE72 (Escherichia coli (strain K12)) Explore P0AE72  Go to UniProtKB:  P0AE72

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.232 (Depositor) 
• R-Value Work:  0.210 (Depositor) 
• R-Value Observed: 0.248 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.591	α = 90
b = 116.717	β = 90
c = 76.841	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
MLPHARE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-05-20 
Deposition Author(s): Kamada, K., Hanaoka, F., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2003-05-20
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2021-02-03
  Changes: Database references, Structure summary
• Version 1.4: 2023-12-27
  Changes: Data collection, Database references