Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 50.70 kDa 
• Atom Count: 2122 
• Modelled Residue Count: 268 
• Deposited Residue Count: 452 
• Unique protein chains: 1

1DPR

STRUCTURES OF THE APO-AND METAL ION ACTIVATED FORMS OF THE DIPHTHERIA TOX REPRESSOR FROM CORYNEBACTERIUM DIPHTHERIAE

• PDB DOI: 10.2210/pdb1DPR/pdb

• Classification: TRANSCRIPTION REGULATION
• Organism(s): Corynebacterium diphtheriae
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1995-02-06 Released: 1995-09-15 
• Deposition Author(s): Schiering, N., Tao, X., Murphy, J., Petsko, G.A., Ringe, D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.417 
• R-Value Work: 0.241 
• R-Value Observed: 0.241 

Literature

Structures of the apo- and the metal ion-activated forms of the diphtheria tox repressor from Corynebacterium diphtheriae.

Schiering, N., Tao, X., Zeng, H., Murphy, J.R., Petsko, G.A., Ringe, D.

(1995) Proc Natl Acad Sci U S A 92: 9843-9850

• PubMed: 7568230 
• DOI: 10.1073/pnas.92.21.9843
• Primary Citation of Related Structures:  
  1DPR


• PubMed Abstract: 
  

The diphtheria tox repressor (DtxR) of Corynebacterium diphtheriae plays a critical role in the regulation of diphtheria toxin expression and the control of other iron-sensitive genes. The crystal structures of apo-DtxR and of the metal ion-activated form of the repressor have been solved and used to identify motifs involved in DNA and metal ion binding. Residues involved in binding of the activated repressor to the diphtheria tox operator, glutamine 43, arginine 47, and arginine 50, were located and confirmed by site-directed mutagenesis. Previous biochemical and genetic data can be explained in terms of these structures. Conformational differences between apo- and Ni-DtxR are discussed with regard to the mechanism of action of this repressor.

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Related Citations: 

• Iron, Dtxr, and the Regulation of Diphtheria Toxin Expression
  Tao, X., Schiering, N., Zeng, H., Ringe, D., Murphy, J.
  (1994) Mol Microbiol 14: 191

• Crystallization and Preliminary X-Ray Studies of the Diphtheria Tox Repressor from Corynebacterium Diphtheriae
  Schiering, N., Tao, X., Murphy, J., Petsko, G., Ringe, D.
  (1994) J Mol Biol 244: 654

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Organizational Affiliation: 

Department of Chemistry, Brandeis University, Waltham, MA 02154, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DIPHTHERIA TOX REPRESSOR	A, B	226	Corynebacterium diphtheriae	Mutation(s): 0
UniProt
Find proteins for P0DJL7 (Corynebacterium diphtheriae (strain ATCC 700971 / NCTC 13129 / Biotype gravis)) Explore P0DJL7  Go to UniProtKB:  P0DJL7

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.417 
• R-Value Work: 0.241 
• R-Value Observed: 0.241 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64	α = 90
b = 64	β = 90
c = 220.4	γ = 120

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1995-02-06 
• Released Date: 1995-09-15 
Deposition Author(s): Schiering, N., Tao, X., Murphy, J., Petsko, G.A., Ringe, D.

Revision History  

• Version 1.0: 1995-09-15
  Type: Initial release
  
• Version 1.1: 2008-03-03
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance