4UHT | pdb_00004uht

Crystal structure of the DNA binding domain of CpxR from E. coli

• PDB DOI: https://doi.org/10.2210/pdb4UHT/pdb

• Classification: TRANSCRIPTION
• Organism(s): Escherichia coli K-12
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2015-03-25 Released: 2016-04-13 
• Deposition Author(s): Mechaly, A.E., Alzari, P.M.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.15 Å
• R-Value Free: 
  0.156 (Depositor), 0.166 (DCC) 
• R-Value Work: 
  0.128 (Depositor), 0.141 (DCC) 
• R-Value Observed: 
  0.129 (Depositor) 

Literature

Conformational plasticity of the response regulator CpxR, a key player in Gammaproteobacteria virulence and drug-resistance.

Mechaly, A.E., Haouz, A., Sassoon, N., Buschiazzo, A., Betton, J.M., Alzari, P.M.

(2018) J Struct Biol 204: 165-171

• PubMed: 30086390 
• DOI: https://doi.org/10.1016/j.jsb.2018.08.001
• Primary Citation Related Structures: 
  4UHS, 4UHT


• PubMed Abstract: 
  

  The transcriptional regulator CpxR mediates an adaptive response to envelope stress, tightly linked to virulence and antibiotics resistance in several Gammaproteobacteria pathogens. In this work, we integrated crystallographic and small-angle X-ray scattering data to gain insights into the structure and conformational plasticity of CpxR from Escherichia coli. CpxR dimerizes through two alternative interaction surfaces. Moreover, widely different CpxR conformations coexist in solution, from compact to fully extended ones. The possible functional implications of these structural features are discussed.

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Organizational Affiliation: 
• Institut Pasteur, Unité de Microbiologie Structurale, CNRS UMR 3528 & Université Paris Diderot, 25 rue du Dr. Roux, 75724 Paris CEDEX 15, France. Electronic address: [e-mail].
Institut Pasteur, Plate-forme de Cristallographie, CNRS UMR 3528, 25 rue du Dr. Roux, 75724 Paris CEDEX 15, France.
Institut Pasteur, Unité de Microbiologie Structurale, CNRS UMR 3528 & Université Paris Diderot, 25 rue du Dr. Roux, 75724 Paris CEDEX 15, France.
Institut Pasteur de Montevideo, Laboratory of Molecular and Structural Microbiology, Mataojo 2002, Montevideo 11400, Uruguay; Institut Pasteur, Departement de Microbiologie, 25-28 rue du Dr. Roux, 75724 Paris CEDEX 15, France.
Institut Pasteur, Unité de Microbiologie Structurale, CNRS UMR 3528 & Université Paris Diderot, 25 rue du Dr. Roux, 75724 Paris CEDEX 15, France. Electronic address: [e-mail].

Biological Assembly 1  

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

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

Biological Assembly 2  

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

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

Macromolecule Content 

• Total Structure Weight: 23.12 kDa 
• Atom Count: 2,027 
• Modeled Residue Count: 204 
• Deposited Residue Count: 204 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TRANSCRIPTIONAL REGULATORY PROTEIN CPXR	A, B	102	Escherichia coli K-12	Mutation(s): 1
UniProt
Find proteins for P0AE88 (Escherichia coli (strain K12)) Explore P0AE88  Go to UniProtKB:  P0AE88

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CL	C [auth A], D [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.15 Å
• R-Value Free:  0.156 (Depositor), 0.166 (DCC) 
• R-Value Work:  0.128 (Depositor), 0.141 (DCC) 
• R-Value Observed: 0.129 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 39.119	α = 89.8
b = 39.88	β = 75.13
c = 40.94	γ = 61.04

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-04-13 
Deposition Author(s): Mechaly, A.E., Alzari, P.M.A.

Revision History  

• Version 1.0: 2016-04-13
  Type: Initial release
  
• Version 1.1: 2018-09-12
  Changes: Data collection, Database references
• Version 1.2: 2018-10-24
  Changes: Data collection, Database references
• Version 1.3: 2024-05-08
  Changes: Data collection, Database references, Derived calculations, Other