Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | 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)

Biological Assembly 2  

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

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

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

Macromolecule Content

• Total Structure Weight: 68.91 kDa 
• Atom Count: 4468 
• Modelled Residue Count: 530 
• Deposited Residue Count: 572 
• Unique protein chains: 1

4MLD

X-ray structure of ComE D58E REC domain from Streptococcus pneumoniae

• PDB DOI: 10.2210/pdb4MLD/pdb

• Classification: UNKNOWN FUNCTION
• Organism(s): Streptococcus pneumoniae R6
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2013-09-06 Released: 2014-02-19 
• Deposition Author(s): Boudes, M., Sanchez, D., Durand, D., Graille, M., van Tilbeurgh, H., Quevillon-Cheruel, S.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.88 Å
• R-Value Free: 0.239 
• R-Value Work: 0.195 
• R-Value Observed: 0.197 

Literature

Structural insights into the dimerization of the response regulator ComE from Streptococcus pneumoniae.

Boudes, M., Sanchez, D., Graille, M., van Tilbeurgh, H., Durand, D., Quevillon-Cheruel, S.

(2014) Nucleic Acids Res 42: 5302-5313

• PubMed: 24500202 
• DOI: 10.1093/nar/gku110
• Primary Citation of Related Structures:  
  4CBV, 4ML3, 4MLD


• PubMed Abstract: 
  

Natural transformation contributes to the maintenance and to the evolution of the bacterial genomes. In Streptococcus pneumoniae, this function is reached by achieving the competence state, which is under the control of the ComD-ComE two-component system. We present the crystal and solution structures of ComE. We mimicked the active and non-active states by using the phosphorylated mimetic ComE(D58E) and the unphosphorylatable ComE(D58A) mutants. In the crystal, full-length ComE(D58A) dimerizes through its canonical REC receiver domain but with an atypical mode, which is also adopted by the isolated REC(D58A) and REC(D58E). The LytTR domain adopts a tandem arrangement consistent with the two direct repeats of its promoters. However ComE(D58A) is monomeric in solution, as seen by SAXS, by contrast to ComE(D58E) that dimerizes. For both, a relative mobility between the two domains is assumed. Based on these results we propose two possible ways for activation of ComE by phosphorylation.

---

Organizational Affiliation: 

Institut de Biochimie et de Biophysique Moléculaire et Cellulaire, Université de Paris-Sud XI, UMR8619, Bât 430, 91405 Orsay, France and Centre National de la Recherche Scientifique, Orsay, 91405, France.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Response regulator	A, B, C, D	143	Streptococcus pneumoniae R6	Mutation(s): 1  Gene Names: comE, spr2041
UniProt
Find proteins for Q8DMW5 (Streptococcus pneumoniae (strain ATCC BAA-255 / R6)) Explore Q8DMW5  Go to UniProtKB:  Q8DMW5

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.88 Å
• R-Value Free: 0.239 
• R-Value Work: 0.195 
• R-Value Observed: 0.197 
• Space Group: P 6₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 90.85	α = 90
b = 90.85	β = 90
c = 140.25	γ = 120

Software Package:

Software Name	Purpose
APEX	data collection
PHASER	phasing
PHENIX	refinement
XDS	data reduction
XDS	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2013-09-06 
• Released Date: 2014-02-19 
Deposition Author(s): Boudes, M., Sanchez, D., Durand, D., Graille, M., van Tilbeurgh, H., Quevillon-Cheruel, S.

Revision History  

• Version 1.0: 2014-02-19
  Type: Initial release
  
• Version 1.1: 2014-06-18
  Changes: Database references