5IUL

Crystal structure of the DesK-DesR complex in the phosphotransfer state with high Mg2+ (150 mM) and BeF3


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.15 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.190 
  • R-Value Observed: 0.192 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Regulation of signaling directionality revealed by 3D snapshots of a kinase:regulator complex in action.

Trajtenberg, F.Imelio, J.A.Machado, M.R.Larrieux, N.Marti, M.A.Obal, G.Mechaly, A.E.Buschiazzo, A.

(2016) Elife 5

  • DOI: 10.7554/eLife.21422
  • Primary Citation of Related Structures:  
    5IUJ, 5IUL, 5IUK, 5IUN, 5IUM

  • PubMed Abstract: 
  • Two-component systems (TCS) are protein machineries that enable cells to respond to input signals. Histidine kinases (HK) are the sensory component, transferring information toward downstream response regulators (RR). HKs transfer phosphoryl groups to their specific RRs, but also dephosphorylate them, overall ensuring proper signaling ...

    Two-component systems (TCS) are protein machineries that enable cells to respond to input signals. Histidine kinases (HK) are the sensory component, transferring information toward downstream response regulators (RR). HKs transfer phosphoryl groups to their specific RRs, but also dephosphorylate them, overall ensuring proper signaling. The mechanisms by which HKs discriminate between such disparate directions, are yet unknown. We now disclose crystal structures of the HK:RR complex DesK:DesR from Bacillus subtilis , comprising snapshots of the phosphotransfer and the dephosphorylation reactions. The HK dictates the reactional outcome through conformational rearrangements that include the reactive histidine. The phosphotransfer center is asymmetric, poised for dissociative nucleophilic substitution. The structural bases of HK phosphatase/phosphotransferase control are uncovered, and the unexpected discovery of a dissociative reactional center, sheds light on the evolution of TCS phosphotransfer reversibility. Our findings should be applicable to a broad range of signaling systems and instrumental in synthetic TCS rewiring.


    Organizational Affiliation

    Département de Microbiologie, Institut Pasteur, Paris, France.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Sensor histidine kinase DesK ABDE218Bacillus subtilis subsp. subtilis str. 168Mutation(s): 1 
Gene Names: desKyocFBSU19190
EC: 2.7.13.3
Find proteins for O34757 (Bacillus subtilis (strain 168))
Explore O34757 
Go to UniProtKB:  O34757
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Transcriptional regulatory protein DesR CF139Bacillus subtilis subsp. subtilis str. 168Mutation(s): 0 
Gene Names: desRyocGBSU19200
Find proteins for O34723 (Bacillus subtilis (strain 168))
Explore O34723 
Go to UniProtKB:  O34723
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.15 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.190 
  • R-Value Observed: 0.192 
  • Space Group: P 1 21 1
  • Diffraction Data DOI: 10.15785/SBGRID/408 SBGrid
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 88.186α = 90
b = 116.68β = 117.1
c = 91.877γ = 90
Software Package:
Software NamePurpose
XDSdata scaling
Aimlessdata scaling
BUSTER-TNTrefinement
Cootmodel building

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-12-21
    Type: Initial release
  • Version 1.1: 2016-12-28
    Changes: Database references
  • Version 1.2: 2017-01-04
    Changes: Database references
  • Version 1.3: 2017-11-22
    Changes: Refinement description