5IUJ

Crystal structure of the DesK-DesR complex in the phosphotransfer state with low Mg2+ (20 mM)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.187 
  • R-Value Observed: 0.189 

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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: https://doi.org/10.7554/eLife.21422
  • Primary Citation of Related Structures:  
    5IUJ, 5IUK, 5IUL, 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)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Sensor histidine kinase DesKA, B, D, E218Bacillus subtilis subsp. subtilis str. 168Mutation(s): 1 
Gene Names: desKyocFBSU19190
EC: 2.7.13.3
UniProt
Find proteins for O34757 (Bacillus subtilis (strain 168))
Explore O34757 
Go to UniProtKB:  O34757
Entity Groups  
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UniProt GroupO34757
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Transcriptional regulatory protein DesRC, F139Bacillus subtilis subsp. subtilis str. 168Mutation(s): 0 
Gene Names: desRyocGBSU19200
UniProt
Find proteins for O34723 (Bacillus subtilis (strain 168))
Explore O34723 
Go to UniProtKB:  O34723
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO34723
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

Unit Cell:
Length ( Å )Angle ( ˚ )
a = 87.82α = 90
b = 114.619β = 116.44
c = 91.597γ = 90
Software Package:
Software NamePurpose
XDSdata scaling
Aimlessdata scaling
PHASERphasing
BUSTER-TNTrefinement
Cootmodel building

Structure Validation

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Ligand Structure Quality Assessment 


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