6PH4

Full length LOV-PAS-HK construct from the LOV-HK sensory protein from Brucella abortus (light-adapted, construct 15-489)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.25 Å
  • R-Value Free: 0.318 
  • R-Value Work: 0.255 
  • R-Value Observed: 0.258 

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This is version 1.1 of the entry. See complete history


Literature

Dimer Asymmetry and Light Activation Mechanism in Brucella Blue-Light Sensor Histidine Kinase.

Rinaldi, J.Fernandez, I.Shin, H.Sycz, G.Gunawardana, S.Kumarapperuma, I.Paz, J.M.Otero, L.H.Cerutti, M.L.Zorreguieta, A.Ren, Z.Klinke, S.Yang, X.Goldbaum, F.A.

(2021) mBio 12

  • DOI: 10.1128/mBio.00264-21
  • Primary Citation of Related Structures:  
    6PH2, 6PH3, 6PH4, 6PPS

  • PubMed Abstract: 
  • The ability to sense and respond to environmental cues is essential for adaptation and survival in living organisms. In bacteria, this process is accomplished by multidomain sensor histidine kinases that undergo autophosphorylation in response to specific stimuli, thereby triggering downstream signaling cascades ...

    The ability to sense and respond to environmental cues is essential for adaptation and survival in living organisms. In bacteria, this process is accomplished by multidomain sensor histidine kinases that undergo autophosphorylation in response to specific stimuli, thereby triggering downstream signaling cascades. However, the molecular mechanism of allosteric activation is not fully understood in these important sensor proteins. Here, we report the full-length crystal structure of a blue light photoreceptor LOV histidine kinase (LOV-HK) involved in light-dependent virulence modulation in the pathogenic bacterium Brucella abortus Joint analyses of dark and light structures determined in different signaling states have shown that LOV-HK transitions from a symmetric dark structure to a highly asymmetric light state. The initial local and subtle structural signal originated in the chromophore-binding LOV domain alters the dimer asymmetry via a coiled-coil rotary switch and helical bending in the helical spine. These amplified structural changes result in enhanced conformational flexibility and large-scale rearrangements that facilitate the phosphoryl transfer reaction in the HK domain. IMPORTANCE Bacteria employ two-component systems (TCSs) to sense and respond to changes in their surroundings. At the core of the TCS signaling pathway is the multidomain sensor histidine kinase, where the enzymatic activity of its output domain is allosterically controlled by the input signal perceived by the sensor domain. Here, we examine the structures and dynamics of a naturally occurring light-sensitive histidine kinase from the pathogen Brucella abortus in both its full-length and its truncated constructs. Direct comparisons between the structures captured in different signaling states have revealed concerted protein motions in an asymmetric dimer framework in response to light. Findings of this work provide mechanistic insights into modular sensory proteins that share a similar modular architecture.


    Related Citations: 
    • Crystallization and initial X-ray diffraction analysis of the multi-domain Brucella blue light-activated histidine kinase LOV-HK in its illuminated state
      Rinaldi, J., Fernandez, I., Poth, L.M., Shepard, W.E., Savko, M., Goldbaum, F.A., Klinke, S.
      (2018) Biochem Biophys Rep 16: 39

    Organizational Affiliation

    Plataforma Argentina de Biología Estructural y Metabolómica PLABEM, Buenos Aires, Argentina.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Blue-light-activated histidine kinaseA, B482Brucella melitensis bv. 1 str. 16MMutation(s): 0 
Gene Names: BMEII0679
EC: 2.7.13.3
UniProt
Find proteins for Q8YC53 (Brucella melitensis biotype 1 (strain 16M / ATCC 23456 / NCTC 10094))
Explore Q8YC53 
Go to UniProtKB:  Q8YC53
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8YC53
Protein Feature View
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  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.25 Å
  • R-Value Free: 0.318 
  • R-Value Work: 0.255 
  • R-Value Observed: 0.258 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 95.956α = 90
b = 104.662β = 90
c = 164.828γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing
MxCuBEdata collection
Cootmodel building

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Agencia Nacional de Promocion Cientifica y Tecnologica (FONCYT)ArgentinaPICT 2011-2672
Agencia Nacional de Promocion Cientifica y Tecnologica (FONCYT)ArgentinaPICT 2014-0959
Agencia Nacional de Promocion Cientifica y Tecnologica (FONCYT)ArgentinaPICT 2016-1618

Revision History  (Full details and data files)

  • Version 1.0: 2020-12-30
    Type: Initial release
  • Version 1.1: 2021-07-14
    Changes: Database references