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 9QR2 | pdb_00009qr2

EM structure of Rec-controlled histidine kinase LvrB


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.24 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 9QR2

This is version 1.1 of the entry. See complete history. 

Literature

Activation mechanism of the full-length histidine kinase LvrB from pathogenic Leptospira.

Agustoni, E., Mechaly, A., Dalla Rizza, J., Beriashvili, D., Pluhackova, K., Isaikina, P., Trajtenberg, F., Muntener, T., Wunder Jr., E.A., Ko, A.I., Schirmer, T., Buschiazzo, A., Hiller, S.

(2026) Nat Commun 17

  • DOI: https://doi.org/10.1038/s41467-026-71783-4
  • Primary Citation Related Structures: 
    8VC9, 9QIH, 9QJG, 9QL9, 9QQW, 9QR2

  • PubMed Abstract: 

    Pathogenic Leptospira modulate their virulence via the Lvr signaling system, with the histidine kinase LvrB being a central element. LvrB is a prototype of Rec-controlled histidine kinases, which are frequently found in bacterial two-component systems, and yet whose regulatory mechanisms remain largely unknown. Here, we report full-length structures of LvrB in different states uncovering its mechanism of activation. Kinase-inactive LvrB is a symmetric homodimer, with its catalytic domains rigidly clasped onto the central helical domain. Phosphorylation of the N-terminal Rec domains induces coiled-coil formation of the central αS helices thereby breaking symmetry through liberation of the catalytic domains into a dynamic, auto-phosphorylation competent state. We further identified LvrB's downstream effector partner LvrC, an anti-σ factor that reprograms the transcription of hundreds of virulence genes. Our findings set a mechanistic paradigm for Rec-controlled histidine kinases enabling the design of virulence inhibitors.


  • Organizational Affiliation: 
    • Biozentrum, University of Basel, Basel, Switzerland.

Macromolecule Content 

  • Total Structure Weight: 87.95 kDa 
  • Atom Count: 6,028 
  • Modeled Residue Count: 752 
  • Deposited Residue Count: 764 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
histidine kinase
A, B
382Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130Mutation(s): 0 
Gene Names: LIC_11708
EC: 2.7.13.3
UniProt
Find proteins for Q72RN7 (Leptospira interrogans serogroup Icterohaemorrhagiae serovar copenhageni (strain Fiocruz L1-130))
Explore Q72RN7 
Go to UniProtKB:  Q72RN7
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ72RN7
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.24 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21.2_5419

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Swiss National Science FoundationSwitzerland180541
Germanys Excellence StrategyGermany390740016

Revision History  (Full details and data files)

  • Version 1.0: 2026-04-15
    Type: Initial release
  • Version 1.1: 2026-10-07
    Changes: Data collection, Database references