9QQW | pdb_00009qqw

EM structure of Rec-controlled histidine kinase LvrB, BeF3-activated

PDB DOI: https://doi.org/10.2210/pdb9QQW/pdb
EM Map EMD-53315: EMDB EMDataResource

Classification: SIGNALING PROTEIN
Organism(s): Leptospira interrogans serovar Copenhageni
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2025-04-02 Released: 2026-04-15
Deposition Author(s): Agustoni, E., Mechaly, A., Rizza, J.D., Beriashvili, D., Pluhackova, K., Isaikina, P., Trajtenberg, F., Muntener, T., Wunder, E., Ko, A., Schirmer, T., Buschiazzo, A., Hiller, S.
Funding Organization(s): Swiss National Science Foundation, Germanys Excellence Strategy

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 5.92 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 9QQW

This is version 1.0 of the entry. See complete history.

Literature

Leptospira virulence factor LvrB unveils the activation mechanism of Rec-controlled histidine kinases

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

To be published.

Macromolecule Content

Total Structure Weight: 87.49 kDa
Atom Count: 3,097
Modeled Residue Count: 566
Deposited Residue Count: 764
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
histidine kinase	A, B	382	Leptospira interrogans serovar Copenhageni	Mutation(s): 0 Gene Names: LA_2223 EC: 2.7.13.3
UniProt
Find proteins for Q8F424 (Leptospira interrogans serogroup Icterohaemorrhagiae serovar Lai (strain 56601)) Explore Q8F424 Go to UniProtKB: Q8F424
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8F424
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ADP (Subject of Investigation/LOI) Query on ADP Download:Ideal Coordinates CCD File SDF format, chain G [auth B] MOL2 format, chain G [auth B] mmCIF format, chain G [auth B]	G [auth B]	ADENOSINE-5'-DIPHOSPHATE C₁₀ H₁₅ N₅ O₁₀ P₂ XTWYTFMLZFPYCI-KQYNXXCUSA-N		Interactions Focus chain G [auth B] Interactions & Density Focus chain G [auth B]
BEF (Subject of Investigation/LOI) Query on BEF Download:Ideal Coordinates CCD File SDF format, chain F [auth B] SDF format, chain D [auth A] MOL2 format, chain F [auth B] MOL2 format, chain D [auth A] mmCIF format, chain F [auth B] mmCIF format, chain D [auth A]	D [auth A], F [auth B]	BERYLLIUM TRIFLUORIDE ION Be F₃ OGIAHMCCNXDTIE-UHFFFAOYSA-K		Interactions Focus chain D [auth A] Focus chain F [auth B] Interactions & Density Focus chain D [auth A] Focus chain F [auth B]
MG (Subject of Investigation/LOI) Query on MG Download:Ideal Coordinates CCD File SDF format, chain H [auth B] SDF format, chain E [auth B] SDF format, chain C [auth A] MOL2 format, chain H [auth B] MOL2 format, chain E [auth B] MOL2 format, chain C [auth A] mmCIF format, chain H [auth B] mmCIF format, chain E [auth B] mmCIF format, chain C [auth A]	C [auth A], E [auth B], H [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain E [auth B] Focus chain H [auth B] Interactions & Density Focus chain C [auth A] Focus chain E [auth B] Focus chain H [auth B]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 5.92 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-04-15

Deposition Author(s):

Beriashvili, D.

Trajtenberg, F.

Funding Organization	Location	Grant Number
Swiss National Science Foundation	Switzerland	180541
Germanys Excellence Strategy	Germany	390740016

Revision History (Full details and data files)

Version 1.0: 2026-04-15
Type: Initial release

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.