2ZOV | pdb_00002zov

Structure of the periplasmic domain of MotB from Salmonella (crystal form I)

• PDB DOI: https://doi.org/10.2210/pdb2ZOV/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Salmonella enterica subsp. enterica serovar Typhimurium
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-06-09 Released: 2009-06-09 
• Deposition Author(s): Imada, K., Kojima, S., Namba, K., Homma, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.265 (Depositor), 0.265 (DCC) 
• R-Value Work: 
  0.233 (Depositor), 0.233 (DCC) 
• R-Value Observed: 
  0.233 (Depositor) 

Literature

Stator assembly and activation mechanism of the flagellar motor by the periplasmic region of MotB

Kojima, S., Imada, K., Sakuma, M., Sudo, Y., Kojima, C., Minamino, T., Homma, M., Namba, K.

(2009) Mol Microbiol 73: 710-718

• PubMed: 19627504 
• DOI: https://doi.org/10.1111/j.1365-2958.2009.06802.x
• Primary Citation Related Structures: 
  2ZOV, 2ZVY, 2ZVZ


• PubMed Abstract: 
  

  Torque generation in the Salmonella flagellar motor is coupled to translocation of H(+) ions through the proton-conducting channel of the Mot protein stator complex. The Mot complex is believed to be anchored to the peptidoglycan (PG) layer by the putative peptidoglycan-binding (PGB) domain of MotB. Proton translocation is activated only when the stator is installed into the motor. We report the crystal structure of a C-terminal periplasmic fragment of MotB (MotB(C)) that contains the PGB domain and includes the entire periplasmic region essential for motility. Structural and functional analyses indicate that the PGB domains must dimerize in order to form the proton-conducting channel. Drastic conformational changes in the N-terminal portion of MotB(C) are required both for PG binding and the proton channel activation.

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Organizational Affiliation: 
• Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa-Ku, Nagoya 464-8602, Japan.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 23.98 kDa 
• Atom Count: 1,508 
• Modeled Residue Count: 166 
• Deposited Residue Count: 210 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Chemotaxis protein motB	A	210	Salmonella enterica subsp. enterica serovar Typhimurium	Mutation(s): 0
UniProt
Find proteins for P55892 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)) Explore P55892  Go to UniProtKB:  P55892

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.265 (Depositor), 0.265 (DCC) 
• R-Value Work:  0.233 (Depositor), 0.233 (DCC) 
• R-Value Observed: 0.233 (Depositor) 

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 99.74	α = 90
b = 99.74	β = 90
c = 43.96	γ = 120

Software Package:

Software Name	Purpose
CNS	refinement
ADSC	data collection
MOSFLM	data reduction
SCALA	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-06-09 
Deposition Author(s): Imada, K., Kojima, S., Namba, K., Homma, M.

Revision History  

• Version 1.0: 2009-06-09
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-11-06
  Changes: Data collection, Database references, Derived calculations, Structure summary