6YSF | pdb_00006ysf

Structure of the flagellar MotAB stator complex from Clostridium sporogenes

• PDB DOI: https://doi.org/10.2210/pdb6YSF/pdb
• EM Map EMD-10895: EMDB EMDataResource

• Classification: MOTOR PROTEIN
• Organism(s): Clostridium sporogenes
• Expression System: Escherichia coli
• Mutation(s): No 
• Membrane Protein: Yes  OPMPDBTMMemProtMDmpstruc


• Deposited: 2020-04-22 Released: 2020-08-12 
• Deposition Author(s): Lea, S.M., Deme, J.C., Johnson, S.J.
• Funding Organization(s): Wellcome Trust, Medical Research Council (MRC, United Kingdom)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.40 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structures of the stator complex that drives rotation of the bacterial flagellum.

Deme, J.C., Johnson, S., Vickery, O., Aron, A., Monkhouse, H., Griffiths, T., James, R.H., Berks, B.C., Coulton, J.W., Stansfeld, P.J., Lea, S.M.

(2020) Nat Microbiol 5: 1553-1564

• PubMed: 32929189 
• DOI: https://doi.org/10.1038/s41564-020-0788-8
• Primary Citation Related Structures: 
  6YSF, 6YSL


• PubMed Abstract: 
  

  The bacterial flagellum is the prototypical protein nanomachine and comprises a rotating helical propeller attached to a membrane-embedded motor complex. The motor consists of a central rotor surrounded by stator units that couple ion flow across the cytoplasmic membrane to generate torque. Here, we present the structures of the stator complexes from Clostridium sporogenes, Bacillus subtilis and Vibrio mimicus, allowing interpretation of the extensive body of data on stator mechanism. The structures reveal an unexpected asymmetric A ₅ B ₂ subunit assembly where the five A subunits enclose the two B subunits. Comparison to structures of other ion-driven motors indicates that this A ₅ B ₂ architecture is fundamental to bacterial systems that couple energy from ion flow to generate mechanical work at a distance and suggests that such events involve rotation in the motor structures.

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Organizational Affiliation: 
• Sir William Dunn School of Pathology, University of Oxford, Oxford, UK.
Central Oxford Structural Molecular Imaging Centre, University of Oxford, Oxford, UK.
Department of Biochemistry, University of Oxford, Oxford, UK.
School of Life Sciences & Department of Chemistry, University of Warwick, Coventry, UK.
Department of Microbiology and Immunology, McGill University, Montreal, Quebec, Canada.
Département de Biochemie et Médecine Moleculaire, Université de Montréal, Montréal, Quebec, Canada.
Sir William Dunn School of Pathology, University of Oxford, Oxford, UK. [e-mail].
Central Oxford Structural Molecular Imaging Centre, University of Oxford, Oxford, UK. [e-mail].

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 7-mer - A5B2 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 7-mer - A5B1C1 

Local Symmetry: Cyclic - C5  (Explore in 3D)
Local Stoichiometry: Homo 5-mer - A5 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - B2 

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

Biological Assembly Evidence: light scattering

Macromolecule Content 

• Total Structure Weight: 203.96 kDa 
• Atom Count: 10,220 
• Modeled Residue Count: 1,327 
• Deposited Residue Count: 1,852 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Chemotaxis motB protein	A, B	251	Clostridium sporogenes	Mutation(s): 0  Gene Names: motB, NCTC13020_02207, NCTC534_01101, VT92_0222420, VT96_0225960 Membrane Entity: Yes
UniProt
Find proteins for A0A1V9IL35 (Clostridium sporogenes) Explore A0A1V9IL35  Go to UniProtKB:  A0A1V9IL35

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Chemotaxis MotA protein	C [auth E], D [auth C], E [auth D], F, G	270	Clostridium sporogenes	Mutation(s): 0  Gene Names: motA, NCTC13020_02206

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.40 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	3.1
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2020-08-12 
Deposition Author(s): Lea, S.M., Deme, J.C., Johnson, S.J.

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Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	107929/Z/15/Z
Wellcome Trust	United Kingdom	100298/Z/12/Z
Wellcome Trust	United Kingdom	201536/Z/16/Z
Medical Research Council (MRC, United Kingdom)	United Kingdom	MR/M011984/1

Revision History  

• Version 1.0: 2020-08-12
  Type: Initial release
  
• Version 1.1: 2020-09-30
  Changes: Database references
• Version 1.2: 2020-12-02
  Changes: Database references
• Version 1.3: 2024-05-22
  Changes: Data collection, Database references