6YS8 | pdb_00006ys8

Structure of GldLM, the proton-powered motor that drives protein transport and gliding motility

• PDB DOI: https://doi.org/10.2210/pdb6YS8/pdb
• EM Map EMD-10893: EMDB EMDataResource

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


• Deposited: 2020-04-21 Released: 2020-10-14 
• Deposition Author(s): Hennell James, R., Deme, J.C., Lea, S.M.
• Funding Organization(s): Wellcome Trust

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.90 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structure of a proton-powered molecular motor that drives protein transport and gliding motility

Hennell James, R., Deme, J.C., Kjaer, A., Alcock, F., Silale, A., Lauber, F., Bersk, B.C., Lea, S.M.

(2020) Nat Microbiol 

Biological Assembly 1  

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

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: 223.64 kDa 
• Atom Count: 5,624 
• Modelled Residue Count: 737 
• Deposited Residue Count: 2,101 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GldM	A, B	513	Flavobacterium johnsoniae	Mutation(s): 0  Gene Names: gldM Membrane Entity: Yes
UniProt
Find proteins for Q5EGM3 (Flavobacterium johnsoniae) Explore Q5EGM3  Go to UniProtKB:  Q5EGM3

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
GldL	C [auth G], D [auth F], E, F [auth D], G [auth C]	215	Flavobacterium johnsoniae	Mutation(s): 0  Gene Names: gldL, SAMN05444388_10142 Membrane Entity: Yes
UniProt
Find proteins for Q5EGM4 (Flavobacterium johnsoniae) Explore Q5EGM4  Go to UniProtKB:  Q5EGM4

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.90 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	3.1

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2020-10-14 
Deposition Author(s): Hennell James, R., Deme, J.C., Lea, S.M.

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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

Revision History  

• Version 1.0: 2020-10-14
  Type: Initial release
  
• Version 1.1: 2024-05-22
  Changes: Data collection, Database references