8AFY

Subtomogram average of membrane-bound Atg18 oligomers

• PDB DOI: https://doi.org/10.2210/pdb8AFY/pdb
• EM Map EMD-15412: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Saccharomyces cerevisiae
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2022-07-18 Released: 2023-11-01 
• Deposition Author(s): Mann, D., Fromm, S., Martinez-Sanchez, A., Gopaldass, N., Mayer, A., Sachse, C.
• Funding Organization(s): Helmholtz Association

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 26.0 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SUBTOMOGRAM AVERAGING 

Literature

Cryo-EM structures of Atg18 oligomers reveal a tilted structural scaffold for Atg2 at the isolation membrane

Mann, D., Fromm, S.A., Martinez-Sanchez, A., Gopaldass, N., Mayer, A., Sachse, C.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 8-mer - A8 

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 440.37 kDa 
• Atom Count: 20,368 
• Modelled Residue Count: 2,620 
• Deposited Residue Count: 4,000 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Autophagy-related protein 18	A, B, C, D, E, F, G, H	500	Saccharomyces cerevisiae	Mutation(s): 2  Gene Names: ATG18, AUT10, CVT18, NMR1, SVP1, YFR021W
UniProt
Find proteins for P43601 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P43601  Go to UniProtKB:  P43601

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 26.0 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SUBTOMOGRAM AVERAGING 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-11-01 
Deposition Author(s): Mann, D., Fromm, S., Martinez-Sanchez, A., Gopaldass, N., Mayer, A., Sachse, C.

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Funding Organization	Location	Grant Number
Helmholtz Association	Germany	--

Revision History  

• Version 1.0: 2023-11-01
  Type: Initial release