5JM9

Structure of S. cerevesiae mApe1 dodecamer


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 24 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.5 of the entry. See complete history

Literature

Higher-order assemblies of oligomeric cargo receptor complexes form the membrane scaffold of the Cvt vesicle.

Bertipaglia, C.Schneider, S.Jakobi, A.J.Tarafder, A.K.Bykov, Y.S.Picco, A.Kukulski, W.Kosinski, J.Hagen, W.J.Ravichandran, A.C.Wilmanns, M.Kaksonen, M.Briggs, J.A.Sachse, C.

(2016) Embo Rep. 17: 1044-1060

  • DOI: 10.15252/embr.201541960
  • Primary Citation of Related Structures:  5JM0, 5JM6

  • PubMed Abstract: 
  • Selective autophagy is the mechanism by which large cargos are specifically sequestered for degradation. The structural details of cargo and receptor assembly giving rise to autophagic vesicles remain to be elucidated. We utilize the yeast cytoplasm- ...

    Selective autophagy is the mechanism by which large cargos are specifically sequestered for degradation. The structural details of cargo and receptor assembly giving rise to autophagic vesicles remain to be elucidated. We utilize the yeast cytoplasm-to-vacuole targeting (Cvt) pathway, a prototype of selective autophagy, together with a multi-scale analysis approach to study the molecular structure of Cvt vesicles. We report the oligomeric nature of the major Cvt cargo Ape1 with a combined 2.8 Å X-ray and negative stain EM structure, as well as the secondary cargo Ams1 with a 6.3 Å cryo-EM structure. We show that the major dodecameric cargo prApe1 exhibits a tendency to form higher-order chain structures that are broken upon interaction with the receptor Atg19 in vitro The stoichiometry of these cargo-receptor complexes is key to maintaining the size of the Cvt aggregate in vivo Using correlative light and electron microscopy, we further visualize key stages of Cvt vesicle biogenesis. Our findings suggest that Atg19 interaction limits Ape1 aggregate size while serving as a vehicle for vacuolar delivery of tetrameric Ams1.


    Organizational Affiliation

    Structural and Computational Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Vacuolar aminopeptidase 1
A
514Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Gene Names: APE1 (API, LAP4, YSC1)
EC: 3.4.11.22
Find proteins for P14904 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P14904
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 24 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-06-15
    Type: Initial release
  • Version 1.1: 2016-06-22
    Type: Database references
  • Version 1.2: 2016-06-29
    Type: Database references
  • Version 1.3: 2016-07-13
    Type: Database references
  • Version 1.4: 2017-08-02
    Type: Data collection, Refinement description
  • Version 1.5: 2017-08-30
    Type: Data collection