7ZU0

HOPS tethering complex from yeast


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structure of the endosomal CORVET tethering complex.

Shvarev, D.Konig, C.Susan, N.Langemeyer, L.Walter, S.Perz, A.Frohlich, F.Ungermann, C.Moeller, A.

(2024) Nat Commun 15: 5227-5227

  • DOI: https://doi.org/10.1038/s41467-024-49137-9
  • Primary Citation of Related Structures:  
    7ZU0, 8QX8

  • PubMed Abstract: 

    Cells depend on their endolysosomal system for nutrient uptake and downregulation of plasma membrane proteins. These processes rely on endosomal maturation, which requires multiple membrane fusion steps. Early endosome fusion is promoted by the Rab5 GTPase and its effector, the hexameric CORVET tethering complex, which is homologous to the lysosomal HOPS. How these related complexes recognize their specific target membranes remains entirely elusive. Here, we solve the structure of CORVET by cryo-electron microscopy and revealed its minimal requirements for membrane tethering. As expected, the core of CORVET and HOPS resembles each other. However, the function-defining subunits show marked structural differences. Notably, we discover that unlike HOPS, CORVET depends not only on Rab5 but also on phosphatidylinositol-3-phosphate (PI3P) and membrane lipid packing defects for tethering, implying that an organelle-specific membrane code enables fusion. Our data suggest that both shape and membrane interactions of CORVET and HOPS are conserved in metazoans, thus providing a paradigm how tethering complexes function.


  • Organizational Affiliation

    Department of Biology/Chemistry, Structural Biology Section, Osnabrück University, 49076, Osnabrück, Germany.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
E3 ubiquitin-protein ligase PEP51,029Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: PEP5END1VAM1VPL9VPS11VPT11YMR231WYM9959.13
EC: 2.3.2.27
UniProt
Find proteins for P12868 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Go to UniProtKB:  P12868
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UniProt GroupP12868
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Vacuolar protein sorting-associated protein 16798Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: VPS16VAM9VPT16YPL045W
UniProt
Find proteins for Q03308 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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UniProt GroupQ03308
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Vacuolar membrane protein PEP3918Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: PEP3VAM8VPS18VPT18YLR148WL9634.2
UniProt
Find proteins for P27801 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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UniProt GroupP27801
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Vacuolar protein sorting-associated protein 33691Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: VPS33SLP1VAM5YLR396CL8084.15
UniProt
Find proteins for P20795 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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UniProt GroupP20795
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Vacuolar morphogenesis protein 61,049Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: VAM6CVT4VPL18VPL22VPS39YDL077C
UniProt
Find proteins for Q07468 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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UniProt GroupQ07468
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Vacuolar protein sorting-associated protein 411,016Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: VPS41FET2VAM2YDR080WD446YD8554.13
UniProt
Find proteins for P38959 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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UniProt GroupP38959
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research Foundation (DFG)GermanySFB 944
German Research Foundation (DFG)GermanyINST190/196-1 FUGG
German Federal Ministry for Education and ResearchGermanyDLR 01ED2010

Revision History  (Full details and data files)

  • Version 1.0: 2022-09-28
    Type: Initial release
  • Version 1.1: 2022-10-05
    Changes: Database references, Source and taxonomy, Structure summary
  • Version 1.2: 2022-10-12
    Changes: Database references
  • Version 1.3: 2024-07-24
    Changes: Data collection, Database references