8FTU

Crystal structure of the SNARE Use1 bound to Dsl1 complex subunits Sec39 and Dsl1, Revised Use1 structure


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 5.73 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.276 
  • R-Value Observed: 0.278 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structure of a membrane tethering complex incorporating multiple SNAREs.

DAmico, K.A.Stanton, A.E.Shirkey, J.D.Travis, S.M.Jeffrey, P.D.Hughson, F.M.

(2024) Nat Struct Mol Biol 31: 246-254

  • DOI: https://doi.org/10.1038/s41594-023-01164-8
  • Primary Citation of Related Structures:  
    8EKI, 8FTU

  • PubMed Abstract: 

    Most membrane fusion reactions in eukaryotic cells are mediated by multisubunit tethering complexes (MTCs) and SNARE proteins. MTCs are much larger than SNAREs and are thought to mediate the initial attachment of two membranes. Complementary SNAREs then form membrane-bridging complexes whose assembly draws the membranes together for fusion. Here we present a cryo-electron microscopy structure of the simplest known MTC, the 255-kDa Dsl1 complex of Saccharomyces cerevisiae, bound to the two SNAREs that anchor it to the endoplasmic reticulum. N-terminal domains of the SNAREs form an integral part of the structure, stabilizing a Dsl1 complex configuration with unexpected similarities to the 850-kDa exocyst MTC. The structure of the SNARE-anchored Dsl1 complex and its comparison with exocyst reveal what are likely to be common principles underlying MTC function. Our structure also implies that tethers and SNAREs can work together as a single integrated machine.


  • Organizational Affiliation

    Department of Molecular Biology, Princeton University, Princeton, NJ, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Protein transport protein SEC39699Kluyveromyces lactis NRRL Y-1140Mutation(s): 0 
Gene Names: KLLA0_B05115g
UniProt
Find proteins for Q6CWC7 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
Explore Q6CWC7 
Go to UniProtKB:  Q6CWC7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6CWC7
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Vesicle transport protein USE1113Kluyveromyces lactis NRRL Y-1140Mutation(s): 0 
Gene Names: KLLA0_F06644g
UniProt
Find proteins for Q6CL08 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
Explore Q6CL08 
Go to UniProtKB:  Q6CL08
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6CL08
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Protein transport protein DSL1306Kluyveromyces lactis NRRL Y-1140Mutation(s): 0 
Gene Names: KLLA0_C02695g
UniProt
Find proteins for Q6CUS2 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
Explore Q6CUS2 
Go to UniProtKB:  Q6CUS2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6CUS2
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 5.73 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.276 
  • R-Value Observed: 0.278 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 240.79α = 90
b = 87.846β = 107.61
c = 161.431γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
STARANISOdata scaling
PHASERphasing
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01GM071574
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesF31GM12676
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesT32GM007388

Revision History  (Full details and data files)

  • Version 1.0: 2023-03-01
    Type: Initial release
  • Version 1.1: 2024-01-17
    Changes: Data collection, Database references
  • Version 1.2: 2024-01-24
    Changes: Database references
  • Version 1.3: 2024-02-28
    Changes: Database references