7SOX

Cryo-electron tomography structure of membrane-bound EHD4 complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 7.60 Å
  • Aggregation State: HELICAL ARRAY 
  • Reconstruction Method: SUBTOMOGRAM AVERAGING 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Cryo-electron tomography reveals structural insights into the membrane remodeling mode of dynamin-like EHD filaments.

Melo, A.A.Sprink, T.Noel, J.K.Vazquez-Sarandeses, E.van Hoorn, C.Mohd, S.Loerke, J.Spahn, C.M.T.Daumke, O.

(2022) Nat Commun 13: 7641-7641

  • DOI: https://doi.org/10.1038/s41467-022-35164-x
  • Primary Citation of Related Structures:  
    7SOX

  • PubMed Abstract: 

    Eps15-homology domain containing proteins (EHDs) are eukaryotic, dynamin-related ATPases involved in cellular membrane trafficking. They oligomerize on membranes into filaments that induce membrane tubulation. While EHD crystal structures in open and closed conformations were previously reported, little structural information is available for the membrane-bound oligomeric form. Consequently, mechanistic insights into the membrane remodeling mechanism have remained sparse. Here, by using cryo-electron tomography and subtomogram averaging, we determined structures of nucleotide-bound EHD4 filaments on membrane tubes of various diameters at an average resolution of 7.6 Å. Assembly of EHD4 is mediated via interfaces in the G-domain and the helical domain. The oligomerized EHD4 structure resembles the closed conformation, where the tips of the helical domains protrude into the membrane. The variation in filament geometry and tube radius suggests a spontaneous filament curvature of approximately 1/70 nm -1 . Combining the available structural and functional data, we suggest a model for EHD-mediated membrane remodeling.


  • Organizational Affiliation

    Max-Delbrück-Center for Molecular Medicine in the Helmholtz Association, Structural Biology, Robert-Rössle-Straße 10, Berlin, Germany. arthur.melo@ucsf.edu.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
EH domain-containing protein 4
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P
514Mus musculusMutation(s): 0 
Gene Names: Ehd4Past2
Membrane Entity: Yes 
UniProt
Find proteins for Q9EQP2 (Mus musculus)
Explore Q9EQP2 
Go to UniProtKB:  Q9EQP2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9EQP2
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 7.60 Å
  • Aggregation State: HELICAL ARRAY 
  • Reconstruction Method: SUBTOMOGRAM AVERAGING 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONIMOD
MODEL REFINEMENTPHENIX

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research Foundation (DFG)GermanySFB 958/A12
European Research Council (ERC)GermanyERC-2013-CoG-616024
European Union (EU)GermanyiNEXT PID3536 VID5570

Revision History  (Full details and data files)

  • Version 1.0: 2022-11-09
    Type: Initial release
  • Version 1.1: 2023-01-25
    Changes: Database references, Refinement description