9ETM | pdb_00009etm

cryoEM structure of the Drosophila melanogaster TOM core complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.35 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structure of an ex vivoDrosophila TOM complex determined by single-particle cryoEM.

Periasamy, A.Ornelas, P.Bausewein, T.Mitchell, N.Zhao, J.Quinn, L.M.Kuehlbrandt, W.Gulbis, J.M.

(2025) IUCrJ 12: 49-61

  • DOI: https://doi.org/10.1107/S2052252524011011
  • Primary Citation of Related Structures:  
    9ETM

  • PubMed Abstract: 

    Most mitochondrial precursor proteins are encoded in the cell nucleus and synthesized on cytoplasmic ribosomes. The translocase of the outer membrane (TOM) is the main protein-import pore of mitochondria, recognizing nascent precursors of mitochondrially targeted proteins and transferring them across the outer membrane. A 3.3 Å resolution map and molecular model of a TOM complex from Drosophila melanogaster, obtained by single-particle electron cryomicroscopy, is presented. As the first reported structure of a transgenic protein expressed and purified ex vivo from Drosophila, the method provides impetus for parallel structural and genetic analyses of protein complexes linked to human pathology. The core TOM complex extracted from native membranes of the D. melanogaster retina contains transgenic Tom40 co-assembled with four endogenous TOM components: Tom22, Tom5, Tom6 and Tom7. The Drosophila TOM structure presented here shows that the human and Drosophila TOM are very similar, with small conformational changes at two subunit interfaces attributable to variation in lipid-binding residues. The new structure provides an opportunity to pinpoint general features that differentiate the TOM structures of higher and unicellular eukaryotes. While the quaternary fold of the assembly is retained, local nuances of structural elements implicated in precursor import are indicative of subtle evolutionary change.


  • Organizational Affiliation
    • Structural Biology Division, The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria 3052, Australia.

Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial import receptor subunit TOM6A [auth G],
F [auth H]
42Drosophila melanogasterMutation(s): 0 
UniProt
Find proteins for Q6IGW6 (Drosophila melanogaster)
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Go to UniProtKB:  Q6IGW6
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UniProt GroupQ6IGW6
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial import receptor subunit TOM5B [auth I],
G [auth J]
39Drosophila melanogasterMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q8IRD0 (Drosophila melanogaster)
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UniProt GroupQ8IRD0
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial import receptor subunit TOM7C [auth E],
H [auth F]
46Drosophila melanogasterMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q7K036 (Drosophila melanogaster)
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UniProt GroupQ7K036
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial import receptor subunit TOM22D [auth C],
I [auth D]
47Drosophila melanogasterMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q9VZL1 (Drosophila melanogaster)
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial import receptor subunit TOM40E [auth A],
J [auth B]
290Drosophila melanogasterMutation(s): 0 
Gene Names: Tom40mitms(1)15CG12157
Membrane Entity: Yes 
UniProt
Find proteins for Q9U4L6 (Drosophila melanogaster)
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Go to UniProtKB:  Q9U4L6
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UniProt GroupQ9U4L6
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.35 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Max Planck SocietyGermany--

Revision History  (Full details and data files)

  • Version 1.0: 2024-12-04
    Type: Initial release
  • Version 1.1: 2025-01-22
    Changes: Data collection, Database references
  • Version 1.2: 2025-07-09
    Changes: Data collection