8B4I

Cryo-EM structure of the Neurospora crassa TOM core complex at 3.3 angstrom


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.32 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Two conformations of the Tom20 preprotein receptor in the TOM holo complex.

Ornelas, P.Bausewein, T.Martin, J.Morgner, N.Nussberger, S.Kuhlbrandt, W.

(2023) Proc Natl Acad Sci U S A 120: e2301447120-e2301447120

  • DOI: https://doi.org/10.1073/pnas.2301447120
  • Primary Citation of Related Structures:  
    8B4I

  • PubMed Abstract: 

    The TOM complex is the main entry point for precursor proteins (preproteins) into mitochondria. Preproteins containing targeting sequences are recognized by the TOM complex and imported into mitochondria. We have determined the structure of the TOM core complex from Neurospora crassa by single-particle electron cryomicroscopy at 3.3 Å resolution, showing its interaction with a bound preprotein at 4 Å resolution, and of the TOM holo complex including the Tom20 receptor at 6 to 7 Å resolution. TOM is a transmembrane complex consisting of two β-barrels, three receptor subunits, and three short transmembrane subunits. Tom20 has a transmembrane helix and a receptor domain on the cytoplasmic side. We propose that Tom20 acts as a dynamic gatekeeper, guiding preproteins into the pores of the TOM complex. We analyze the interactions of Tom20 with other TOM subunits, present insights into the structure of the TOM holo complex, and suggest a translocation mechanism.


  • Organizational Affiliation

    Department of Structural Biology, Max-Planck-Institute of Biophysics, Frankfurt 60438, Germany.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial import receptor subunit Tom40
A, B
349Neurospora crassaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P24391 (Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987))
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Go to UniProtKB:  P24391
Entity Groups  
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UniProt GroupP24391
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial import receptor subunit Tom22
C, D
160Neurospora crassaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q07335 (Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987))
Explore Q07335 
Go to UniProtKB:  Q07335
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UniProt GroupQ07335
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Translocase of outer mitochondrial membrane subunit 5
E, F
50Neurospora crassaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for F5HBE8 (Neurospora crassa)
Explore F5HBE8 
Go to UniProtKB:  F5HBE8
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UniProt GroupF5HBE8
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
TOM6
G, H
60Neurospora crassaMutation(s): 0 
UniProt
Find proteins for Q9C1J1 (Neurospora crassa)
Explore Q9C1J1 
Go to UniProtKB:  Q9C1J1
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UniProt GroupQ9C1J1
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  • Reference Sequence
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
TOM7
I, J
53Neurospora crassaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q9C1J0 (Neurospora crassa)
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Go to UniProtKB:  Q9C1J0
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UniProt GroupQ9C1J0
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PLC
Query on PLC

Download Ideal Coordinates CCD File 
L [auth B]DIUNDECYL PHOSPHATIDYL CHOLINE
C32 H65 N O8 P
IJFVSSZAOYLHEE-SSEXGKCCSA-O
DU0
Query on DU0

Download Ideal Coordinates CCD File 
K [auth A]
M [auth B]
N [auth C]
O [auth C]
P [auth C]
K [auth A],
M [auth B],
N [auth C],
O [auth C],
P [auth C],
Q [auth D],
R [auth D],
S [auth D]
2-[2-[(1~{S},2~{S},4~{S},5'~{R},6~{R},7~{S},8~{R},9~{S},12~{S},13~{R},16~{S})-5',7,9,13-tetramethylspiro[5-oxapentacyclo[10.8.0.0^{2,9}.0^{4,8}.0^{13,18}]icos-18-ene-6,2'-oxane]-16-yl]oxyethyl]propane-1,3-diol
C32 H52 O5
GFDJQXOBWHMOSQ-LEZUHYJESA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.32 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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: 2023-08-09
    Type: Initial release
  • Version 1.1: 2023-08-30
    Changes: Data collection, Database references