9EIJ image
Deposition Date 2024-11-26
Release Date 2025-03-12
Last Version Date 2025-04-30
Entry Detail
PDB ID:
9EIJ
Keywords:
Title:
Import stalled PINK1 TOM complex, extended TOM20 helix class
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.30 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Serine/threonine-protein kinase PINK1, mitochondrial
Gene (Uniprot):PINK1
Chain IDs:O (auth: B)
Chain Length:603
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Mitochondrial import receptor subunit TOM20 homolog
Gene (Uniprot):TOMM20
Chain IDs:A (auth: D)
Chain Length:145
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Non-selective voltage-gated ion channel VDAC2
Gene (Uniprot):VDAC2
Chain IDs:B (auth: E), C (auth: F)
Chain Length:294
Number of Molecules:2
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Mitochondrial import receptor subunit TOM40 homolog
Gene (Uniprot):TOMM40
Chain IDs:D (auth: I), E (auth: J)
Chain Length:361
Number of Molecules:2
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Mitochondrial import receptor subunit TOM5 homolog
Gene (Uniprot):TOMM5
Chain IDs:F (auth: K), G (auth: L), N (auth: Z)
Chain Length:51
Number of Molecules:3
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Mitochondrial import receptor subunit TOM7 homolog
Gene (Uniprot):TOMM7
Chain IDs:H (auth: N), M (auth: X)
Chain Length:55
Number of Molecules:2
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Mitochondrial import receptor subunit TOM6 homolog
Gene (Uniprot):TOMM6
Chain IDs:I (auth: P), L (auth: V)
Chain Length:74
Number of Molecules:2
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Mitochondrial import receptor subunit TOM22 homolog
Gene (Uniprot):TOMM22
Chain IDs:J (auth: R), K (auth: T)
Chain Length:142
Number of Molecules:2
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Structure of human PINK1 at a mitochondrial TOM-VDAC array.
Science 388 303 310 (2025)
PMID: 40080546 DOI: 10.1126/science.adu6445

Abstact

Mutations in the ubiquitin kinase PINK1 cause early onset Parkinson's Disease, but how PINK1 is stabilized at depolarized mitochondrial translocase complexes has remained poorly understood. We determined a 3.1-Å resolution cryo-electron microscopy structure of dimeric human PINK1 stabilized at an endogenous array of mitochondrial TOM and VDAC complexes. Symmetric arrangement of two TOM core complexes around a central VDAC2 dimer is facilitated by TOM5 and TOM20, both of which also bind PINK1 kinase C-lobes. PINK1 enters mitochondria through the proximal TOM40 barrel of the TOM core complex, guided by TOM7 and TOM22. Our structure explains how human PINK1 is stabilized at the TOM complex and regulated by oxidation, uncovers a previously unknown TOM-VDAC assembly, and reveals how a physiological substrate traverses TOM40 during translocation.

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Primary Citation of related structures