PXD071441-1

PXD071441 is an original dataset announced via ProteomeXchange.

Title	Changes in the ATP synthase interactome in mitochondrial dysfunction by crosslinking mass spectrometry
Description	Mitochondrial oxidative phosphorylation (OXPHOS) comprises a series of multi-subunit protein complexes that operate in coordination with the tricarboxylic acid (TCA) cycle to generate ATP. Although these systems are metabolically interconnected, complex II is generally regarded as the only direct structural link between the OXPHOS and TCA cycle. Here, we combine in-solution crosslinking mass-spectrometry (XL-MS), quantitative proteomics, and blue native PAGE (BN-PAGE) to explore how ATP synthase (complex V) integrates within the mitochondrial metabolic network under physiological and pathological conditions. We demonstrate that in murine wild-type hearts, the F₁ catalytic head of ATP synthase forms extensive contacts with TCA cycle enzymes, establishing a previously unanticipated link between the OXPHOS and central carbon metabolism. We also found that under mitochondrial dysfunction, in this case Lrpprc-deficient hearts, where defective mitochondrial gene expression destabilizes ATP synthase, these interactions become strengthened. Moreover, ATP synthase dysfunction promotes binding of the ATPase inhibitory factor 1 (ATIF1) to the F₁ head via its N-terminal inhibitory region, shifting the ATP synthase toward an energy-preserving state. Together, our findings show that ATP synthase deficiency drives remodeling of the F₁ interactome, revealing how mitochondrial structure and regulation adapt to preserve energy homeostasis under stress.
HostingRepository	PRIDE
AnnounceDate	2026-05-18
AnnouncementXML	Submission_2026-05-18_10:52:30.036.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Laura Pérez Pañeda
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: NEWT:10090;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2025-12-01 14:23:33	ID requested
⏵ 1	2026-05-18 10:52:30	announced

Dataset with its publication pending

submitter keyword: ATP synthase

mitochondrial dysfunction

TCA cycle

crosslinking mass spectrometry

OXPHOS

Albert J. R. Heck
contact affiliation	Utrecht University
contact email	a.j.r.heck@uu.nl
lab head
Laura Pérez Pañeda
contact affiliation	Utrecht University
contact email	l.perezpaneda@uu.nl
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD071441
     1. Label: PRIDE project
     2. Name: Changes in the ATP synthase interactome in mitochondrial dysfunction by crosslinking mass spectrometry