PXD058585

PXD058585 is an original dataset announced via ProteomeXchange.

Title	Profiling of yeast Saccharomyces cerevisiae mitochondrial AMPylome reveals a regulation of ATP synthase coupling trough subunit Profiling of yeast Saccharomyces cerevisiae mitochondrial AMPylome reveals a regulation of ATP synthase coupling trough subunit 
Description	The adenylation (AMPylation) as protein posttranslational modification used by bacteria during infection of host cells. These new virulence factors - AMPylases mainly belonging to the FIC domain containing proteins - constitute a potential drug target. Human FIC protein (HYPE) controls the activity of BiP chaperone under the endoplasmic reticulum stress. No FIC family proteins have yet been identified in yeast Saccharomyces cerevisiae. The second family of AMPylases are SelO proteins which control the redox homeostasis in mitochondria and chloroplasts. We describe here the first global screening of AMPylated proteins in yeast S. cerevisiae mitochondria from wild type and SelO (Fmp40) lacking cells. Through quantitative mass-spectrometry-based proteomics, we identified a total of 169 AMPylated proteins from WT mitochondria while AMPylated peptides of 115 proteins were identified in fmp40Δ mitochondria, indicating on the presence of another, besides Fmp40, not yet identified AMPylase in yeast. We confirmed AMPylation of Atp1, Atp2, Atp3 and Atp16 subunits of mitochondrial ATP synthase by Western blotting. Interestingly, we found AMPylation and phosphorylation of many residues, what indicates on the complex regulation of the ATP synthase activity. We confirmed the importance of one of such residues in Atp16, showing that its post-translational modification serves to regulate ATP synthase and OXPHOS coupling in both fermentative and respiratory growth conditions. This regulation serves to maintain the proper potential of the inner mitochondrial membrane, particularly under conditions of fermentative growth, which is essential for the proper functioning of this crucial for cell survival organelle. This dataset represents the first library of AMPylated mitochondrial yeast proteins reported to date and supplements the AMPylome of human chronic lymphocytic leukemia cell line from human HYPE containing and HYPE lacking cells. The data represents a foundation for substrate specific investigations that can ultimately decipher the biological role of the AMPylation in the mitochondria.
HostingRepository	PRIDE
AnnounceDate	2026-07-28
AnnouncementXML	Submission_2026-07-28_01:23:52.844.xml
DigitalObjectIdentifier	https://doi.org/10.6019/PXD058585
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Agata Malinowska
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: NEWT:4932;
ModificationList	methylthiolated residue; phosphorylated residue; monohydroxylated residue; adenylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Velos; Orbitrap Exploris 480; Q Exactive; LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2024-12-04 12:55:42	ID requested
⏵ 1	2026-07-28 01:23:53	announced

10.1021/ACS.JPROTEOME.5C01273;

10.6019/PXD058585;

submitter keyword: phosphorylation, mitochondria,yeast, adenylation

Roza Kucharczyk
contact affiliation	Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland
contact email	roza@ibb.waw.pl
lab head
Agata Malinowska
contact affiliation	IBB PAS
contact email	esme@ibb.waw.pl
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD058585
     1. Label: PRIDE project
     2. Name: Profiling of yeast Saccharomyces cerevisiae mitochondrial AMPylome reveals a regulation of ATP synthase coupling trough subunit Profiling of yeast Saccharomyces cerevisiae mitochondrial AMPylome reveals a regulation of ATP synthase coupling trough subunit 