PXD013215 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | APEX2-mediated proximity labeling of mitochondrial matrix and chromatin in budding yeast |
Description | Enzyme-catalyzed proximity labeling (PL) with biotin is a novel approach to map organelle compartmentalization and protein interaction networks in living cells. Here, we present a new method based on semi-permeabilized yeast cells and the enzyme APEX2, an engineered ascorbate peroxidase. Combined with stable isotope labeling by amino acids in cell culture (SILAC), we demonstrate proteomic mapping of a membrane-enclosed and a semi-open compartment, the mitochondrial matrix and the nucleus. APEX2 PL revealed nuclear proteins that were previously not identified by conventional techniques. One of these, the Yer156C protein, is highly conserved but of unknown function. In follow-up experiments using quantitative PL with Yer156C-APEX2 we discovered an array of Yer156C interactors. Thus, our approach establishes APEX2 PL as an effective and versatile tool that complements the powerful methods palette for the model system yeast. |
HostingRepository | PRIDE |
AnnounceDate | 2019-07-17 |
AnnouncementXML | Submission_2019-07-17_00:15:51.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Nicolas Nalpas |
SpeciesList | scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932; |
ModificationList | No PTMs are included in the dataset |
Instrument | LTQ Orbitrap Elite |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2019-03-25 06:24:15 | ID requested | |
⏵ 1 | 2019-07-17 00:15:52 | announced | |
2 | 2024-10-22 04:03:04 | announced | 2024-10-22: Updated project metadata. |
Publication List
Dataset with its publication pending |
Keyword List
curator keyword: Biological |
submitter keyword: Mitochondrial matrix, chromatin, budding yeast Yer156C interactome |
Contact List
Dr. Birgit Singer-Krüger |
contact affiliation | Interfaculty Institute of Biochemistry Universität Tübingen Hoppe-Seyler-Straße 4 72076 Tübingen Germany |
contact email | birgit.singer-krueger@uni-tuebingen.de |
lab head | |
Nicolas Nalpas |
contact affiliation | Tuebingen University |
contact email | nalpas.nicolas@gmail.com |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD013215
- Label: PRIDE project
- Name: APEX2-mediated proximity labeling of mitochondrial matrix and chromatin in budding yeast