PXD035979

PXD035979 is an original dataset announced via ProteomeXchange.

Title	RNA-dependent interactome allows network-based assignment of RNA-binding protein function
Description	RNA-binding proteins (RBPs) form highly diverse and dynamic ribonucleoprotein complexes, whose functions determine the molecular fate of the bound RNA. In the model organism S. cerevisiae, the number of proteins identified as RBPs has largely increased over the last decade. However, the cellular function for most of these novel RBPs still remains largely unexplored. We use mass spectrometry-based quantitative proteomics to systematically identify protein-protein interactions (PPIs), and RNA-dependent interactions (RDIs) to create a novel data set for 40 RBPs associated with the mRNA life cycle. Domain, functional, and pathway enrichment analysis revealed an overrepresentation of RNA functionalities among the enriched interactors. With the creation of extensive PPI and RDI networks, we revealed putative new members within RNA-associated pathways, as well as highlighted potential new roles of several RBPs, such as metabolism. Our RBP interactome resource is available through an online interactive platform as a community tool to guide further in-depth functional studies and RBP network analysis.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_09:03:59.354.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	F Butter
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2022-08-11 02:52:18	ID requested
1	2023-07-20 13:12:09	announced
⏵ 2	2023-11-14 09:04:00	announced	2023-11-14: Updated project metadata.

Fradera-Sola A, Nischwitz E, Bayer ME, Luck K, Butter F, RNA-dependent interactome allows network-based assignment of RNA-binding protein function. Nucleic Acids Res, 51(10):5162-5176(2023) [pubmed]

submitter keyword: LC-MS/MS

Falk Butter
contact affiliation	Institute of Molecular Biology (IMB)
contact email	f.butter@imb.de
lab head
F Butter
contact affiliation	Quantitative Proteomics Institute of Molecular Biology (IMB)
contact email	f.butter@imb-mainz.de
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2023/07/PXD035979

PRIDE project URI

• PRIDE
  1. PXD035979
     1. Label: PRIDE project
     2. Name: RNA-dependent interactome allows network-based assignment of RNA-binding protein function