PXD048971

PXD048971 is an original dataset announced via ProteomeXchange.

Title	Identification of whole-cell dsRNA-binding proteins by phase separation
Description	Interactions between double-stranded RNA (dsRNA) and proteins play an important role in cellular homeostasis by regulating the editing, stability, and splicing of intracellular RNA. The identification of dsRNA-binding proteins (dsRBPs) is key; however, it has long been challenging to purify dsRBPs from cells. In this study, we developed a novel method, DSC (dsRNA-binding protein capture), to purify cellular dsRBPs based on classic phase separation purification procedures. A global dsRNA-binding proteome of LLC-PK1 cells was obtained, and we identified 1349 dsRBPs, including 1326 putative novel dsRBPs. Functional analyses suggested that these enriched dsRBPs are mainly associated with rRNA processing, RNA splicing, transcriptional regulation, and nucleocytoplasmic transport. We also found that the ARM (armadillo/beta-catenin-like repeats) motif is a previously unknown dsRNA-binding domain, as demonstrated by biochemical experiments. Collectively, this study provides a useful approach for dsRBP identification and the discovery of a global dsRNA-binding proteome to comprehensively map the dsRNA–protein interaction network.
HostingRepository	PRIDE
AnnounceDate	2024-10-17
AnnouncementXML	Submission_2024-10-17_05:10:33.503.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	yang zhixiang
SpeciesList	scientific name: Sus scrofa domesticus (domestic pig); NCBI TaxID: 9825;
ModificationList	No PTMs are included in the dataset
Instrument	timsTOF Pro 2

Revision	Datetime	Status	ChangeLog Entry
0	2024-01-29 06:41:24	ID requested
⏵ 1	2024-10-17 05:10:34	announced

10.1080/15476286.2024.2386498;

Yang Z, Zhou J, Li Z, Guo J, Fang L, Xiao X, Xiao S, Identification of whole-cell dsRNA-binding proteins by phase separation. RNA Biol, 21(1):32-45(2024) [pubmed]

submitter keyword: dsRNA-binding domain, dsRNA-binding protein capture, Armadillo/beta-catenin-like repeats, dsRNA-binding proteome,dsRNA-binding proteins

Zhixiang yang
contact affiliation	College of Veterinary Medicine, Huazhong Agricultural University
contact email	735993271@qq.com
lab head
yang zhixiang
contact affiliation	Huazhong Agricultural University
contact email	735993271@qq.com
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/2024/10/PXD048971

PRIDE project URI

• PRIDE
  1. PXD048971
     1. Label: PRIDE project
     2. Name: Identification of whole-cell dsRNA-binding proteins by phase separation