PXD011592

PXD011592 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	YBX3 is a versatile RNA-binding protein that controls amino acid import by regulating SLC mRNA abundance
Description	Summary: Amino acids (AA) support protein synthesis, and thus cell growth and proliferation. Specialized transporters mediate AA exchange across membranes and their regulation is critical for AA homeostasis. Here, we report that the DNA- and RNA-binding protein YBX3 regulates the expression of AA transporters. To investigate the functions of YBX3, we integrated proteomics and transcriptomics data with YBX3-RNA complex data to identify RNAs directly regulated by YBX3. The data revealed YBX3 as a versatile RNA-binding protein (RBP) that regulates as both a translational repressor and mRNA stabilizer. Among the direct YBX3 targets, we We identified two solute carrier (SLC) AA transporters (SLC7A5 and SLC3A2). We show that YBX3 stabilizes these SLC mRNAs and that the 3 UTR of SLC7A5 is necessary and sufficient for YBX3-mediated regulation. Further, YBX3 depletion results in diminished intracellular levels of SLC7A5/SLC3A2 substrates, large neutral AA. Importantly, expression of an exogenous SLC7A5 not susceptible to YBX3 regulation restores AA levels. Thus, YBX3 is a key post-transcriptional regulator of large neutral AA import.
HostingRepository	MassIVE
AnnounceDate	2019-05-08
AnnouncementXML	Submission_2019-05-08_07:22:57.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Gertjan Kramer
SpeciesList	scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606;
ModificationList	Met->Aha; Met->Hse; Oxidation; Acetyl
Instrument	Orbitrap Fusion

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2018-11-06 08:30:55	ID requested
⏵ 1	2019-05-08 07:22:57	announced

Publication List

no publication

no publication

Keyword List

submitter keyword: Azidohomoalanine, BONCAT, Proteomics, Transcriptomics, Metabolomics, Multi-Omics

submitter keyword: Azidohomoalanine, BONCAT, Proteomics, Transcriptomics, Metabolomics, Multi-Omics

Contact List

Gertjan Kramer
contact affiliation	German Cancer Research Center (DKFZ)
contact email	gertjan.kramer@dkfz-heidelberg.de
lab head
Gertjan Kramer
contact affiliation	Universiteit van Amsterdam
contact email	gertjan.kramer@uva.nl
dataset submitter

Full Dataset Link List

MassIVE dataset URI
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MassIVE dataset URI

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://massive.ucsd.edu/MSV000083108