PXD007136

PXD007136 is an original dataset announced via ProteomeXchange.

Title	YBX3 controls amino acid import via post-transcriptional regulation of Solute Carrier mRNAs
Description	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 used a multiomics approach including proteomics, transcriptomics and metabolomics. We identified a subset of mRNAs that require YBX3 for de novo translation and are also bound to YBX3, including multiple solute carrier (SLC) AA transporters (SLC7A5, SLC3A2 and SLC1A3). 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 substrate 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	PRIDE
AnnounceDate	2022-03-01
AnnouncementXML	Submission_2022-03-01_09:37:43.413.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Christian Frese
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2017-07-26 03:56:54	ID requested
⏵ 1	2022-03-01 09:37:44	announced

Cooke A, Schwarzl T, Huppertz I, Kramer G, Mantas P, Alleaume AM, Huber W, Krijgsveld J, Hentze MW, The RNA-Binding Protein YBX3 Controls Amino Acid Levels by Regulating SLC mRNA Abundance. Cell Rep, 27(11):3097-3106.e5(2019) [pubmed]

curator keyword: Biological

submitter keyword: pSILAC, nascent proteome

Jeroen Krijgsveld
contact affiliation	German Cancer Research Center (DKFZ), Im Neuenheimer Feld 581, 69120 Heidelberg, Germany
contact email	j.krijgsveld@dkfz-heidelberg.de
lab head
Christian Frese
contact affiliation	CECAD Research Center Cologne
contact email	cfrese@uni-koeln.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD007136
     1. Label: PRIDE project
     2. Name: YBX3 controls amino acid import via post-transcriptional regulation of Solute Carrier mRNAs