PXD053773-1

PXD053773 is an original dataset announced via ProteomeXchange.

Title	HDX-MS of the TRAMP Complex with tRNA
Description	TRAMP is a eukaryotic protein complex with RNA helicase and polyadenylase activity that marks and delivers a variety of RNA substrates to the nuclear exosome for degradation. Prior work has characterized binding of Trf4 and Air2 to the helicase core of Mtr4 and the regulation of both enzymatic activities in TRAMP. Air2 contains a conserved sequence that is predicted to bind the arch domain of Mtr4, though this interface is dispensable for TRAMP formation. To understand the interactions of the Saccharomyces cerevisiae TRAMP complex and its interactions with RNA, we have applied hydrogen-deuterium exchange mass spectrometry. We demonstrate that Air2 simultaneously binds the helicase core and the fist of Mtr4 in solution, constraining the arch to a conformation ready to bind RNA. We characterize the previously unknown interactions of Trf4 and Air2 with RNA and show how interactions with substrates are altered in TRAMP, supporting a mechanistic model for the enhancement of Mtr4 activity in TRAMP.
HostingRepository	PRIDE
AnnounceDate	2024-12-11
AnnouncementXML	Submission_2024-12-11_13:17:49.076.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Sheena D'Arcy
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	monohydroxylated residue
Instrument	Synapt MS

Revision	Datetime	Status	ChangeLog Entry
0	2024-07-08 13:57:09	ID requested
⏵ 1	2024-12-11 13:17:49	announced

10.1101/2024.07.25.605035;

submitter keyword: HDX, Trf4, TRAMP, Air2, RNA, HDX-MS,Mtr4

Sheena D'Arcy
contact affiliation	Department of Chemistry and Biochemistry, The University of Texas at Dallas
contact email	Sheena.DArcy@utdallas.edu
lab head
Sheena D'Arcy
contact affiliation	The University of Texas at Dallas
contact email	sheena.darcy@utdallas.edu
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/2024/12/PXD053773

PRIDE project URI

• PRIDE
  1. PXD053773
     1. Label: PRIDE project
     2. Name: HDX-MS of the TRAMP Complex with tRNA