PXD026217-2

PXD026217 is an original dataset announced via ProteomeXchange.

Title	OTS Development and E. coli Proteome LC-MSMS
Description	Over the past twenty years, the development of orthogonal biological systems has sparked a revolution in our ability to study cellular physiology. Orthogonal translation systems (OTSs) enable site-specific incorporation of hundreds of non-standard amino acids, offering unprecedented access to the study of cellular mechanisms modulated by post-translational modifications (e.g. protein phosphorylation). Although development of phosphoserine-OTSs (pSerOTS) has been significant, little work has focused on the biology of OTS development and utilization. To better understand the impact of OTSs on host physiology, we utilize pSerOTS as a model to systematically explore the extent to which OTS components interact with Escherichia coli. Using this information, we constructed pSerOTS variants designed to enhance OTS orthogonality by minimizing interactions with host processes and decreasing stress response activation. Our expanded understanding of OTS:host interactions enables informed OTS design practices which minimize the negative impact of OTSs while improving OTS performance across a range of experimental settings.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_09:04:21.215.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Kyle Mohler
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	phosphorylated residue; monohydroxylated residue; deamidated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2021-05-24 03:47:08	ID requested
1	2023-07-27 01:04:24	announced
⏵ 2	2023-11-14 09:04:22	announced	2023-11-14: Updated project metadata.

Mohler K, Moen JM, Rogulina S, Rinehart J, System-wide optimization of an orthogonal translation system with enhanced biological tolerance. Mol Syst Biol, 19(8):e10591(2023) [pubmed]

submitter keyword: LC-MSMS, OTS,Proteome, MS reporter

Jesse Rinehart
contact affiliation	Department of Cellular & Molecular Physiology, Yale School of Medicine Systems Biology Institute, Yale University
contact email	jesse.rinehart@yale.edu
lab head
Kyle Mohler
contact affiliation	Yale University
contact email	kyle.mohler@yale.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/2023/07/PXD026217

PRIDE project URI

• PRIDE
  1. PXD026217
     1. Label: PRIDE project
     2. Name: OTS Development and E. coli Proteome LC-MSMS