PXD011618

PXD011618 is an original dataset announced via ProteomeXchange.

Title	ER chemical proteomics with ER-localizable reactive molecules
Description	The endoplasmic reticulum (ER) is an organelle that performs a variety of essential cellular functions via interactions with other organelles. Despite its important role, chemical tools for profiling the composition and dynamics of ER proteins remain very limited because of the labile nature of these proteins. Here, we developed ER-localizable reactive molecules (called ERMs) as tools for ER-focused chemical proteomics. ERMs can spontaneously localize in the ER of living cells and selectively label ER-associated proteins with a combined affinity and imaging tag, enabling tag-mediated ER protein enrichment and identification with liquid chromatography tandem-mass spectrometry (LC-MS/MS). The ERM probes could be used simultaneously with the nucleus- and mitochondria-localizable reactive molecules previously developed by our group, which enabled orthogonal organellar chemoproteomics in a single biological sample. Moreover, quantitative analysis of the dynamic changes in ER-associated proteins in response to tunicamycin-induced ER stress was performed by combining ER-specific labeling with SILAC (stable isotope labeling by amino acids in cell culture)-based quantitative MS technology. Our results demonstrated that ERM-based chemical proteomics provides a powerful tool for labeling and profiling ER-related proteins in living cells.
HostingRepository	PRIDE
AnnounceDate	2018-12-04
AnnouncementXML	Submission_2018-12-04_03:58:18.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD011618
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Alma Fujisawa
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	biotin-maleimide; Oxidation; Acetyl; Carbamidomethyl
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-11-08 00:12:09	ID requested
1	2018-11-21 05:46:20	announced
⏵ 2	2018-12-04 03:58:19	announced	Updated project metadata.

Dataset with its publication pending

curator keyword: Biological

submitter keyword: ER, chemical proteomics, HeLa cell

Itaru Hamachi
contact affiliation	Department of Synthetic Chemistry & Biological Chemistry, Graduate School of Engineering, Kyoto Univ. Katsura, Kyoto 615-8510, JAPAN
contact email	ihamachi@sbchem.kyoto-u.ac.jp
lab head
Alma Fujisawa
contact affiliation	Kyoto Univ.
contact email	fujisawa.alma.83w@st.kyoto-u.ac.jp
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/2018/11/PXD011618

PRIDE project URI

• PRIDE
  1. PXD011618
     1. Label: PRIDE project
     2. Name: ER chemical proteomics with ER-localizable reactive molecules