RPXD034682

RPXD034682 is container for one or more analyses. The general container metadata is provided below and the table under Dataset History provides links to the various reanalyses have been provided (if any) in this container.

Title	JPST000234-1 Identifications of protein kinase A substrates with quantitative phosphoproteomics and primary-sequence based scoring.(H-89) [Reanalysis: JPST000234]
Description	Protein kinase A (PKA) is a serine/threonine kinase who plays essential roles in the complex signalling pathways. To better understand the functionalities, it is necessary to elucidate direct interplays between PKA and their substrates in living system. In order to screen them in a high-throughput manner, we firstly quantified the change of phosphoproteome in the cells of which PKA activity was perturbed by drag stimulations. LC-MS/MS analysis identified 2,755 and 3,191 phosphopeptides from either experiments with activator or inhibitor of PKA. To exclude indirect targets of PKA, we built the simple model to characterize the kinase sequential specificity to its substrate recognitions based on the known kinase-substrate relationships. Finally, by applying the metric to the sites of which phosphorylation were changed due to the drug stimulations, we identified 29 reliable candidates of PKA targeting residues in living cells including 8 known substrates. Moreover, 18 sites out of them were confirmed to be site-specifically phosphorylated in vitro. Altogether this study proposed confident list of PKA substrate and expanded the knowledge of PKA signalling network. [Original project description]
HostingRepository	jPOST
AnnounceDate	2023-03-25
AnnouncementXML	Submission_2023-03-25_06:26:06.089.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/RPXD034682
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Reanalysis of JPST000234
RepositorySupport	Supported dataset by repository
PrimarySubmitter	jPOST reanalysis
SpeciesList	scientific name: HeLa cell; NCBI TaxID: CLO:0003684;
ModificationList	TMT6plex reporter+balance reagent N-acylated residue; TMT6plex reporter+balance reagent acylated N-terminal; S-carboxamidomethyl-L-cysteine; L-methionine sulfoxide; O-phospho-L-serine; O-phospho-L-threonine; O4'-phospho-L-tyrosine
Instrument	Q Exactive

Reanalysis	Revision	Datetime	Status	Title / ChangeLog Entry
	0	2022-06-19 17:28:55	ID requested
0	1	2023-03-25 06:26:06	announced	JPST000234-1 Identifications of protein kinase A substrates with quantitative phosphoproteomics and primary-sequence based scoring.(H-89) [Reanalysis: JPST000234]

no publication

submitter keyword: reanalysis, H-89, HeLa, TMT, PKA

Yasushi Ishihama
lab head
jPOST reanalysis
contact affiliation	jPOST
dataset submitter

jPOST 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://ftp.jpostdb.org/JPST001715/