PXD005925-2

PXD005925 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Identifications of protein kinase A substrates with quantitative phosphoproteomics and primary-sequence based scoring.(H-89)
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.
HostingRepository	jPOST
AnnounceDate	2018-02-15
AnnouncementXML	Submission_2018-09-19_00:00:26.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD005925
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Tomoya Niinae
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	TMT6plex-126 reporter+balance reagent N6-acylated lysine; L-methionine sulfoxide; TMT6plex-126 reporter+balance reagent acylated N-terminal; S-carboxamidomethyl-L-cysteine; O-phospho-L-serine; O-phospho-L-threonine; O4'-phospho-L-tyrosine
Instrument	Q Exactive

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2017-02-15 01:26:24	ID requested
1	2018-02-14 07:00:06	announced
⏵ 2	2018-09-19 00:00:26	announced	Updated CV, FTP location and Modification list.
3	2019-08-20 22:54:55	announced	Updated PubMed.
4	2021-02-04 17:27:44	announced	2021-02-04: Updated FTP location.
5	2022-09-18 02:59:29	announced	2022-09-18: Updated FTP location.

Publication List

Dataset with its publication pending

Dataset with its publication pending

Keyword List

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

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

Contact List

Yasushi Ishihama
lab head
Tomoya Niinae
contact affiliation	Kyoto university
dataset submitter

Full Dataset Link List

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://jpost.pharm.kyoto-u.ac.jp/repository/JPST000234

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://jpost.pharm.kyoto-u.ac.jp/repository/JPST000234