PXD019746
PXD019746 is an original dataset announced via ProteomeXchange.
Dataset Summary
Title | Effect of Phosphorylation on the Collision Cross Sections of Peptide Ions in Ion Mobility Spectrometry |
Description | The insertion of ion mobility spectrometry (IMS) between LC and MS can improve peptide identification in both proteomics and phosphoproteomics by providing structural information that is complementary to LC and MS, because IMS separates ions on the basis of differences in their shapes and charge states. However, it is necessary to know how phosphate groups affect the peptide collision cross sections (CCS) in order to accurately predict phosphopeptide CCS values and to maximize the usefulness of IMS. In this work, we systematically characterized the CCS values of 4,433 pairs of mono-phosphopeptide and corresponding unphosphorylated peptide ions using trapped ion mobility spectrometry (TIMS). Nearly one-third of the mono-phosphopeptide ions evaluated here showed smaller CCS values than their unphosphorylated counterparts, even though phosphorylation results in a mass increase of 80 Da. Significant changes of CCS upon phosphorylation occurred mainly in structurally extended peptides with large numbers of basic groups, possibly reflecting intramolecular interactions between phosphate and basic groups. |
HostingRepository | jPOST |
AnnounceDate | 2021-01-14 |
AnnouncementXML | Submission_2022-09-18_03:33:35.196.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Kosuke Ogata |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | S-carboxamidomethyl-L-cysteine; O4'-phospho-L-tyrosine; O-phospho-L-threonine; O-phospho-L-serine; L-methionine sulfoxide; alpha-amino acetylated residue |
Instrument | instrument |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
---|---|---|---|
0 | 2020-06-14 09:00:11 | ID requested | |
1 | 2021-01-24 17:30:07 | announced | |
2 | 2021-02-04 16:53:29 | announced | 2021-02-04: Updated FTP location. |
3 | 2021-02-24 08:12:30 | announced | 2021-02-25: Updated PubMed. |
⏵ 4 | 2022-09-18 03:33:36 | announced | 2022-09-18: Updated FTP location. |
Publication List
Ogata K, Chang CH, Ishihama Y, Effect of Phosphorylation on the Collision Cross Sections of Peptide Ions in Ion Mobility Spectrometry. Mass Spectrom (Tokyo), 10():A0093(2021) [pubmed] |
Keyword List
submitter keyword: Phosphopeptides, LC/IMS/MS/MS, Trapped ion mobility spectrometry, Collision cross section, Proteomics |
Contact List
Yasushi Ishihama | |
---|---|
lab head | |
Kosuke Ogata | |
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://ftp.jpostdb.org/JPST000848/ |