PXD041499
PXD041499 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Application of liquid-liquid extraction for N-terminal myristoylation proteomics |
| Description | Proteins can be modified by lipids in various ways, for example by myristoylation, palmitoylation, farnesylation, and geranylgeranylation—these processes are collectively referred to as lipidation. Current chemical proteomics using alkyne lipids has enabled the identification of lipidated protein candidates but does not identify endogenous lipidation sites and is not readily applicable to in vivo systems. Here, we introduce a proteomic methodology for global analysis of endogenous protein N-terminal myristoylation sites that combines liquid-liquid extraction of hydrophobic lipidated peptides with liquid chromatography-tandem mass spectrometry using a gradient program of acetonitrile in the high concentration range. We applied this method to explore myristoylation sites in HeLa cells, and identified a total of 75 protein N-terminal myristoylation sites, which is more than the number of high-confidence myristoylated proteins identified by myristic acid analog-based chemical proteomics. Isolation of myristoylated peptides from HeLa digests prepared with different proteases enabled the identification of different myristoylated sites, extending the coverage. Finally, we analyzed in vivo myristoylation sites in mouse tissues and found that the lipidation profile is tissue-specific. This simple method (not requiring chemical labeling or affinity purification) should be a promising tool for global profiling of protein N-terminal myristoylation. |
| HostingRepository | jPOST |
| AnnounceDate | 2023-11-09 |
| AnnouncementXML | Submission_2023-11-13_17:08:12.453.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Kazuya Tsumagari |
| SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; |
| ModificationList | S-carboxamidomethyl-L-cysteine; alpha-amino acetylated residue; L-methionine sulfoxide; unknown modification; S-palmitoyl-L-cysteine |
| Instrument | instrument |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2023-04-12 21:34:56 | ID requested | |
| 1 | 2023-11-08 16:28:02 | announced | |
| ⏵ 2 | 2023-11-13 17:08:13 | announced | 2023-11-14: Updated PubMed. |
Publication List
| Tsumagari K, Isobe Y, Ishihama Y, Seita J, Arita M, Imami K, Application of Liquid-Liquid Extraction for N-terminal Myristoylation Proteomics. Mol Cell Proteomics, 22(12):100677(2023) [pubmed] |
Keyword List
| submitter keyword: lipidation, myristoylation, liquid-liquid extraction |
Contact List
| Koshi Imami | |
|---|---|
| lab head | |
| Kazuya Tsumagari | |
| contact affiliation | RIKEN |
| 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/JPST002094/ |
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