PXD000417 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Arabidopsis cell LC-MSMS |
Description | 26S proteasome was affinity-purified with anti-FLAG beads and separated by 2-DE method. Each spot was cut and digested by Trypsin enzyme, which finaly applied for LC-MS/MS nalysis using a LTQ-Orbitrap XL (Thermo Scientific). The obtained spectra were compared against 35,386 sequences in The Arabidopsis Information Resource 10 (TAIR10; http://www.arabidopsis.org/) using the MASCOT server (version 2.4; Matrix Science) with the following search parameters: threshold set-off at 0.05 in the ion-score cut-off; protein identification cut-off set to two assigned spectra per predicted protein; peptide tolerance at 10 ppm; MS/MS tolerance at +/- 0.5 Da; peptide charge of 2+ or 3+; trypsin as the enzyme and allowing up to one missed cleavage; carboxymethylation on cysteines as a fixed modification and oxidation on methionine as a variable modification. |
HostingRepository | PRIDE |
AnnounceDate | 2013-09-06 |
AnnouncementXML | Submission_2013-09-06_05:34:49.xml |
DigitalObjectIdentifier | https://dx.doi.org/10.6019/PXD000417 |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Supported dataset by repository |
PrimarySubmitter | Takeo Sato |
SpeciesList | scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: 3702; |
ModificationList | monohydroxylated residue; iodoacetamide derivatized residue; neutral loss: 63.998285 |
Instrument | radial ejection linear ion trap |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2013-08-15 02:36:30 | ID requested | |
1 | 2013-09-06 04:09:14 | announced | |
1 | 2014-07-28 00:44:40 | announced | |
⏵ 2 | 2013-09-06 05:34:49 | announced | Add reference |
⏵ 2 | 2017-08-01 03:43:05 | announced | Updated project metadata. |
Publication List
Sun HH, Fukao Y, Ishida S, Yamamoto H, Maekawa S, Fujiwara M, Sato T, Yamaguchi J, Proteomics analysis reveals a highly heterogeneous proteasome composition and the post-translational regulation of peptidase activity under pathogen signaling in plants. J Proteome Res, 12(11):5084-95(2013) [pubmed] |
Keyword List
Contact List
Takeo Sato |
contact affiliation | Faculty of Science |
contact email | t-satou@sci.hokudai.ac.jp |
Full Dataset Link List
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/2013/09/PXD000417 |
Repository Record List
[ + ]
[ - ]
- PRIDE
- 30635
- InstrumentRef: INSTRUMENT_1
- Label: Exp 26
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 26
- PublicationRef: PMID23991809
- 30615
- InstrumentRef: INSTRUMENT_1
- Label: Exp 6
- ModificationList: No applicable mass modifications,
- Name: Arabidopsis 26SP analysis - Experiment 6
- PublicationRef: PMID23991809
- 30613
- InstrumentRef: INSTRUMENT_1
- Label: Exp 4
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 4
- PublicationRef: PMID23991809
- 30648
- InstrumentRef: INSTRUMENT_1
- Label: Exp 42
- ModificationList: No applicable mass modifications,
- Name: Arabidopsis 26SP analysis - Experiment 42
- PublicationRef: PMID23991809
- 30614
- InstrumentRef: INSTRUMENT_1
- Label: Exp 5
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 5
- PublicationRef: PMID23991809
- 30638
- InstrumentRef: INSTRUMENT_1
- Label: Exp 29
- ModificationList: monohydroxylated residue,
- Name: Arabidopsis 26SP analysis - Experiment 29
- PublicationRef: PMID23991809
- 30620
- InstrumentRef: INSTRUMENT_1
- Label: Exp 11
- ModificationList: monohydroxylated residue,
- Name: Arabidopsis 26SP analysis - Experiment 11
- PublicationRef: PMID23991809
- 30616
- InstrumentRef: INSTRUMENT_1
- Label: Exp 7
- ModificationList: No applicable mass modifications,
- Name: Arabidopsis 26SP analysis - Experiment 7
- PublicationRef: PMID23991809
- 30625
- InstrumentRef: INSTRUMENT_1
- Label: Exp 16
- ModificationList: iodoacetamide derivatized residue, monohydroxylated residue,
- Name: Arabidopsis 26SP analysis - Experiment 16
- PublicationRef: PMID23991809
- 30647
- InstrumentRef: INSTRUMENT_1
- Label: Exp 40
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 40
- PublicationRef: PMID23991809
- 30644
- InstrumentRef: INSTRUMENT_1
- Label: Exp 37
- ModificationList: monohydroxylated residue,
- Name: Arabidopsis 26SP analysis - Experiment 37
- PublicationRef: PMID23991809
- 30639
- InstrumentRef: INSTRUMENT_1
- Label: Exp 30
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 30
- PublicationRef: PMID23991809
- 30626
- InstrumentRef: INSTRUMENT_1
- Label: Exp 17
- ModificationList: No applicable mass modifications,
- Name: Arabidopsis 26SP analysis - Experiment 17
- PublicationRef: PMID23991809
- 30621
- InstrumentRef: INSTRUMENT_1
- Label: Exp 12
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 12
- PublicationRef: PMID23991809
- 30646
- InstrumentRef: INSTRUMENT_1
- Label: Exp 39
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 39
- PublicationRef: PMID23991809
- 30618
- InstrumentRef: INSTRUMENT_1
- Label: Exp 9
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 9
- PublicationRef: PMID23991809
- 30627
- InstrumentRef: INSTRUMENT_1
- Label: Exp 18
- ModificationList: iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 18
- PublicationRef: PMID23991809
- 30617
- InstrumentRef: INSTRUMENT_1
- Label: Exp 8
- ModificationList: monohydroxylated residue,
- Name: Arabidopsis 26SP analysis - Experiment 8
- PublicationRef: PMID23991809
- 30624
- InstrumentRef: INSTRUMENT_1
- Label: Exp 15
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 15
- PublicationRef: PMID23991809
- 30634
- InstrumentRef: INSTRUMENT_1
- Label: Exp 25
- ModificationList: iodoacetamide derivatized residue, monohydroxylated residue,
- Name: Arabidopsis 26SP analysis - Experiment 25
- PublicationRef: PMID23991809
- 30649
- InstrumentRef: INSTRUMENT_1
- Label: Exp 43
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 43
- PublicationRef: PMID23991809
- 30643
- InstrumentRef: INSTRUMENT_1
- Label: Exp 36
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 36
- PublicationRef: PMID23991809
- 30637
- InstrumentRef: INSTRUMENT_1
- Label: Exp 28
- ModificationList: iodoacetamide derivatized residue, monohydroxylated residue,
- Name: Arabidopsis 26SP analysis - Experiment 28
- PublicationRef: PMID23991809
- 30631
- InstrumentRef: INSTRUMENT_1
- Label: Exp 22
- ModificationList: iodoacetamide derivatized residue, monohydroxylated residue,
- Name: Arabidopsis 26SP analysis - Experiment 22
- PublicationRef: PMID23991809
- 30612
- InstrumentRef: INSTRUMENT_1
- Label: Exp 3
- ModificationList: monohydroxylated residue,
- Name: Arabidopsis 26SP analysis - Experiment 3
- PublicationRef: PMID23991809
- 30629
- InstrumentRef: INSTRUMENT_1
- Label: Exp 20
- ModificationList: iodoacetamide derivatized residue, monohydroxylated residue,
- Name: Arabidopsis 26SP analysis - Experiment 20
- PublicationRef: PMID23991809
- 30636
- InstrumentRef: INSTRUMENT_1
- Label: Exp 27
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 27
- PublicationRef: PMID23991809
- 30628
- InstrumentRef: INSTRUMENT_1
- Label: Exp 19
- ModificationList: No applicable mass modifications,
- Name: Arabidopsis 26SP analysis - Experiment 19
- PublicationRef: PMID23991809
- 30622
- InstrumentRef: INSTRUMENT_1
- Label: Exp 13
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 13
- PublicationRef: PMID23991809
- 30633
- InstrumentRef: INSTRUMENT_1
- Label: Exp 24
- ModificationList: iodoacetamide derivatized residue, monohydroxylated residue,
- Name: Arabidopsis 26SP analysis - Experiment 24
- PublicationRef: PMID23991809
- 30645
- InstrumentRef: INSTRUMENT_1
- Label: Exp 38
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 38
- PublicationRef: PMID23991809
- 30632
- InstrumentRef: INSTRUMENT_1
- Label: Exp 23
- ModificationList: iodoacetamide derivatized residue, monohydroxylated residue, neutral loss,
- Name: Arabidopsis 26SP analysis - Experiment 23
- PublicationRef: PMID23991809
- 30623
- InstrumentRef: INSTRUMENT_1
- Label: Exp 14
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue, neutral loss,
- Name: Arabidopsis 26SP analysis - Experiment 14
- PublicationRef: PMID23991809
- 30611
- InstrumentRef: INSTRUMENT_1
- Label: Exp 2
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 2
- PublicationRef: PMID23991809
- 30610
- InstrumentRef: INSTRUMENT_1
- Label: Exp 1
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 1
- PublicationRef: PMID23991809
- 30642
- InstrumentRef: INSTRUMENT_1
- Label: Exp 35
- ModificationList: iodoacetamide derivatized residue, monohydroxylated residue,
- Name: Arabidopsis 26SP analysis - Experiment 35
- PublicationRef: PMID23991809
- 30641
- InstrumentRef: INSTRUMENT_1
- Label: Exp 34
- ModificationList: No applicable mass modifications,
- Name: Arabidopsis 26SP analysis - Experiment 34
- PublicationRef: PMID23991809
- 30650
- InstrumentRef: INSTRUMENT_1
- Label: Exp 44
- ModificationList: monohydroxylated residue,
- Name: Arabidopsis 26SP analysis - Experiment 44
- PublicationRef: PMID23991809
- 30640
- InstrumentRef: INSTRUMENT_1
- Label: Exp 32
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 32
- PublicationRef: PMID23991809
- 30651
- InstrumentRef: INSTRUMENT_1
- Label: Exp 45
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 45
- PublicationRef: PMID23991809
- 30630
- InstrumentRef: INSTRUMENT_1
- Label: Exp 21
- ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
- Name: Arabidopsis 26SP analysis - Experiment 21
- PublicationRef: PMID23991809
- 30619
- InstrumentRef: INSTRUMENT_1
- Label: Exp 10
- ModificationList: No applicable mass modifications,
- Name: Arabidopsis 26SP analysis - Experiment 10
- PublicationRef: PMID23991809