PXD000417

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]

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

submitter keyword: 26SP

submitter keyword: 26SP

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

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
1. 30635
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 26
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 26
  5. PublicationRef: PMID23991809
2. 30615
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 6
  3. ModificationList: No applicable mass modifications,
  4. Name: Arabidopsis 26SP analysis - Experiment 6
  5. PublicationRef: PMID23991809
3. 30613
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 4
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 4
  5. PublicationRef: PMID23991809
4. 30648
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 42
  3. ModificationList: No applicable mass modifications,
  4. Name: Arabidopsis 26SP analysis - Experiment 42
  5. PublicationRef: PMID23991809
5. 30614
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 5
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 5
  5. PublicationRef: PMID23991809
6. 30638
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 29
  3. ModificationList: monohydroxylated residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 29
  5. PublicationRef: PMID23991809
7. 30620
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 11
  3. ModificationList: monohydroxylated residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 11
  5. PublicationRef: PMID23991809
8. 30616
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 7
  3. ModificationList: No applicable mass modifications,
  4. Name: Arabidopsis 26SP analysis - Experiment 7
  5. PublicationRef: PMID23991809
9. 30625
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 16
  3. ModificationList: iodoacetamide derivatized residue, monohydroxylated residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 16
  5. PublicationRef: PMID23991809
10. 30647
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 40
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 40
  5. PublicationRef: PMID23991809
11. 30644
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 37
  3. ModificationList: monohydroxylated residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 37
  5. PublicationRef: PMID23991809
12. 30639
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 30
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 30
  5. PublicationRef: PMID23991809
13. 30626
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 17
  3. ModificationList: No applicable mass modifications,
  4. Name: Arabidopsis 26SP analysis - Experiment 17
  5. PublicationRef: PMID23991809
14. 30621
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 12
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 12
  5. PublicationRef: PMID23991809
15. 30646
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 39
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 39
  5. PublicationRef: PMID23991809
16. 30618
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 9
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 9
  5. PublicationRef: PMID23991809
17. 30627
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 18
  3. ModificationList: iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 18
  5. PublicationRef: PMID23991809
18. 30617
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 8
  3. ModificationList: monohydroxylated residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 8
  5. PublicationRef: PMID23991809
19. 30624
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 15
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 15
  5. PublicationRef: PMID23991809
20. 30634
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 25
  3. ModificationList: iodoacetamide derivatized residue, monohydroxylated residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 25
  5. PublicationRef: PMID23991809
21. 30649
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 43
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 43
  5. PublicationRef: PMID23991809
22. 30643
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 36
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 36
  5. PublicationRef: PMID23991809
23. 30637
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 28
  3. ModificationList: iodoacetamide derivatized residue, monohydroxylated residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 28
  5. PublicationRef: PMID23991809
24. 30631
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 22
  3. ModificationList: iodoacetamide derivatized residue, monohydroxylated residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 22
  5. PublicationRef: PMID23991809
25. 30612
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 3
  3. ModificationList: monohydroxylated residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 3
  5. PublicationRef: PMID23991809
26. 30629
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 20
  3. ModificationList: iodoacetamide derivatized residue, monohydroxylated residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 20
  5. PublicationRef: PMID23991809
27. 30636
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 27
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 27
  5. PublicationRef: PMID23991809
28. 30628
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 19
  3. ModificationList: No applicable mass modifications,
  4. Name: Arabidopsis 26SP analysis - Experiment 19
  5. PublicationRef: PMID23991809
29. 30622
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 13
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 13
  5. PublicationRef: PMID23991809
30. 30633
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 24
  3. ModificationList: iodoacetamide derivatized residue, monohydroxylated residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 24
  5. PublicationRef: PMID23991809
31. 30645
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 38
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 38
  5. PublicationRef: PMID23991809
32. 30632
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 23
  3. ModificationList: iodoacetamide derivatized residue, monohydroxylated residue, neutral loss,
  4. Name: Arabidopsis 26SP analysis - Experiment 23
  5. PublicationRef: PMID23991809
33. 30623
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 14
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue, neutral loss,
  4. Name: Arabidopsis 26SP analysis - Experiment 14
  5. PublicationRef: PMID23991809
34. 30611
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 2
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 2
  5. PublicationRef: PMID23991809
35. 30610
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 1
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 1
  5. PublicationRef: PMID23991809
36. 30642
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 35
  3. ModificationList: iodoacetamide derivatized residue, monohydroxylated residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 35
  5. PublicationRef: PMID23991809
37. 30641
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 34
  3. ModificationList: No applicable mass modifications,
  4. Name: Arabidopsis 26SP analysis - Experiment 34
  5. PublicationRef: PMID23991809
38. 30650
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 44
  3. ModificationList: monohydroxylated residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 44
  5. PublicationRef: PMID23991809
39. 30640
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 32
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 32
  5. PublicationRef: PMID23991809
40. 30651
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 45
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 45
  5. PublicationRef: PMID23991809
41. 30630
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 21
  3. ModificationList: monohydroxylated residue, iodoacetamide derivatized residue,
  4. Name: Arabidopsis 26SP analysis - Experiment 21
  5. PublicationRef: PMID23991809
42. 30619
  1. InstrumentRef: INSTRUMENT_1
  2. Label: Exp 10
  3. ModificationList: No applicable mass modifications,
  4. Name: Arabidopsis 26SP analysis - Experiment 10
  5. PublicationRef: PMID23991809