PXD000312-1

PXD000312 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
Description	To test the hypothesis that HgCl2 acts as a phospho-tyrosine phosphatase inhibitor in B-cells, we treated the WEHI-231 cell line for 10 min with HgCl2 at 100 uM or 250 uM, okadaic acid at 100 nM or pervanadate at 25 uM and analyzed the phosphoproteome by TiO2 affinity chromatography and LC-MS/MS. WEHI-231 cell extracts were trypsinized and phosphopeptides were isolated using TiO2 affinity chromatography. Eluates were dried and resuspended in reversed-phase HPLC loading buffer for nano-flow HPLC, electrospray ionization and analysis on a Thermo LTQ mass spectrometer. Data were analyzed using the peptide prophet algorithm in Scaffold using Mascot and X!Tandem search results as input. Tandem mass spectra were extracted by Proteome Discoverer (ThermoFisher Scientific) version 1.4.0.288. Charge state deconvolution and deisotoping were not performed. All MS/MS data were analyzed using Mascot (Matrix Science, London, U.K., version 2.4.0) and X! Tandem (The GPM, thegpm.org; version CYCLONE (2010.12.01.1)). Mascot and X!Tandem were each set up to search the 2013_04 release of the SwissProt database (selected for Mus musculus, 16611 entries) assuming the digestion enzyme trypsin. Spectra were searched with a fragment ion mass tolerance of 0.70 Da and a parent ion tolerance of 3.5 Da. The iodoacetamide derivative of cysteine was specified as a fixed modification. Oxidation of methionine, acetylation of the n-terminus, and phosphorylation of serine, threonine, and tyrosine were specified as variable modifications.
HostingRepository	PRIDE
AnnounceDate	2013-12-10
AnnouncementXML	Submission_2013-12-10_00:53:55.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD000312
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Nicholas Carruthers
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	phosphorylated residue; fragment neutral loss: 97.9769; iodoacetamide derivatized residue; acetylated residue; fragment neutral loss: 63.998283; monohydroxylated residue; deaminated residue
Instrument	radial ejection linear ion trap

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2013-07-01 06:28:25	ID requested
⏵ 1	2013-12-10 00:54:10	announced
⏵ 1	2013-12-10 01:12:39	announced
2	2014-07-28 00:40:26	announced	Updated project metadata.

Publication List

Dataset with its publication pending

Dataset with its publication pending

Keyword List

submitter keyword: mercury, Hg, phosphoprotein, phosphoylation, B-cell, pervanadate

submitter keyword: mercury, Hg, phosphoprotein, phosphoylation, B-cell, pervanadate

Contact List

Paul Stemmer
contact attribute	pmstemmer@wayne.edu
contact affiliation	Wayne State University
contact email	pmstemmer@wayne.edu
Nicholas Carruthers
contact affiliation	Wayne State University
contact email	carruthers@wayne.edu

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/2013/12/PXD000312

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/2013/12/PXD000312

Repository Record List

[ + ]

PRIDE
1. 29905
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S7-Hg100
  3. ModificationList: phosphorylated residue, fragment neutral loss, iodoacetamide derivatized residue, acetylated residue, fragment neutral loss, monohydroxylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
2. 29900
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S2-control
  3. ModificationList: phosphorylated residue, fragment neutral loss, iodoacetamide derivatized residue, acetylated residue, fragment neutral loss, monohydroxylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
3. 29910
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S12-pervanadate
  3. ModificationList: phosphorylated residue, fragment neutral loss, iodoacetamide derivatized residue, acetylated residue, fragment neutral loss, monohydroxylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
4. 29916
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S6-Hg250
  3. ModificationList: phosphorylated residue, fragment neutral loss, iodoacetamide derivatized residue, fragment neutral loss, monohydroxylated residue, acetylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
5. 29907
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S9-pervanadate
  3. ModificationList: phosphorylated residue, fragment neutral loss, iodoacetamide derivatized residue, acetylated residue, fragment neutral loss, monohydroxylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
6. 29913
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S3-control
  3. ModificationList: phosphorylated residue, fragment neutral loss, iodoacetamide derivatized residue, acetylated residue, fragment neutral loss, monohydroxylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
7. 29911
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S1-control
  3. ModificationList: phosphorylated residue, fragment neutral loss, iodoacetamide derivatized residue, acetylated residue, fragment neutral loss, monohydroxylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
8. 29899
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S1-control
  3. ModificationList: phosphorylated residue, fragment neutral loss, iodoacetamide derivatized residue, acetylated residue, fragment neutral loss, monohydroxylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
9. 29906
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S8-Hg100
  3. ModificationList: phosphorylated residue, fragment neutral loss, iodoacetamide derivatized residue, fragment neutral loss, monohydroxylated residue, acetylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
10. 29919
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S9-OA
  3. ModificationList: phosphorylated residue, fragment neutral loss, iodoacetamide derivatized residue, acetylated residue, fragment neutral loss, monohydroxylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
11. 29901
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S3-control
  3. ModificationList: phosphorylated residue, fragment neutral loss, fragment neutral loss, monohydroxylated residue, iodoacetamide derivatized residue, acetylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
12. 29904
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S6-Hg100
  3. ModificationList: iodoacetamide derivatized residue, phosphorylated residue, fragment neutral loss, deaminated residue, acetylated residue, fragment neutral loss, monohydroxylated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
13. 29902
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S4-control
  3. ModificationList: phosphorylated residue, fragment neutral loss, fragment neutral loss, monohydroxylated residue, iodoacetamide derivatized residue, acetylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
14. 29914
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S4-Hg250
  3. ModificationList: phosphorylated residue, fragment neutral loss, iodoacetamide derivatized residue, acetylated residue, fragment neutral loss, monohydroxylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
15. 29917
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S7-OA
  3. ModificationList: phosphorylated residue, fragment neutral loss, iodoacetamide derivatized residue, acetylated residue, fragment neutral loss, monohydroxylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
16. 29912
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S2-control
  3. ModificationList: phosphorylated residue, fragment neutral loss, iodoacetamide derivatized residue, acetylated residue, fragment neutral loss, monohydroxylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
17. 29918
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S8-OA
  3. ModificationList: phosphorylated residue, fragment neutral loss, iodoacetamide derivatized residue, acetylated residue, fragment neutral loss, monohydroxylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
18. 29903
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S5-Hg100
  3. ModificationList: phosphorylated residue, fragment neutral loss, iodoacetamide derivatized residue, fragment neutral loss, monohydroxylated residue, acetylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
19. 29909
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S11-pervanadate
  3. ModificationList: phosphorylated residue, fragment neutral loss, acetylated residue, fragment neutral loss, monohydroxylated residue, iodoacetamide derivatized residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
20. 29915
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S5-Hg250
  3. ModificationList: phosphorylated residue, fragment neutral loss, iodoacetamide derivatized residue, fragment neutral loss, monohydroxylated residue, acetylated residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending
21. 29908
  1. InstrumentRef: INSTRUMENT_1
  2. Label: S10-pervanadate
  3. ModificationList: phosphorylated residue, fragment neutral loss, acetylated residue, fragment neutral loss, monohydroxylated residue, iodoacetamide derivatized residue, deaminated residue,
  4. Name: Mercury Uniquely Alters B-Cell Protein Phosphorylation Profiles
  5. PublicationRef: pending