PXD000364

PXD000364 is an original dataset announced via ProteomeXchange.

Title	A magnetic immunoenrichment strategy for N-terminal-oriented proteogenomics applied to the marine bacterium Roseobacter denitrificans
Description	Proteogenomics is the alliance of proteomics and genomics with the aim of better annotating structural genes based on protein experimental pieces of evidence established by tandem mass spectrometry. While on average more than one tenth of N-termini of proteins are incorrectly annotated, there is a crucial need for methodological approaches to systematically establish translational starts of polypeptides and their maturations such as N-terminal methionine processing and peptide signal excision. Here, we describe a straightforward strategy to specifically label protein N-termini with a positively charged TMPP label, selectively capture these entities with in-house developed anti-TMPP antibodies coupled to magnetic beads, and analyze them by nanoLC-MS/MS. While most N-terminomics-oriented approaches are based on depletion of internal peptides to retrieve N-terminal peptides, this enrichment approach is fast and results highly specific for improved ionizable TMPP-labeled peptides. The whole proteome of the model marine bacterium Roseobacter denitrificans was analyzed.
HostingRepository	PRIDE
AnnounceDate	2014-07-24
AnnouncementXML	Submission_2014-07-24_03:47:41.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jean ARMENGAUD
SpeciesList	scientific name: Roseobacter denitrificans (strain ATCC 33942 / OCh 114) (Erythrobacter sp. (strain OCh 114)) (Roseobacter denitrificans); NCBI TaxID: 375451;
ModificationList	monohydroxylated residue; TMPP-Ac
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2013-07-25 06:43:53	ID requested
1	2014-07-16 03:47:57	announced
⏵ 2	2014-07-24 03:47:42	announced	Updated project metadata.

Bland C, Bellanger L, Armengaud J, Magnetic immunoaffinity enrichment for selective capture and MS/MS analysis of N-terminal-TMPP-labeled peptides. J Proteome Res, 13(2):668-80(2014) [pubmed]

curator keyword: Biological

submitter keyword: proteogenomics, genome annotation, N-terminomics, high-throughput proteomics, protein derivatization, tandem mass spectrometry

Jean ARMENGAUD
contact affiliation	SBTN
contact email	jean.armengaud@cea.fr
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD000364
     1. Label: PRIDE project
     2. Name: A magnetic immunoenrichment strategy for N-terminal-oriented proteogenomics applied to the marine bacterium Roseobacter denitrificans