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PXD002476

PXD002476 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleArabidopsis chloroplast N-terminome
DescriptionProtein N-termini are prone to post translational modification and are major determinants of protein stability in bacteria, eukaryotes, and perhaps also in chloroplasts. Most chloroplast proteins undergo N-terminal maturation, but this is poorly understood due to insufficient experimental information and the N-termini of mature chloroplast proteins cannot be accurately predicted. This motivated an extensive characterization of chloroplast protein N-termini using terminal amine isotopic labeling of substrates (TAILS). Many nuclear-encoded plastid proteins accumulated with two or three different N-termini; we evaluated the significance of these different proteoforms. Ala, Val, Thr (often in N-α acetylated form) and Ser were the most frequently observed N-terminal residues, even after normalization for their frequency in the plastid proteome, while other residues were absent or highly under-represented. Plastid-encoded proteins showed a similar distribution of N-terminal residues, but with a higher frequency of Met. Infrequent residues such as Ile, Arg, Cys, Pro, Asp and Glu were observed for several abundant proteins likely reflecting functional regulation through their N-termini. In contrast, the thylakoid lumenal proteome showed a wide diversity of N-terminal residues, including those typically associated with instability (Asp, Glu, Leu, Phe). We propose that after cleavage of the chloroplast transit peptide by stromal processing peptidase, additional processing by unidentified peptidases occurs to avoid unstable or otherwise unfavorable N-terminal residues. The possibility of a chloroplast N-end rule is discussed. This work provides a baseline for understanding N-terminal processing and maturation of chloroplast proteins.
HostingRepositoryPRIDE
AnnounceDate2015-10-22
AnnouncementXMLSubmission_2015-10-22_08:04:14.xml
DigitalObjectIdentifierhttps://dx.doi.org/10.6019/PXD002476
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportSupported dataset by repository
PrimarySubmitterElden Rowland
SpeciesList scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: 3702;
ModificationListmonohydroxylated residue; acetylated residue; iodoacetamide derivatized residue; deaminated residue; 4x(2)H labeled alpha-dimethylamino N-terminal residue; dimethylated residue; 4x(2)H labeled dimethylated L-lysine; 4x(2)H labeled dimethylated residue
InstrumentLTQ Orbitrap
Dataset History
RevisionDatetimeStatusChangeLog Entry
02015-07-06 01:18:35ID requested
12015-10-22 08:04:15announced
Publication List
Rowland E, Kim J, Bhuiyan NH, van Wijk KJ, The Arabidopsis Chloroplast Stromal N-Terminome: Complexities of Amino-Terminal Protein Maturation and Stability. Plant Physiol, 169(3):1881-96(2015) [pubmed]
Keyword List
curator keyword: Biological
submitter keyword: N-terminome, Arabidopsis thaliana, proteolysis, protein maturation, protein processing, chloroplast protein import, chloroplast transit peptide, TAILS
Contact List
Klaas van Wijk
contact affiliationDept. Plant Biology Cornell University
contact emailkv35@cornell.edu
lab head
Elden Rowland
contact affiliationCornell University
contact emaileer55@cornell.edu
dataset submitter
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Dataset FTP location
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