Proteomics

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Improved discrimination of asymmetric and symmetric protein arginine dimethylation by optimizing the normalized collision energy in LC-MS proteomics


ABSTRACT: Here we optimize the HCD Normalized Collision Energy (NCE) in order to generate neutral losses of monomethylamine and dimethylamine which can be lost by symmetric dimethylarginine and asymmetric dimethylarginine, respectively. By testing a range of NCEs across two different methyl enrichment techniques, we identified the optimal NCE as 32 to both generate neutral losses and to improve identifications of dimethyl PSMs. We achieve a 2-to-3 fold increase in the number of unique DMA peptides assigned neutral losses desginating them as ADMA or SDMA. This method will be useful to others interested in analyzing dimethylarginine peptides through mass spectrometry, where ADMA and SDMA have identical masses but differing neutral losses, and differing biological functions.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Epithelial Cell, Cell Culture

SUBMITTER: Nicolas Hartel  

LAB HEAD: Nicholas A. Graham

PROVIDER: PXD017193 | Pride | 2020-05-27

REPOSITORIES: Pride

Dataset's files

Source:
Action DRS
20190927_SCX_E3_HCD26_1-06.raw Raw
20190927_SCX_E3_HCD26_2-17.raw Raw
20190927_SCX_E3_HCD30_1-05.raw Raw
20190927_SCX_E3_HCD30_2-18.raw Raw
20190927_SCX_E3_HCD34_1-08.raw Raw
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Publications

Improved Discrimination of Asymmetric and Symmetric Arginine Dimethylation by Optimization of the Normalized Collision Energy in Liquid Chromatography-Mass Spectrometry Proteomics.

Hartel Nicolas G NG   Liu Christopher Z CZ   Graham Nicholas A NA  

Journal of proteome research 20200601 8


Protein arginine methylation regulates diverse biological processes including signaling, metabolism, splicing, and transcription. Despite its important biological roles, arginine dimethylation remains an understudied post-translational modification. Partly, this is because the two forms of arginine dimethylation, asymmetric dimethylarginine (ADMA) and symmetric dimethylarginine (SDMA), are isobaric and therefore indistinguishable by traditional mass spectrometry techniques. Thus, there exists a  ...[more]

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