A comprehensive identification of synaptic vesicle proteins in rat brains by cRPLC/MS-MS and 2DE/MALDI-TOF-MS

Won Kyu Lee, Hye Jung Kim, Hye Ki Min, Un Beom Kang, Cheolju Lee, Sang Won Lee, Young Kim Ick, Seung Taek Lee, Oh Seung Kwon, Gyu Yu Yeon

Research output: Contribution to journalArticlepeer-review


Proteomic analyses of synaptic vesicle fraction from rat brain have been performed for the better understanding of vesicle regulation and signal transmission. Two different approaches were applied to identify proteins in synaptic vesicle fraction. First, the isolated synaptic vesicle proteins were treated with trypsin, and the resulting peptides were analyzed using a high-pressure capillary reversed phase liquid chromatography/tandem mass spectrometry (cRPLC/MS/MS). Alternatively, proteins were separated by two-dimensional gel electrophoresis (2DE) and identified by matrix-assisted laser desorption ionization mass spectrometry (MALDI-TOF/MS). Total 18 and 52 proteins were identified from cRPLC/MS-MS and 2DE-MALDI-TOF-MS analysis, respectively. Among them only 2 proteins were identified by both methods. Of the proteins identified, 70% were soluble proteins and 30% were membrane proteins. They were categorized by their functions in vesicle trafficking and biogenesis, energy metabolism, signal transduction, transport and unknown functions. Among them, 27 proteins were not previously reported as synaptic proteins. The cellular functions of unknown proteins were estimated from the analysis of domain structure, expression profile and predicted interaction partners.

Original languageEnglish
Pages (from-to)1499-1509
Number of pages11
JournalBulletin of the Korean Chemical Society
Issue number9
Publication statusPublished - 2007 Sept 20


  • Matrix-assisted laser desorption mass spectrometry
  • Micro liquid chromatography electrospray ionization tandem mass spectrometry
  • Rat brains
  • Synaptic membrane proteome
  • Two-dimensional gel electrophoresis

ASJC Scopus subject areas

  • Chemistry(all)


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