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Peter James

Peter James

Professor

Peter James

Membrane protein identification: N-terminal labeling of nontryptic membrane protein peptides facilitates database searching

Author

  • Maria Bentz
  • Kristofer Wårell
  • Fredrik Levander
  • Peter James

Summary, in English

Membrane proteins are fairly refractory to digestion especially by trypsin, and less specific proteases, such as elastase and pepsin, are much more effective. However, database searching using nontryptic peptides is much less effective because of the lack of charge localization at the N and C termini and the absence of sequence specificity. We describe a method for N-terminal-specific labeling of peptides from nontryptic digestions of membrane proteins, which facilitates Mascot database searching and can be used for relative quantitation. The conditions for digestion have been optimized to obtain peptides of a suitable length for mass spectrometry (MS) fragmentation. We show the effectiveness of the method using a plasma membrane preparation from a leukemia cell line and demonstrate a large increase in the number of membrane proteins, with small extra-membranar domains being identified in comparison to previous published methods.

Department/s

  • Department of Immunotechnology

Publishing year

2008

Language

English

Pages

659-665

Publication/Series

Journal of Proteome Research

Volume

7

Issue

2

Document type

Journal article

Publisher

The American Chemical Society (ACS)

Topic

  • Immunology in the medical area

Keywords

  • database
  • search
  • N-terminal labeling
  • proteinase K
  • membrane proteins
  • pepsin

Status

Published

ISBN/ISSN/Other

  • ISSN: 1535-3893