Co-fractionation/mass spectrometry to identify protein complexes

STAR Protoc. 2021 Mar 10;2(1):100370. doi: 10.1016/j.xpro.2021.100370. eCollection 2021 Mar 19.

Abstract

Co-fractionation/mass spectrometry (CF/MS) is a flexible and powerful method to detect physical associations of proteins. CF/MS can be applied to any tissue or organism without the need for protein-specific antibodies or epitope tags. Here, we outline two alternate protocols for MS preparation of samples (containing low or high salt) and a computational pipeline (cfmsflow) that together allow the successful application of this approach. These protocols are based on CF/MS of over 16 diverse organisms including plants and animals. For complete details on the use and execution of this protocol, please refer to McWhite et al. (2020).

Keywords: Bioinformatics; Proteomics.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Animals
  • Cell Fractionation / methods*
  • Chemical Fractionation
  • Chromatography, Liquid / methods*
  • Humans
  • Mass Spectrometry / methods*
  • Plants
  • Proteome / analysis
  • Proteomics / methods

Substances

  • Proteome