title: Protein-Protein Interaction Detection Via Mass Spectrometry-Based Proteomics.
abstract: Analysis of protein-protein interactions is one of the mainstays of mass spectrometry-based proteomics and recent developments, which have simplified the methodology, have permitted non-specialised laboratories to adopt the approach. We introduce and review three complimentary methods which allow for the targeted, global and site-specific analysis of protein complexes. Co-precipitation of endogenous or ectopically expressed proteins and their complexes followed by proteomic analysis allows for the discovery and accurate quantification of specific protein interactions. Whereas complimentary methods, such as co-purification of entire complexes based on physico-chemical attributes, can give a snap-shot of the composition and dynamics of protein complexes on a global scale. Cross-linking on the other hand can pinpoint the amino acids involved in protein-protein interactions to such a resolution that the likely complex can be reconstructed computationally.
authors.affiliation: Systems Biology Ireland, Conway Institute, University College Dublin, Belfield, Dublin 4, Ireland.
authors.forename: Benedetta
authors.initials: B
authors.lastname: Turriziani
authors.affiliation: Systems Biology Ireland, Conway Institute, University College Dublin, Belfield, Dublin 4, Ireland.
authors.forename: Alexander
authors.initials: A
authors.lastname: von Kriegsheim
authors.affiliation: School of Medicine and Medical Sciences, UCD Conway Institute of Biomolecular and Biomedical Research, University College Dublin, Dublin 4, Ireland. stephen.pennington@ucd.ie.
authors.forename: Stephen R
authors.initials: SR
authors.lastname: Pennington
mesh_terms: D000465:Algorithms; D000818:Animals; D019295:Computational Biology / Q000379:methods*; D003432:Cross-Linking Reagents / Q000737:chemistry; D057225:Data Mining / Q000379:methods*; D030562:Databases, Protein; D057166:High-Throughput Screening Assays; D006801:Humans; D047468:Immunoprecipitation; D013058:Mass Spectrometry / Q000379:methods*; D025941:Protein Interaction Mapping / Q000379:methods*; D060066:Protein Interaction Maps; D011499:Protein Processing, Post-Translational; D011506:Proteins / Q000032:analysis* / Q000235:genetics; D020543:Proteome; D040901:Proteomics / Q000379:methods*; D015203:Reproducibility of Results; D012984:Software
chemical_list: D003432:Cross-Linking Reagents; D011506:Proteins; D020543:Proteome
keywords: Co-elution; Co-purification; Cross-linking; Interaction proteomics; Protein complex