title: Identification, Quantification, and Site Localization of Protein Posttranslational Modifications via Mass Spectrometry-Based Proteomics.
abstract: Posttranslational modifications (PTMs) are important biochemical processes for regulating various signaling pathways and determining specific cell fate. Mass spectrometry (MS)-based proteomics has been developed extensively in the past decade and is becoming the standard approach for systematic characterization of different PTMs on a global scale. In this chapter, we will explain the biological importance of various PTMs, summarize key innovations in PTMs enrichment strategies, high-performance liquid chromatography (HPLC)-based fractionation approaches, mass spectrometry detection methods, and lastly bioinformatic tools for PTMs related data analysis. With great effort in recent years by the proteomics community, highly efficient enriching methods and comprehensive resources have been developed. This chapter will specifically focus on five major types of PTMs; phosphorylation, glycosylation, ubiquitination/sumosylation, acetylation, and methylation.
authors.affiliation: Department of Chemistry, South University of Science and Technology of China, 518055, Shenzhen, China.
authors.forename: Mi
authors.initials: M
authors.lastname: Ke
authors.affiliation: Department of Chemistry, South University of Science and Technology of China, 518055, Shenzhen, China.
authors.forename: Hainan
authors.initials: H
authors.lastname: Shen
authors.affiliation: Department of Chemistry, South University of Science and Technology of China, 518055, Shenzhen, China.
authors.forename: Linjue
authors.initials: L
authors.lastname: Wang
authors.affiliation: Department of Chemistry, South University of Science and Technology of China, 518055, Shenzhen, China.
authors.forename: Shusheng
authors.initials: S
authors.lastname: Luo
authors.affiliation: Department of Chemistry, South University of Science and Technology of China, 518055, Shenzhen, China.
authors.forename: Lin
authors.initials: L
authors.lastname: Lin
authors.affiliation: Department of Chemistry, South University of Science and Technology of China, 518055, Shenzhen, China.
authors.forename: Jie
authors.initials: J
authors.lastname: Yang
authors.affiliation: Department of Chemistry, South University of Science and Technology of China, 518055, Shenzhen, China. tian.rj@sustc.edu.cn.|Shenzhen Key Laboratory of Cell Microenvironment, South University of Science and Technology of China, 518055, Shenzhen, China. tian.rj@sustc.edu.cn.
authors.forename: Ruijun
authors.initials: R
authors.lastname: Tian
mesh_terms: D000107:Acetylation; D000465:Algorithms; D000818:Animals; D019295:Computational Biology / Q000379:methods*; D057225:Data Mining / Q000379:methods*; D030562:Databases, Protein; D006031:Glycosylation; D057166:High-Throughput Screening Assays; D006801:Humans; D013058:Mass Spectrometry / Q000379:methods*; D008745:Methylation; D010766:Phosphorylation; D011499:Protein Processing, Post-Translational; D011506:Proteins / Q000032:analysis*; D020543:Proteome; D040901:Proteomics / Q000379:methods*; D015203:Reproducibility of Results; D012984:Software; D054875:Ubiquitination
chemical_list: D011506:Proteins; D020543:Proteome
keywords: Acetylome; Anti-k(GG) Ab; CID; ETD; Glycoproteomics; HCD; Hydrazine-based purification; IMAC; Immunoprecipitation; KMBD MBT-based purification; Lectin affinity; Lysine-acetylation; Lysine-methylation; MS3; Metal oxide affinity chromatography (MOAC); Methylome; Orthogonality; PTM enrichment; PTM mass spectrometry; Peptide fractionation; Phosphoproteomics; Posttranslational modifications (PTMs); Serial PTM enrichment; TiO2; Ubiquitinome and sumoylated proteome