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Literature DB >> 33813043

The ubiquitin proteoform problem.

Abstract

The diversity of ubiquitin modifications is immense. A protein can be monoubiquitylated, multi-monoubiquitylated, and polyubiquitylated with chains varying in size and shape. Ubiquitin itself can be adorned with other ubiquitin-like proteins and smaller functional groups. Considering different combinations of post-translational modifications can give rise to distinct biological outcomes, characterizing ubiquitylated proteoforms of a given protein is paramount. In this Opinion, we review recent advances in detecting and quantifying various ubiquitin proteoforms using mass spectrometry.

Entities: Chemical

Keywords: Bottom-up proteomics; Middle-down proteomics; Proteoform; Top-down proteomics; Ubiquitin; Ubiquitin chain

Mesh：

Substances：
Proteome
Ubiquitin
Lysine

Year: 2021 PMID： 33813043 PMCID： PMC8384647 DOI： 10.1016/j.cbpa.2021.02.015

Source DB: PubMed Journal: Curr Opin Chem Biol ISSN： 1367-5931 Impact factor: 8.972

106 in total

Review 1. Quantifying ubiquitin signaling.

Authors: Alban Ordureau; Christian Münch; J Wade Harper
Journal: Mol Cell Date: 2015-05-21 Impact factor: 17.970

2. Methods to measure ubiquitin chain length and linkage.

Authors: Fumiaki Ohtake; Hikaru Tsuchiya; Keiji Tanaka; Yasushi Saeki
Journal: Methods Enzymol Date: 2019-02-15 Impact factor: 1.600

Review 3. RBR E3-ligases at work.

Authors: Judith J Smit; Titia K Sixma
Journal: EMBO Rep Date: 2014-01-27 Impact factor: 8.807

4. Posttranslational Modifications Mediate the Structural Diversity of Tauopathy Strains.

Authors: Tamta Arakhamia; Christina E Lee; Yari Carlomagno; Duc M Duong; Sean R Kundinger; Kevin Wang; Dewight Williams; Michael DeTure; Dennis W Dickson; Casey N Cook; Nicholas T Seyfried; Leonard Petrucelli; Anthony W P Fitzpatrick
Journal: Cell Date: 2020-02-06 Impact factor: 41.582

5. Quantitative Proteomic Atlas of Ubiquitination and Acetylation in the DNA Damage Response.

Authors: Andrew E H Elia; Alexander P Boardman; David C Wang; Edward L Huttlin; Robert A Everley; Noah Dephoure; Chunshui Zhou; Itay Koren; Steven P Gygi; Stephen J Elledge
Journal: Mol Cell Date: 2015-06-04 Impact factor: 17.970

Review 6. Proteome complexity and the forces that drive proteome imbalance.

Authors: J Wade Harper; Eric J Bennett
Journal: Nature Date: 2016-09-15 Impact factor: 49.962

7. Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass.

Authors: Lou K Povlsen; Petra Beli; Sebastian A Wagner; Sara L Poulsen; Kathrine B Sylvestersen; Jon W Poulsen; Michael L Nielsen; Simon Bekker-Jensen; Niels Mailand; Chunaram Choudhary
Journal: Nat Cell Biol Date: 2012-09-23 Impact factor: 28.824

8. Refined preparation and use of anti-diglycine remnant (K-ε-GG) antibody enables routine quantification of 10,000s of ubiquitination sites in single proteomics experiments.

Authors: Namrata D Udeshi; Tanya Svinkina; Philipp Mertins; Eric Kuhn; D R Mani; Jana W Qiao; Steven A Carr
Journal: Mol Cell Proteomics Date: 2012-12-24 Impact factor: 5.911

Review 2. Current methodologies in protein ubiquitination characterization: from ubiquitinated protein to ubiquitin chain architecture.

Authors: Mingwei Sun; Xiaofei Zhang
Journal: Cell Biosci Date: 2022-08-12 Impact factor: 9.584

2 in total