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Proteomics of a fuzzy organelle: interphase chromatin

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Version 2 2023-06-12, 08:55
Version 1 2023-06-09, 16:15
journal contribution
posted on 2023-06-12, 08:55 authored by Georg Kustatscher, Nadia Hégarat, Karen L H Willis, Cristina Furlan, Jimi-Carlo Bukowski-Wills, Helfrid HocheggerHelfrid Hochegger, Juri Rappsilber
Chromatin proteins mediate replication, regulate expression and ensure integrity of the genome. So far, a comprehensive inventory of interphase chromatin has not been determined. This is largely due to its heterogeneous and dynamic composition, which makes conclusive biochemical purification difficult, if not impossible. As a fuzzy organelle it defies classical organellar proteomics and cannot be described by a single and ultimate list of protein components. Instead we propose a new approach that provides a quantitative assessment of a protein’s probability to function in chromatin. We integrate chromatin composition over a range of different biochemical and biological conditions. This resulted in interphase chromatin probabilities for 7635 human proteins, including 1840 previously uncharacterized proteins. We demonstrate the power of our large-scale data-driven annotation during the analysis of CDK regulation in chromatin. Quantitative protein ontologies may provide a general alternative to list-based investigations of organelles and complement Gene Ontology.

Funding

Exploiting chemical genetics to investigate the control of microtubule dynamics by mitotic kinases; G0900; CANCER RESEARCH UK; C28206/A14499

History

Publication status

  • Published

File Version

  • Published version

Journal

The EMBO Journal

ISSN

0261-4189

Publisher

Nature Publishing Group

Issue

6

Volume

33

Page range

648-664

Department affiliated with

  • Sussex Centre for Genome Damage Stability Publications

Research groups affiliated with

  • Genome Damage and Stability Centre Publications

Full text available

  • Yes

Peer reviewed?

  • No

Legacy Posted Date

2018-12-14

First Open Access (FOA) Date

2018-12-14

First Compliant Deposit (FCD) Date

2018-12-14

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