HP1 proteins compact DNA into mechanically and positionally stable phase separated domains

Elife. 2021 Mar 4;10:e64563. doi: 10.7554/eLife.64563.

Abstract

In mammals, HP1-mediated heterochromatin forms positionally and mechanically stable genomic domains even though the component HP1 paralogs, HP1α, HP1β, and HP1γ, display rapid on-off dynamics. Here, we investigate whether phase-separation by HP1 proteins can explain these biological observations. Using bulk and single-molecule methods, we show that, within phase-separated HP1α-DNA condensates, HP1α acts as a dynamic liquid, while compacted DNA molecules are constrained in local territories. These condensates are resistant to large forces yet can be readily dissolved by HP1β. Finally, we find that differences in each HP1 paralog's DNA compaction and phase-separation properties arise from their respective disordered regions. Our findings suggest a generalizable model for genome organization in which a pool of weakly bound proteins collectively capitalize on the polymer properties of DNA to produce self-organizing domains that are simultaneously resistant to large forces at the mesoscale and susceptible to competition at the molecular scale.

Keywords: biochemistry; chemical biology; chromatin organization; heterochromatin; human; molecular biophysics; phase separation; structural biology.

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

  • Cells, Cultured
  • Chromobox Protein Homolog 5 / genetics*
  • Chromobox Protein Homolog 5 / metabolism
  • Chromosomal Proteins, Non-Histone / genetics*
  • Chromosomal Proteins, Non-Histone / metabolism
  • DNA / metabolism*
  • Heterochromatin / metabolism*
  • Humans
  • Protein Binding

Substances

  • CBX1 protein, human
  • CBX3 protein, human
  • CBX5 protein, human
  • Chromosomal Proteins, Non-Histone
  • Heterochromatin
  • Chromobox Protein Homolog 5
  • DNA