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Reference - PMID:16127433 - Ubiquitin ligase component Cul4 associates with Clr4 histone methyltransferase to assemble heterochromatin.

Reference summary

PubMed ID
PMID:16127433
Title
Ubiquitin ligase component Cul4 associates with Clr4 histone methyltransferase to assemble heterochromatin.
Authors
Jia S, Kobayashi R, Grewal SI
Citation
Nat Cell Biol 2005 Oct;7(10):1007-13
Publication year
2005
Abstract
In eukaryotes, heterochromatin mediates diverse processes including gene silencing and regulation of long-range chromatin interactions. The formation of heterochromatin involves a conserved array of histone modifications; in particular, methylation of histone H3 at Lys 9 (H3K9me) is essential for recruiting HP1/Swi6 proteins. In fission yeast, the Clr4 methyltransferase is responsible for H3K9me across all heterochromatic domains. However, the mechanism of Clr4 recruitment to these loci is poorly understood. We show that Clr4 associates with Cul4, a cullin family protein that serves as a scaffold for assembling ubiquitin ligases. Mutations in Cul4 result in defective localization of Clr4 and loss of silencing at heterochromatic loci. This is accompanied by a severe reduction in H3K9me and Swi6 levels, and accumulation of transcripts corresponding to naturally silenced repeat elements within heterochromatic domains. Moreover, heterochromatin defects in Cul4 mutants could not be rescued by expression of Cul4 protein lacking Nedd8 modification, which is essential for its ubiquitin ligase activity. Rik1, a protein related to DNA damage binding protein DDB1 and required for H3K9me, also interacts with Cul4, the association of which might serve to target Clr4 to heterochromatic loci. These analyses uncover a role for Cul4-based protein ubiquitination in regulating H3K9me and heterochromatin formation.

Annotation

GO biological process

GO:0030466 - silent mating-type cassette heterochromatin formation

Genes:

GO:0140727 - siRNA-mediated pericentric heterochromatin formation

Genes:

GO:0031509 - subtelomeric heterochromatin formation

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GO cellular component

GO:0043494 - CLRC complex

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Multi-locus phenotype

FYPO:0007334 - abolished chromatin silencing at centromere outer repeat

Genes:

Genotypes:

FYPO:0004745 - abolished histone H3-K9 dimethylation at centromere outer repeat during vegetative growth

Genes:

Genotypes:

FYPO:0005850 - abolished protein localization to heterochromatin at centromere outer repeat

Genes:

Genotypes:

FYPO:0001355 - decreased vegetative cell population growth

Genes:

Genotypes:

FYPO:0002331 - increased histone H3-K4 dimethylation at centromere outer repeat during vegetative growth

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Single locus phenotype

FYPO:0000468 - abnormal mating type switching

Genes:

Genotypes:

FYPO:0007334 - abolished chromatin silencing at centromere outer repeat

Genes:

Genotypes:

FYPO:0007336 - abolished chromatin silencing at silent mating-type cassette

Genes:

Genotypes:

FYPO:0008208 - abolished protein neddylation during vegetative growth

Genes:

Genotypes:

FYPO:0003412 - decreased chromatin silencing at centromere outer repeat

Genes:

Genotypes:

FYPO:0004604 - decreased chromatin silencing at subtelomere

Genes:

Genotypes:

FYPO:0000888 - decreased histone H3-K9 dimethylation at centromere outer repeat during vegetative growth

Genes:

Genotypes:

FYPO:0002355 - decreased histone H3-K9 dimethylation at silent mating-type cassette during vegetative growth

Genes:

Genotypes:

FYPO:0004137 - decreased histone H3-K9 dimethylation at subtelomeric heterochromatin during vegetative growth

Genes:

Genotypes:

FYPO:0003573 - decreased protein localization to heterochromatin at silent mating-type cassette

Genes:

Genotypes:

FYPO:0002386 - decreased protein localization to pericentric heterochromatin at centromere outer repeat region

Genes:

Genotypes:

FYPO:0002387 - decreased protein localization to subtelomeric heterochromatin during vegetative growth

Genes:

Genotypes:

FYPO:0001355 - decreased vegetative cell population growth

Genes:

Genotypes:

FYPO:0002331 - increased histone H3-K4 dimethylation at centromere outer repeat during vegetative growth

Genes:

Genotypes:

FYPO:0001861 - increased minichromosome loss upon segregation during vegetative growth

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FYPO:0000228 - lagging mitotic chromosomes

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FYPO:0000833 - normal protein level during vegetative growth

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Genotypes:

FYPO:0002389 - normal protein localization to heterochromatin at centromere outer repeat

Genes:

Genotypes:

FYPO:0001357 - normal vegetative cell population growth

Genes:

Genotypes: