CCR4 CCR4-NOT core exoribonuclease subunit CCR4 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Gene symbol: CCR4
Gene description: CCR4-NOT core exoribonuclease subunit CCR4
Primary source: FungiDB:YAL021C
Locus tag: YAL021C
See related: SGD:S000000019; AllianceGenome:SGD:S000000019; VEuPathDB:YAL021C
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as: FUN27; NUT21
Summary: Enables 3'-5'-exoribonuclease activity. Involved in regulation of cell cycle phase transition; regulation of cellular macromolecule biosynthetic process; and transcription elongation from RNA polymerase II promoter. Located in P-body. Part of CCR4-NOT core complex and Cdc73/Paf1 complex. Orthologous to several human genes including CNOT6L (CCR4-NOT transcription complex subunit 6 like). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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See CCR4 in Genome Data Viewer

Location:: chromosome: I

Exon count:: 1

Sequence:: Chromosome: I; NC_001133.9 (110846..113359, complement)

Chromosome I - NC_001133.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001133.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Regulation of CLB6 expression by the cytoplasmic deadenylase Ccr4 through its coding and 3' UTR regions.
Title: Regulation of CLB6 expression by the cytoplasmic deadenylase Ccr4 through its coding and 3' UTR regions.
Ccr4-Not complex subunits Ccr4, Caf1, and Not4 are novel proteolysis factors promoting the degradation of ubiquitin-dependent substrates by the 26S proteasome.
Title: Ccr4-Not complex subunits Ccr4, Caf1, and Not4 are novel proteolysis factors promoting the degradation of ubiquitin-dependent substrates by the 26S proteasome.
The eIF4E-binding protein Eap1 has similar but independent roles in cell growth and gene expression with the cytoplasmic deadenylase Ccr4.
Title: The eIF4E-binding protein Eap1 has similar but independent roles in cell growth and gene expression with the cytoplasmic deadenylase Ccr4.
The Ccr4-Not complex regulates TORC1 signaling and mitochondrial metabolism by promoting vacuole V-ATPase activity.
Title: The Ccr4-Not complex regulates TORC1 signaling and mitochondrial metabolism by promoting vacuole V-ATPase activity.
We also found that the relative influence of Xrn1 and Ccr4 is different in the genes encoding ribosomal proteins as compared to the rest of the genome.
Title: The mRNA degradation factor Xrn1 regulates transcription elongation in parallel to Ccr4.
findings demonstrate that Ccr4-Not controls the ubiquitylation and turnover of Rpb1, the largest subunit of RNAPII, during transcription arrest
Title: Ccr4-Not maintains genomic integrity by controlling the ubiquitylation and degradation of arrested RNAPII.
Genome-wide mapping of decay factor-mRNA interactions identifies nutrient-responsive transcripts as targets of the deadenylase Ccr4.
Title: Genome-Wide Mapping of Decay Factor-mRNA Interactions in Yeast Identifies Nutrient-Responsive Transcripts as Targets of the Deadenylase Ccr4.
These results suggest that Ccr4 regulates not only LRG1 mRNA level through poly(A) shortening but also the translation of LRG1 mRNA, and that Pbp1 is involved in the Ccr4-mediated regulation of mRNA stability and translation.
Title: Cytoplasmic deadenylase Ccr4 is required for translational repression of LRG1 mRNA in the stationary phase.
Studies indicate that the Ccr4 (carbon catabolite repressed 4)-Not (negative on TATA-less) complex has been connected to every step of the mRNA lifecycle.
Title: Ccr4-Not is at the core of the eukaryotic gene expression circuitry.
Collectively, these data demonstrate a novel role for Ccr4-Not in Pol I transcriptional regulation that is required for bridging mTORC1 signaling to ribosomal RNA synthesis.
Title: Ccr4-not regulates RNA polymerase I transcription and couples nutrient signaling to the control of ribosomal RNA biogenesis.

Submit: New GeneRIF Correction See all GeneRIFs (28)

Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
enables 3'-5'-RNA exonuclease activity	IDA Inferred from Direct Assay more info	PubMed
enables 3'-5'-RNA exonuclease activity	IGI Inferred from Genetic Interaction more info	PubMed
enables 3'-5'-RNA exonuclease activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables catalytic activity	IEA Inferred from Electronic Annotation more info
enables exonuclease activity	IEA Inferred from Electronic Annotation more info
enables hydrolase activity, acting on ester bonds	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables poly(A)-specific ribonuclease activity	IBA Inferred from Biological aspect of Ancestor more info
enables poly(A)-specific ribonuclease activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in DNA replication	IGI Inferred from Genetic Interaction more info	PubMed
involved_in DNA replication checkpoint signaling	IGI Inferred from Genetic Interaction more info	PubMed
involved_in nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	IDA Inferred from Direct Assay more info	PubMed
involved_in nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nuclear-transcribed mRNA poly(A) tail shortening	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear-transcribed mRNA poly(A) tail shortening	IDA Inferred from Direct Assay more info	PubMed
involved_in nuclear-transcribed mRNA poly(A) tail shortening	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription elongation by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IPI Inferred from Physical Interaction more info	PubMed
involved_in transcription elongation by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed
involved_in transcription elongation by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in traversing start control point of mitotic cell cycle	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of CCR4-NOT complex	IBA Inferred from Biological aspect of Ancestor more info
part_of CCR4-NOT core complex	IDA Inferred from Direct Assay more info	PubMed
part_of Cdc73/Paf1 complex	IPI Inferred from Physical Interaction more info	PubMed
located_in P-body	IDA Inferred from Direct Assay more info	PubMed
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: CCR4-NOT core exoribonuclease subunit CCR4

NP_009381.1

EC 3.1.13.4

Component of the CCR4-NOT transcriptional complex; CCR4-NOT is involved in regulation of gene expression; component of the major cytoplasmic deadenylase, which is involved in mRNA poly(A) tail shortening

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_001133.9 Reference assembly

Range

110846..113359 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001178166.1 → NP_009381.1 TPA: CCR4-NOT core exoribonuclease subunit CCR4 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_009381.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VPJ7, P31384

UniProtKB/TrEMBL

A0A8H4C0J9, A7A0E7, G2W8L1

Conserved Domains (3) summary

COG4886
Location:213 → 474

LRR; Leucine-rich repeat (LRR) protein [Transcription]

COG5239
Location:476 → 837

CCR4; mRNA deadenylase, 3'-5' endonuclease subunit Ccr4 [RNA processing and modification]

sd00031
Location:339 → 358

LRR_1; leucine-rich repeat [structural motif]