RRP6 exosome nuclease subunit RRP6 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: RRP6
Official Full Name: exosome nuclease subunit RRP6
Primary source: SGD:S000005527
Locus tag: YOR001W
See related: AllianceGenome:SGD:S000005527; FungiDB:YOR001W; VEuPathDB:YOR001W
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Summary: Enables 3'-5'-RNA exonuclease activity and rRNA primary transcript binding activity. Involved in RNA metabolic process; post-transcriptional tethering of RNA polymerase II gene DNA at nuclear periphery; and regulation of telomere maintenance. Located in nucleolus. Part of nuclear exosome (RNase complex). Orthologous to human EXOSC10 (exosome component 10). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See RRP6 in Genome Data Viewer

Location:: chromosome: XV

Exon count:: 1

Sequence:: Chromosome: XV; NC_001147.6 (326832..329033)

Chromosome XV - NC_001147.6 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001147.6

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Tho2 is critical for the recruitment of Rrp6 to chromatin in response to perturbed mRNP biogenesis.
Title: Tho2 is critical for the recruitment of Rrp6 to chromatin in response to perturbed mRNP biogenesis.
Substrate discrimination and quality control require each catalytic activity of TRAMP and the nuclear RNA exosome.
Title: Substrate discrimination and quality control require each catalytic activity of TRAMP and the nuclear RNA exosome.
Rrp6 Moonlights in an RNA Exosome-Independent Manner to Promote Cell Survival and Gene Expression during Stress.
Title: Rrp6 Moonlights in an RNA Exosome-Independent Manner to Promote Cell Survival and Gene Expression during Stress.
Here, we investigated the interplay of exosome-associated 3'-5' exonucleases DIS3 and RRP6 in rRNA processing and by-product elimination in human cells
Title: Elimination of 01/A'-A0 pre-rRNA processing by-product in human cells involves cooperative action of two nuclear exosome-associated nucleases: RRP6 and DIS3.
3' phosphate RNA is not a substrate for Rrp6 but is readily degraded by Rrp44 in the nuclear exosome.
Title: Nuclear RNA Exosome at 3.1 Å Reveals Substrate Specificities, RNA Paths, and Allosteric Inhibition of Rrp44/Dis3.
Data suggest that, in nuclear exosomes, karyopherins are bound to the Rrp6 complex; Srp1, Kap95, and Sxm1 appear to be the most important karyopherins for nuclear import of Rrp6. (Rrp6 = exosome nuclease subunit RRP6; Srp1 = karyopherin alpha kap60; Kap95 = karyopherin beta Kap95; Sxm1 = karyopherin Kap108)
Title: Identification of karyopherins involved in the nuclear import of RNA exosome subunit Rrp6 in Saccharomyces cerevisiae.
Rrp41 mutations blocked substrate passage through the channel to Rrp44 only for cytoplasmic mRNAs, supporting the predicted widening of the lumen in the Rrp6-associated.Many exosome substrates exhibited clear preferences for a specific path to Rrp44. Both threading and direct access routes involve the RNA helicase Mtr4Rrp41 mutations blocked substrate passage through the channel to Rrp44 only for cytoplasmic mRNAs, suppor
Title: Transcriptome-wide analysis of alternative routes for RNA substrates into the exosome complex.
Rrp6: Integrated roles in nuclear RNA metabolism and transcription termination
Title: Rrp6: Integrated roles in nuclear RNA metabolism and transcription termination.
The data raise the intriguing possibility that Nab3 and Nrd1 can function independently to recruit Rrp6 to ncRNA targets, providing combinatorial flexibility in RNA processing.
Title: Nab3 facilitates the function of the TRAMP complex in RNA processing via recruitment of Rrp6 independent of Nrd1.
The exosome-binding factors Rrp6 and Rrp47 form a composite surface for recruiting the Mtr4 helicase.
Title: The exosome-binding factors Rrp6 and Rrp47 form a composite surface for recruiting the Mtr4 helicase.

Submit: New GeneRIF Correction See all GeneRIFs (33)

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	IBA Inferred from Biological aspect of Ancestor more info
enables 3'-5'-RNA exonuclease activity	IDA Inferred from Direct Assay more info	PubMed
enables 3'-5'-RNA exonuclease activity	IEA Inferred from Electronic Annotation more info
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables exonuclease activity	IEA Inferred from Electronic Annotation more info
enables nucleic acid binding	IEA Inferred from Electronic Annotation more info
enables nucleotide binding	IEA Inferred from Electronic Annotation more info
enables rRNA primary transcript binding	IDA Inferred from Direct Assay more info	PubMed
enables single-stranded RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables zinc ion binding	RCA inferred from Reviewed Computational Analysis more info	PubMed

Process	Evidence Code	Pubs
involved_in TRAMP-dependent tRNA surveillance pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in TRAMP-dependent tRNA surveillance pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in TRAMP-dependent tRNA surveillance pathway	IGI Inferred from Genetic Interaction more info	PubMed
involved_in U1 snRNA 3'-end processing	IGI Inferred from Genetic Interaction more info	PubMed
involved_in U1 snRNA 3'-end processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in U4 snRNA 3'-end processing	IGI Inferred from Genetic Interaction more info	PubMed
involved_in U4 snRNA 3'-end processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in U5 snRNA 3'-end processing	IGI Inferred from Genetic Interaction more info	PubMed
involved_in U5 snRNA 3'-end processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	IBA Inferred from Biological aspect of Ancestor more info
involved_in exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	IEA Inferred from Electronic Annotation more info
involved_in exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in histone mRNA catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in histone mRNA catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nuclear mRNA surveillance	IGI Inferred from Genetic Interaction more info	PubMed
involved_in nuclear mRNA surveillance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nuclear polyadenylation-dependent CUT catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear polyadenylation-dependent CUT catabolic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in nuclear polyadenylation-dependent CUT catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nuclear polyadenylation-dependent antisense transcript catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear polyadenylation-dependent antisense transcript catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nuclear polyadenylation-dependent mRNA catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nuclear polyadenylation-dependent rRNA catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear polyadenylation-dependent rRNA catabolic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in nuclear polyadenylation-dependent rRNA catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nuclear polyadenylation-dependent snRNA catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear polyadenylation-dependent snRNA catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nuclear polyadenylation-dependent snoRNA catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear polyadenylation-dependent snoRNA catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in poly(A)-dependent snoRNA 3'-end processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in poly(A)-dependent snoRNA 3'-end processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in post-transcriptional tethering of RNA polymerase II gene DNA at nuclear periphery	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in rRNA processing	IEA Inferred from Electronic Annotation more info
involved_in regulation of telomere maintenance	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of exosome (RNase complex)	IEA Inferred from Electronic Annotation more info
part_of nuclear exosome (RNase complex)	IBA Inferred from Biological aspect of Ancestor more info
part_of nuclear exosome (RNase complex)	IDA Inferred from Direct Assay more info	PubMed
part_of nuclear exosome (RNase complex)	IEA Inferred from Electronic Annotation more info
is_active_in nucleolus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleolus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleolus	IEA Inferred from Electronic Annotation more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: exosome nuclease subunit RRP6

NP_014643.1

Nuclear exosome exonuclease component; has 3'-5' exonuclease activity that is regulated by Lrp1p; involved in RNA processing, maturation, surveillance, degradation, tethering, and export; role in sn/snoRNAs precursor degradation; forms a stable heterodimer with Lrp1p; has similarity to E. coli RNase D and to human PM-Sc1 100 (EXOSC10); mutant displays reduced transcription elongation in the G-less-based

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_001147.6 Reference assembly

Range

326832..329033

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001183420.1 → NP_014643.1 TPA: exosome nuclease subunit RRP6 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_014643.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6W267, Q12149, Q6B280

UniProtKB/TrEMBL

A6ZNK6, B3LJ56, B5VRQ3, C7GJV2, C8ZHW4

Conserved Domains (3) summary

cd06147
Location:209 → 399

Rrp6p_like_exo; DEDDy 3'-5' exonuclease domain of yeast Rrp6p, human polymyositis/scleroderma autoantigen 100kDa, and similar proteins

COG0349
Location:216 → 622

Rnd; Ribonuclease D [Translation, ribosomal structure and biogenesis]

pfam08066
Location:17 → 100

PMC2NT; PMC2NT (NUC016) domain