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protein coding gene - rrp46 (SPBC115.01c) - exosome subunit Rrp46

Gene summary

Standard name
rrp46
Systematic ID
SPBC115.01c
Product
exosome subunit Rrp46
Organism
Schizosaccharomyces pombe (fission yeast)
UniProt ID
O42894
ORFeome ID
09/09D08
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome II: 639332..641343 forward strand

Annotation

Disease association

MONDO:0859200 - cerebellar ataxia, brain abnormalities, and cardiac conduction defects

References:

MONDO:0859215 - dystonia, early-onset, and/or spastic paraplegia

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GO biological process

GO:0000467 - exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)

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GO:0070651 - nonfunctional rRNA decay

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GO:0071028 - nuclear mRNA surveillance

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GO:0071042 - nuclear polyadenylation-dependent mRNA catabolic process

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GO:0071035 - nuclear polyadenylation-dependent rRNA catabolic process

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GO:0070478 - nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay

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GO:0070481 - nuclear-transcribed mRNA catabolic process, non-stop decay

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GO:0071051 - poly(A)-dependent snoRNA 3'-end processing

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GO:0071038 - TRAMP-dependent tRNA surveillance pathway

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GO:0034475 - U4 snRNA 3'-end processing

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GO cellular component

GO:0000177 - cytoplasmic exosome (RNase complex)

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GO:0005829 - cytosol

References:

GO:0000178 - exosome (RNase complex)

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GO:0000176 - nuclear exosome (RNase complex)

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GO:0005730 - nucleolus

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GO:0005634 - nucleus

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GO molecular function

GO:0000175 - 3'-5'-RNA exonuclease activity

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GO:0003723 - RNA binding

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Modification

MOD:00046 - O-phospho-L-serine

References:

MOD:01148 - ubiquitinylated lysine

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Qualitative gene expression

PomGeneEx:0000012 - RNA level decreased

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Quantitative gene expression

PBO:0006310 - protein level

References:

PBO:0011963 - RNA level

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Single locus phenotype

FYPO:0001110 - inviable after spore germination, multiple cell divisions, normal morphology

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Genotypes:

FYPO:0002379 - inviable after spore germination, without cell division, with elongated germ tube

References:

Genotypes:

FYPO:0002151 - inviable spore

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Genotypes:

FYPO:0002061 - inviable vegetative cell population

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Genotypes:

Taxonomic conservation

PBO:0011065 - conserved in eukaryotes

PBO:0011071 - conserved in eukaryotes only

PBO:0011064 - conserved in fungi

PBO:0011069 - conserved in metazoa

PBO:0011070 - conserved in vertebrates

PBO:0006222 - predominantly single copy (one to one)

Protein features

IDNameInterPro nameDB name
PF01138RNase_PHExoRNase_PH_dom1Pfam
G3DSA:3.30.230.70PNPase/RNase_PH_dom_sfCATH-Gene3D
SSF54211Ribosomal_Su5_D2-typ_SFSUPERFAMILY
PTHR11953RNase_PHPANTHER
mobidb-lite-Disorderdisorder_predictionMobiDB-Disorder
mobidb-lite-Polyampholytedisorder_predictionMobiDB-Polyampholyte

Orthologs

References / Literature

PMID:23755256 - The Sm complex is required for the processing of non-coding RNAs by the exosome.
Coy S et al. PLoS One 2013;8(6):e65606
PMID:33313903 - Ribosome profiling reveals ribosome stalling on tryptophan codons and ribosome queuing upon oxidative stress in fission yeast.
Rubio A et al. Nucleic Acids Res 2021 Jan 11;49(1):383-399
PMID:37970674 - SUMOylation regulates Lem2 function in centromere clustering and silencing.
Strachan J et al. J Cell Sci 2023 Dec 01;136(23)
PMID:20473289 - Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe.
Kim DU et al. Nat Biotechnol 2010 Jun;28(6):617-623
PMID:30321377 - Proteomic profiling and functional characterization of post-translational modifications of the fission yeast RNA exosome.
Telekawa C et al. Nucleic Acids Res 2018 Nov 30;46(21):11169-11183
PMID:16823372 - ORFeome cloning and global analysis of protein localization in the fission yeast Schizosaccharomyces pombe.
Matsuyama A et al. Nat Biotechnol 2006 Jul;24(7):841-7
PMID:29906447 - Helicase-Dependent RNA Decay Illuminated by a Cryo-EM Structure of a Human Nuclear RNA Exosome-MTR4 Complex.
Weick EM et al. Cell 2018 Jun 14;173(7):1663-1677.e21
PB_REF:0000003 - Disease Association Curation
GO_REF:0000033 - Annotation inferences using phylogenetic trees
PMID:16537923 - Sterol regulatory element binding protein is a principal regulator of anaerobic gene expression in fission yeast.
Todd BL et al. Mol Cell Biol 2006 Apr;26(7):2817-31
PMID:23697806 - A genome-wide resource of cell cycle and cell shape genes of fission yeast.
Hayles J et al. Open Biol 2013 May 22;3(5):130053
PMID:23503588 - The exoribonuclease Dis3L2 defines a novel eukaryotic RNA degradation pathway.
Malecki M et al. EMBO J 2013 Jul 03;32(13):1842-54
PMID:24763107 - Absolute proteome and phosphoproteome dynamics during the cell cycle of Schizosaccharomyces pombe (Fission Yeast).
Carpy A et al. Mol Cell Proteomics 2014 Aug;13(8):1925-36
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
PMID:23101633 - Quantitative analysis of fission yeast transcriptomes and proteomes in proliferating and quiescent cells.
Marguerat S et al. Cell 2012 Oct 26;151(3):671-83
PMID:30726745 - Fission Yeast NDR/LATS Kinase Orb6 Regulates Exocytosis via Phosphorylation of the Exocyst Complex.
Tay YD et al. Cell Rep 2019 Feb 05;26(6):1654-1667.e7
PMID:33823663 - A TOR (target of rapamycin) and nutritional phosphoproteome of fission yeast reveals novel targets in networks conserved in humans.
Halova L et al. Open Biol 2021 Apr;11(4):200405
GO_REF:0000024 - Manual transfer of experimentally-verified manual GO annotation data to orthologs by curator judgment of sequence similarity.
PMID:21712547 - Mitotic substrates of the kinase aurora with roles in chromatin regulation identified through quantitative phosphoproteomics of fission yeast.
Koch A et al. Sci Signal 2011 Jun 28;4(179):rs6
PMID:24713849 - Post-transcriptional regulation of meiotic genes by a nuclear RNA silencing complex.
Egan ED et al. RNA 2014 Jun;20(6):867-81
PB_REF:0000006 - Disease associations from Monarch via human-pombe orthologs