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protein coding gene - nrl1 (SPBC20F10.05) - RNAi-mediated silencing protein, human NRDE2 ortholog Nrl1

Gene summary

Standard name
nrl1
Systematic ID
SPBC20F10.05
Product
RNAi-mediated silencing protein, human NRDE2 ortholog Nrl1
Organism
Schizosaccharomyces pombe (fission yeast)
UniProt ID
O42975
ORFeome ID
47/47G01
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome II: 3290886..3294106 forward strand

Annotation

GO biological process

GO:1902369 - negative regulation of RNA catabolic process

References:

GO:0071030 - nuclear mRNA surveillance of spliceosomal pre-mRNA splicing

References:

GO:1902795 - siRNA-mediated facultative heterochromatin formation

References:

GO cellular component

GO:0005634 - nucleus

References:

GO:0005681 - spliceosomal complex

References:

Modification

MOD:00046 - O-phospho-L-serine

References:

MOD:00047 - O-phospho-L-threonine

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MOD:00696 - phosphorylated residue

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Multi-locus phenotype

FYPO:0003231 - decreased histone H3-K9 methylation at heterochromatin domain during vegetative growth

References:

Genotypes:

FYPO:0003103 - decreased mRNA-derived small RNA level

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Genotypes:

FYPO:0003236 - decreased transposable element-derived small RNA level

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Genotypes:

FYPO:0001355 - decreased vegetative cell population growth

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Genotypes:

Qualitative gene expression

PomGeneEx:0000012 - RNA level decreased

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Quantitative gene expression

PBO:0011963 - RNA level

References:

Single locus phenotype

FYPO:0000427 - abnormal G1 to G0 transition

References:

Genotypes:

FYPO:0003231 - decreased histone H3-K9 methylation at heterochromatin domain during vegetative growth

References:

Genotypes:

FYPO:0003029 - decreased mRNA splicing, via spliceosome

References:

Genotypes:

FYPO:0001645 - decreased protein-protein interaction

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Genotypes:

FYPO:0001117 - decreased RNA level during vegetative growth

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Genotypes:

FYPO:0004205 - decreased siRNA level

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Genotypes:

FYPO:0008113 - increased intron retention

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Genotypes:

FYPO:0000825 - increased RNA level during vegetative growth

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Genotypes:

FYPO:0006518 - loss of viability in G0

References:

Genotypes:

FYPO:0003233 - normal histone H3-K9 methylation at heterochromatin island during vegetative growth

References:

Genotypes:

FYPO:0000703 - normal protein-protein interaction

References:

Genotypes:

FYPO:0009032 - resistance to bortezomib

References:

Genotypes:

FYPO:0000763 - resistance to cadmium

References:

Genotypes:

FYPO:0000764 - resistance to cycloheximide

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Genotypes:

FYPO:0009038 - resistance to egtazic acid

References:

Genotypes:

FYPO:0001453 - resistance to ethanol

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Genotypes:

FYPO:0009085 - resistance to lithium chloride and sodium dodecyl sulfate

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Genotypes:

FYPO:0000725 - resistance to methyl methanesulfonate

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Genotypes:

FYPO:0009043 - resistance to potassium chloride and sodium dodecyl sulfate

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Genotypes:

FYPO:0005266 - resistance to sodium dodecyl sulfate

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Genotypes:

FYPO:0003383 - resistance to tert-butyl hydroperoxide

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Genotypes:

FYPO:0001034 - resistance to tunicamycin

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Genotypes:

FYPO:0007808 - resistance to valproic acid

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Genotypes:

FYPO:0000095 - sensitive to bleomycin

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Genotypes:

FYPO:0000096 - sensitive to cadmium

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Genotypes:

FYPO:0000799 - sensitive to diamide

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Genotypes:

FYPO:0007931 - sensitive to egtazic acid

References:

Genotypes:

FYPO:0000785 - sensitive to formamide

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Genotypes:

FYPO:0000088 - sensitive to hydroxyurea

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Genotypes:

FYPO:0009084 - sensitive to lithium chloride and methyl methanesulfonate

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Genotypes:

FYPO:0009088 - sensitive to magnesium chloride and sodium dodecyl sulfate

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Genotypes:

FYPO:0000089 - sensitive to methyl methanesulfonate

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Genotypes:

FYPO:0009082 - sensitive to potassium chloride and methyl methanesulfonate

References:

Genotypes:

FYPO:0007938 - sensitive to tea tree oil

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Genotypes:

FYPO:0000268 - sensitive to UV during vegetative growth

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Genotypes:

FYPO:0009063 - sensitive to X-rays during vegetative growth

References:

Genotypes:

FYPO:0002060 - viable vegetative cell population

References:

Genotypes:

FYPO:0002177 - viable vegetative cell with normal cell morphology

References:

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:0000055 - no apparent S. cerevisiae ortholog

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

Protein features

IDNameInterPro nameDB name
PF08424NRDE-2NRDE-2PFAM
G3DSA:1.25.40.10Tetratricopeptide repeat domainTPR-like_helical_dom_sfGENE3D
PTHR13471TETRATRICOPEPTIDE-LIKE HELICALNRDE-2PANTHER
mobidb-lite-Disorderdisorder_predictionMOBIDB-Disorder
mobidb-lite-Polardisorder_predictionMOBIDB-Polar
mobidb-lite-Positive-Polyelectrolytedisorder_predictionMOBIDB-Positive-Polyelectrolyte

Orthologs

References / Literature

PMID:28357272 - A central role for TOR signalling in a yeast model for juvenile CLN3 disease.
Bond ME et al. Microb Cell 2015 Nov 11;2(12):466-480
PMID:19547744 - Evolution of phosphoregulation: comparison of phosphorylation patterns across yeast species.
Beltrao P et al. PLoS Biol 2009 Jun 16;7(6):e1000134
PMID:39367033 - Quantitative proteomics and phosphoproteomics profiling of meiotic divisions in the fission yeast Schizosaccharomyces pombe.
Sivakova B et al. Sci Rep 2024 Oct 04;14(1):23105
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:26682798 - The spliceosome-associated protein Nrl1 suppresses homologous recombination-dependent R-loop formation in fission yeast.
Aronica L et al. Nucleic Acids Res 2016 Feb 29;44(4):1703-17
PMID:20537132 - Global fitness profiling of fission yeast deletion strains by barcode sequencing.
Han TX et al. Genome Biol 2010;11(6):R60
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
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: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:18257517 - Phosphoproteome analysis of fission yeast.
Wilson-Grady JT et al. J Proteome Res 2008 Mar;7(3):1088-97
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:24957674 - Yeast X-chromosome-associated protein 5 (Xap5) functions with H2A.Z to suppress aberrant transcripts.
Anver S et al. EMBO Rep 2014 Aug;15(8):894-902
PMID:37787768 - Broad functional profiling of fission yeast proteins using phenomics and machine learning.
Rodríguez-López M et al. Elife 2023 Oct 03;12
PMID:24210919 - Mtr4-like protein coordinates nuclear RNA processing for heterochromatin assembly and for telomere maintenance.
Lee NN et al. Cell 2013 Nov 21;155(5):1061-74
PMID:36361590 - Defining the Functional Interactome of Spliceosome-Associated G-Patch Protein Gpl1 in the Fission Yeast Schizosaccharomyces pombe .
Selicky T et al. Int J Mol Sci 2022 Oct 24;23(21)
PMID:22681890 - Hierarchical modularity and the evolution of genetic interactomes across species.
Ryan CJ et al. Mol Cell 2012 Jun 08;46(5):691-704
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:18684775 - A genome-wide screen of genes involved in cadmium tolerance in Schizosaccharomyces pombe.
Kennedy PJ et al. Toxicol Sci 2008 Nov;106(1):124-39
PMID:26771498 - A Proteome-wide Fission Yeast Interactome Reveals Network Evolution Principles from Yeasts to Human.
Vo TV et al. Cell 2016 Jan 14;164(1-2):310-323
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
PMID:36793083 - The SAGA histone acetyltransferase module targets SMC5/6 to specific genes.
Mahrik L et al. Epigenetics Chromatin 2023 Feb 16;16(1):6
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
GO_REF:0000033 - Annotation inferences using phylogenetic trees
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
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:25795664 - Genetic Interaction Landscape Reveals Critical Requirements for Schizosaccharomyces pombe Brc1 in DNA Damage Response Mutants.
Sánchez A et al. G3 (Bethesda) 2015 Mar 19;5(5):953-62
PMID:26631744 - Conserved factor Dhp1/Rat1/Xrn2 triggers premature transcription termination and nucleates heterochromatin to promote gene silencing.
Chalamcharla VR et al. Proc Natl Acad Sci U S A 2015 Dec 22;112(51):15548-55
PMID:31219728 - Identification of proteins associated with splicing factors Ntr1, Ntr2, Brr2 and Gpl1 in the fission yeast Schizosaccharomyces pombe .
Cipakova I et al. Cell Cycle 2019 Jul;18(14):1532-1536
PMID:33260998 - High-Throughput Flow Cytometry Combined with Genetic Analysis Brings New Insights into the Understanding of Chromatin Regulation of Cellular Quiescence.
Zahedi Y et al. Int J Mol Sci 2020 Nov 27;21(23)
PMID:34209806 - Identification of Nrl1 Domains Responsible for Interactions with RNA-Processing Factors and Regulation of Nrl1 Function by Phosphorylation.
Mikolaskova B et al. Int J Mol Sci 2021 Jun 29;22(13)
PMID:32435206 - Posttranslational Arginylation Enzyme Arginyltransferase1 Shows Genetic Interactions With Specific Cellular Pathways in vivo .
Wiley DJ et al. Front Physiol 2020;11:427
PMID:25989903 - The fission yeast MTREC complex targets CUTs and unspliced pre-mRNAs to the nuclear exosome.
Zhou Y et al. Nat Commun 2015 May 20;6:7050
PMID:25720772 - Quantitative phosphoproteomics reveals pathways for coordination of cell growth and division by the conserved fission yeast kinase pom1.
Kettenbach AN et al. Mol Cell Proteomics 2015 May;14(5):1275-87