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protein coding gene - clr2 (SPAC1B3.17) - SHREC complex subunit Clr2

Gene summary

Standard name
clr2
Systematic ID
SPAC1B3.17
Product
SHREC complex subunit Clr2
Organism
Schizosaccharomyces pombe (fission yeast)
UniProt ID
O13881
ORFeome ID
45/45D05
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome I: 4964493..4966980 forward strand

Annotation

GO biological process

GO:0006325 - chromatin organization

References:

GO:0031508 - pericentric heterochromatin formation

References:

GO:0000183 - rDNA heterochromatin formation

References:

GO:0030466 - silent mating-type cassette heterochromatin formation

References:

GO:0031509 - subtelomeric heterochromatin formation

References:

GO cellular component

GO:0061638 - CENP-A containing chromatin

References:

GO:0031934 - mating-type region heterochromatin

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GO:0005634 - nucleus

References:

GO:0005721 - pericentric heterochromatin

References:

GO:0033553 - rDNA heterochromatin

References:

GO:0070824 - SHREC complex

References:

GO:0140720 - subtelomeric heterochromatin

References:

Modification

MOD:00046 - O-phospho-L-serine

References:

Multi-locus phenotype

FYPO:0002336 - normal chromatin silencing at silent mating-type cassette

References:

Genotypes:

Qualitative gene expression

PomGeneEx:0000012 - RNA level decreased

References:

Quantitative gene expression

PBO:0011963 - RNA level

References:

Single locus phenotype

FYPO:0003659 - abnormal mating type switching resulting in duplication or deletion in mating-type region

References:

Genotypes:

FYPO:0006010 - abolished shmoo contact with partner cell

References:

Genotypes:

FYPO:0003094 - decreased centromeric outer repeat transcript level

References:

Genotypes:

FYPO:0002834 - decreased chromatin silencing at centromere

References:

Genotypes:

FYPO:0003217 - decreased chromatin silencing at centromere central core

References:

Genotypes:

FYPO:0003411 - decreased chromatin silencing at centromere inner repeat

References:

Genotypes:

FYPO:0003412 - decreased chromatin silencing at centromere outer repeat

References:

Genotypes:

FYPO:0003216 - decreased chromatin silencing at rDNA

References:

Genotypes:

FYPO:0002827 - decreased chromatin silencing at silent mating-type cassette

References:

Genotypes:

FYPO:0004604 - decreased chromatin silencing at subtelomere

References:

Genotypes:

FYPO:0003352 - decreased DNA double-strand break formation at mating-type locus

References:

Genotypes:

FYPO:0000708 - decreased mating efficiency

References:

Genotypes:

FYPO:0000470 - decreased mating type switching

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Genotypes:

FYPO:0000584 - decreased sporulation frequency

References:

Genotypes:

FYPO:0006012 - elongated cell with abolished shmoo formation

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Genotypes:

FYPO:0005261 - increased cell population growth on galactose carbon source

References:

Genotypes:

FYPO:0009094 - increased cell population growth on lysine and proline nitrogen source

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Genotypes:

FYPO:0009072 - increased cell population growth on lysine nitrogen source

References:

Genotypes:

FYPO:0009028 - increased cell population growth on proline nitrogen source

References:

Genotypes:

FYPO:0009074 - increased cell population growth on serine nitrogen source

References:

Genotypes:

FYPO:0000636 - increased cell population growth rate

References:

Genotypes:

FYPO:0002836 - increased centromeric outer repeat transcript-derived siRNA level

References:

Genotypes:

FYPO:0000966 - increased histone H3-K14 acetylation at centromere outer repeat during vegetative growth

References:

Genotypes:

FYPO:0006681 - increased histone H3-K9 acetylation at centromere inner repeat during vegetative growth

References:

Genotypes:

FYPO:0000487 - increased meiotic recombination

References:

Genotypes:

FYPO:0006300 - increased protein localization to heterochromatin at centromere inner repeat

References:

Genotypes:

FYPO:0000825 - increased RNA level during vegetative growth

References:

Genotypes:

FYPO:0006518 - loss of viability in G0

References:

Genotypes:

FYPO:0000245 - loss of viability in stationary phase

References:

Genotypes:

FYPO:0002141 - normal cell population growth at low temperature

References:

Genotypes:

FYPO:0002567 - normal centromeric outer repeat transcript level

References:

Genotypes:

FYPO:0007553 - normal G1 to G0 transition

References:

Genotypes:

FYPO:0001164 - normal growth on glucose carbon source

References:

Genotypes:

FYPO:0007529 - normal histone H3-K9 dimethylation at heterochromatin island during vegetative growth

References:

Genotypes:

FYPO:0001839 - normal minichromosome loss

References:

Genotypes:

FYPO:0000833 - normal protein level during vegetative growth

References:

Genotypes:

FYPO:0004910 - normal punctate nuclear protein localization

References:

Genotypes:

FYPO:0002687 - normal telomere length during vegetative growth

References:

Genotypes:

FYPO:0009030 - resistance to amitrole

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Genotypes:

FYPO:0009032 - resistance to bortezomib

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Genotypes:

FYPO:0000073 - resistance to caffeine

References:

Genotypes:

FYPO:0000764 - resistance to cycloheximide

References:

Genotypes:

FYPO:0009038 - resistance to egtazic acid

References:

Genotypes:

FYPO:0001453 - resistance to ethanol

References:

Genotypes:

FYPO:0001103 - resistance to hydrogen peroxide

References:

Genotypes:

FYPO:0009070 - resistance to itraconazole

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Genotypes:

FYPO:0001583 - resistance to lithium

References:

Genotypes:

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

References:

Genotypes:

FYPO:0009087 - resistance to magnesium chloride and sodium dodecyl sulfate

References:

Genotypes:

FYPO:0003383 - resistance to tert-butyl hydroperoxide

References:

Genotypes:

FYPO:0005193 - resistance to torin1

References:

Genotypes:

FYPO:0000830 - resistance to vanadate

References:

Genotypes:

FYPO:0000096 - sensitive to cadmium

References:

Genotypes:

FYPO:0009080 - sensitive to calcofluor and sodium dodecyl sulfate

References:

Genotypes:

FYPO:0000799 - sensitive to diamide

References:

Genotypes:

FYPO:0000089 - sensitive to methyl methanesulfonate

References:

Genotypes:

FYPO:0009082 - sensitive to potassium chloride and methyl methanesulfonate

References:

Genotypes:

FYPO:0009064 - sensitive to X-rays and rapamycin 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:0011064 - conserved in fungi

PBO:0011063 - conserved in fungi only

PBO:0000055 - no apparent S. cerevisiae ortholog

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

Protein features

IDNameInterPro nameDB name
PF10383Clr2Tscrpt-silencing_Clr2_CPfam
PF16761Clr2_transilClr2_NPfam
PTHR38046Clr2PANTHER
mobidb-lite-Disorderdisorder_predictionMobiDB-Disorder
mobidb-lite-Polyampholytedisorder_predictionMobiDB-Polyampholyte

Orthologs

References / Literature

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: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:19443688 - Diverse roles of HP1 proteins in heterochromatin assembly and functions in fission yeast.
Fischer T et al. Proc Natl Acad Sci U S A 2009 Jun 02;106(22):8998-9003
PMID:24475199 - Silencing motifs in the Clr2 protein from fission yeast, Schizosaccharomyces pombe.
Steinhauf D et al. PLoS One 2014;9(1):e86948
PMID:25245948 - Tls1 regulates splicing of shelterin components to control telomeric heterochromatin assembly and telomere length.
Wang J et al. Nucleic Acids Res 2014 Oct;42(18):11419-32
PMID:18030666 - Mutations in deoxyribonucleotide biosynthesis pathway cause spreading of silencing across heterochromatic barriers at the mating-type region of the fission yeast.
Singh G et al. Yeast 2008 Feb;25(2):117-28
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:8001791 - Three additional linkage groups that repress transcription and meiotic recombination in the mating-type region of Schizosaccharomyces pombe.
Thon G et al. Genetics 1994 Sep;138(1):29-38
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:19111658 - HP1 proteins form distinct complexes and mediate heterochromatic gene silencing by nonoverlapping mechanisms.
Motamedi MR et al. Mol Cell 2008 Dec 26;32(6):778-90
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
PMID:30110338 - The binding of Chp2's chromodomain to methylated H3K9 is essential for Chp2's role in heterochromatin assembly in fission yeast.
Maksimov V et al. PLoS One 2018;13(8):e0201101
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:23950735 - Global analysis of fission yeast mating genes reveals new autophagy factors.
Sun LL et al. PLoS Genet 2013;9(8):e1003715
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:27105116 - SHREC Silences Heterochromatin via Distinct Remodeling and Deacetylation Modules.
Job G et al. Mol Cell 2016 Apr 21;62(2):207-221
PMID:29852001 - New insights into donor directionality of mating-type switching in Schizosaccharomyces pombe.
Maki T et al. PLoS Genet 2018 May;14(5):e1007424
PMID:27984744 - Survival in Quiescence Requires the Euchromatic Deployment of Clr4/SUV39H by Argonaute-Associated Small RNAs.
Joh RI et al. Mol Cell 2016 Dec 15;64(6):1088-1101
PMID:28228545 - Ablation of RNA interference and retrotransposons accompany acquisition and evolution of transposases to heterochromatin protein CENPB.
Upadhyay U et al. Mol Biol Cell 2017 Apr 15;28(8):1132-1146
PMID:18615848 - Role of heterochromatin in suppressing subtelomeric recombination in fission yeast.
Bisht KK et al. Yeast 2008 Aug;25(8):537-48
PMID:32101745 - Dense Transposon Integration Reveals Essential Cleavage and Polyadenylation Factors Promote Heterochromatin Formation.
Lee SY et al. Cell Rep 2020 Feb 25;30(8):2686-2698.e8
PMID:29618061 - Histone deacetylation promotes transcriptional silencing at facultative heterochromatin.
Watts BR et al. Nucleic Acids Res 2018 Jun 20;46(11):5426-5440
PMID:31278118 - Cohesin Impedes Heterochromatin Assembly in Fission Yeast Cells Lacking Pds5.
Folco HD et al. Genetics 2019 Sep;213(1):127-141
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:32269268 - Abo1 is required for the H3K9me2 to H3K9me3 transition in heterochromatin.
Dong W et al. Sci Rep 2020 Apr 08;10(1):6055
PMID:34250083 - Barcode sequencing and a high-throughput assay for chronological lifespan uncover ageing-associated genes in fission yeast.
Romila CA et al. Microb Cell 2021 Jul 05;8(7):146-160
PMID:8937982 - Mutations in the fission yeast silencing factors clr4+ and rik1+ disrupt the localisation of the chromo domain protein Swi6p and impair centromere function.
Ekwall K et al. J Cell Sci 1996 Nov;109 ( Pt 11):2637-48
PMID:23050226 - A genetic screen to discover pathways affecting cohesin function in Schizosaccharomyces pombe identifies chromatin effectors.
Chen Z et al. G3 (Bethesda) 2012 Oct;2(10):1161-8
PMID:19164572 - Msc1 links dynamic Swi6/HP1 binding to cell fate determination.
Lawrence RJ et al. Proc Natl Acad Sci U S A 2009 Jan 27;106(4):1163-8
PMID:24013500 - A conserved ncRNA-binding protein recruits silencing factors to heterochromatin through an RNAi-independent mechanism.
Marina DB et al. Genes Dev 2013 Sep 01;27(17):1851-6
PMID:8138176 - Mutations in rik1, clr2, clr3 and clr4 genes asymmetrically derepress the silent mating-type loci in fission yeast.
Ekwall K et al. Genetics 1994 Jan;136(1):53-64
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:28410370 - A systematic screen for morphological abnormalities during fission yeast sexual reproduction identifies a mechanism of actin aster formation for cell fusion.
Dudin O et al. PLoS Genet 2017 Apr;13(4):e1006721
PMID:17289569 - SHREC, an effector complex for heterochromatic transcriptional silencing.
Sugiyama T et al. Cell 2007 Feb 09;128(3):491-504
PMID:25375137 - Systematic analysis of the role of RNA-binding proteins in the regulation of RNA stability.
Hasan A et al. PLoS Genet 2014 Nov;10(11):e1004684
PMID:12773576 - A novel jmjC domain protein modulates heterochromatization in fission yeast.
Ayoub N et al. Mol Cell Biol 2003 Jun;23(12):4356-70
PMID:22144463 - RNA elimination machinery targeting meiotic mRNAs promotes facultative heterochromatin formation.
Zofall M et al. Science 2012 Jan 06;335(6064):96-100
PMID:25452419 - Parallel profiling of fission yeast deletion mutants for proliferation and for lifespan during long-term quiescence.
Sideri T et al. G3 (Bethesda) 2014 Dec 01;5(1):145-55