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protein coding gene - ssn6 (SPBC23E6.09) - transcriptional corepressor Ssn6

Gene summary

Standard name
ssn6
Systematic ID
SPBC23E6.09
Product
transcriptional corepressor Ssn6
Organism
Schizosaccharomyces pombe (fission yeast)
UniProt ID
O60184
ORFeome ID
30/30D01
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome II: 3862300..3867052 forward strand

Annotation

Disease association

MONDO:0010465 - Kabuki syndrome 2

References:

MONDO:0032790 - neurodevelopmental disorder with coarse facies and mild distal skeletal abnormalities

References:

GO biological process

GO:0000122 - negative regulation of transcription by RNA polymerase II

References:

GO cellular component

GO:0000785 - chromatin

References:

GO:0160051 - Cyc8(Ssn6)-Tup1 general repressor complex

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GO:0005634 - nucleus

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GO molecular function

GO:0031490 - chromatin DNA binding

References:

GO:0000978 - RNA polymerase II cis-regulatory region sequence-specific DNA binding

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GO:0003714 - transcription corepressor activity

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Modification

MOD:00046 - O-phospho-L-serine

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MOD:00047 - O-phospho-L-threonine

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MOD:00048 - O4'-phospho-L-tyrosine

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MOD:00696 - phosphorylated residue

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MOD:01149 - sumoylated lysine

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MOD:01148 - ubiquitinylated lysine

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Protein features

PBO:0111755 - TPR repeat protein

Qualitative gene expression

PomGeneEx:0000012 - RNA level decreased

References:

PomGeneEx:0000029 - RNA level decreased during Core Environmental Stress Response

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Quantitative gene expression

PBO:0006310 - protein level

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PBO:0011963 - RNA level

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Single locus phenotype

FYPO:0000082 - decreased cell population growth at high temperature

References:

Genotypes:

FYPO:0000080 - decreased cell population growth at low temperature

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Genotypes:

FYPO:0003743 - decreased cell population growth during glucose starvation

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Genotypes:

FYPO:0009078 - decreased cell population growth on ethanol carbon source

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Genotypes:

FYPO:0009075 - decreased cell population growth on fructose carbon source

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Genotypes:

FYPO:0001407 - decreased cell population growth on glucose carbon source

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Genotypes:

FYPO:0009100 - decreased cell population growth on glycerol and galactose carbon source

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Genotypes:

FYPO:0000684 - decreased cell population growth on glycerol carbon source

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Genotypes:

FYPO:0009091 - decreased cell population growth on lysine and proline nitrogen source

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Genotypes:

FYPO:0002924 - decreased cell population growth on maltose carbon source

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Genotypes:

FYPO:0009099 - decreased cell population growth on mannitol carbon source

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Genotypes:

FYPO:0001176 - decreased cell population growth on sucrose carbon source

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Genotypes:

FYPO:0001355 - decreased vegetative cell population growth

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Genotypes:

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

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Genotypes:

FYPO:0009052 - increased cell population growth on glutamate nitrogen source

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Genotypes:

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

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Genotypes:

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

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Genotypes:

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

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Genotypes:

FYPO:0009096 - increased cell population growth on xylose carbon source

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Genotypes:

FYPO:0004557 - increased vegetative cell population growth

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Genotypes:

FYPO:0005092 - inviable after spore germination, multiple cell divisions, swollen, elongated pear-shaped cell

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Genotypes:

FYPO:0002061 - inviable vegetative cell population

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Genotypes:

FYPO:0000245 - loss of viability in stationary phase

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Genotypes:

FYPO:0010094 - normal growth on galactose/ethanol carbon source

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Genotypes:

FYPO:0009041 - resistance to 2,2′-dipyridyl

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Genotypes:

FYPO:0009036 - resistance to benzamidine

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Genotypes:

FYPO:0000764 - resistance to cycloheximide

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Genotypes:

FYPO:0009038 - resistance to egtazic acid

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Genotypes:

FYPO:0009034 - resistance to ethylenediaminetetraacetic acid

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Genotypes:

FYPO:0001583 - resistance to lithium

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Genotypes:

FYPO:0009083 - resistance to lithium chloride and methyl methanesulfonate

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Genotypes:

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

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Genotypes:

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

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Genotypes:

FYPO:0009039 - resistance to potassium chloride

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Genotypes:

FYPO:0009081 - resistance to potassium chloride and methyl methanesulfonate

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Genotypes:

FYPO:0005968 - resistance to sodium chloride

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Genotypes:

FYPO:0009089 - resistance to sodium chloride and sodium dodecyl sulfate

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Genotypes:

FYPO:0005266 - resistance to sodium dodecyl sulfate

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Genotypes:

FYPO:0000327 - resistance to trichostatin A

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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:0009067 - sensitive to amorolfine

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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:0000097 - sensitive to caffeine during vegetative growth

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Genotypes:

FYPO:0009080 - sensitive to calcofluor and sodium dodecyl sulfate

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Genotypes:

FYPO:0001188 - sensitive to Calcofluor White

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Genotypes:

FYPO:0009069 - sensitive to ciclopirox olamine

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Genotypes:

FYPO:0000104 - sensitive to cycloheximide

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Genotypes:

FYPO:0000799 - sensitive to diamide

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Genotypes:

FYPO:0007931 - sensitive to egtazic acid

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Genotypes:

FYPO:0000842 - sensitive to ethanol during vegetative growth

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Genotypes:

FYPO:0000785 - sensitive to formamide

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Genotypes:

FYPO:0000087 - sensitive to hydrogen peroxide

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Genotypes:

FYPO:0000088 - sensitive to hydroxyurea

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Genotypes:

FYPO:0001719 - sensitive to lithium

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Genotypes:

FYPO:0009086 - sensitive to lithium chloride and sodium dodecyl sulfate

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Genotypes:

FYPO:0006836 - sensitive to magnesium chloride

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Genotypes:

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

References:

Genotypes:

FYPO:0001214 - sensitive to potassium chloride

References:

Genotypes:

FYPO:0007924 - sensitive to potassium chloride and sodium dodecyl sulfate

References:

Genotypes:

FYPO:0000797 - sensitive to tert-butyl hydroperoxide

References:

Genotypes:

FYPO:0002701 - sensitive to torin1

References:

Genotypes:

FYPO:0003656 - sensitive to vanadate

References:

Genotypes:

FYPO:0002060 - viable vegetative cell population

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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:0006222 - predominantly single copy (one to one)

Protein features

IDNameInterPro nameDB name
PF00515TPR_1TPR_rptPfam
PF13181TPR_8TPR_rptPfam
PF13432TPR_16Pfam
PS50005TPRTPR_rptPROSITE profiles
PS50293TPR_REGIONPROSITE profiles
SM00028TPRTPR_rptSMART
G3DSA:1.25.40.10:FF:000078CATH-FunFam
G3DSA:1.25.40.10:FF:000403CATH-FunFam
G3DSA:1.25.40.10TPR-like_helical_dom_sfCATH-Gene3D
SSF48452TPR-like_helical_dom_sfSUPERFAMILY
PTHR14017PANTHER
mobidb-lite-Disorderdisorder_predictionMobiDB-Disorder
mobidb-lite-Low-complexitydisorder_predictionMobiDB-Low-complexity
mobidb-lite-Negative-Polyelectrolytedisorder_predictionMobiDB-Negative-Polyelectrolyte
mobidb-lite-Polardisorder_predictionMobiDB-Polar
mobidb-lite-Polyampholytedisorder_predictionMobiDB-Polyampholyte

Orthologs

References / Literature

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: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:28218250 - Chromatin remodeller Fun30 Fft3 induces nucleosome disassembly to facilitate RNA polymerase II elongation.
Lee J et al. Nat Commun 2017 Feb 20;8:14527
PMID:22540037 - Predicting the fission yeast protein interaction network.
Pancaldi V et al. G3 (Bethesda) 2012 Apr;2(4):453-67
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:42030144 - Gene loss, repression, amplification, and horizontal acquisition shape galactose/melibiose metabolism in fission yeast.
Du XM et al. Proc Natl Acad Sci U S A 2026 Apr 28;123(17):e2532532123
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: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: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:39705284 - Proteomic and phosphoproteomic analyses reveal that TORC1 is reactivated by pheromone signaling during sexual reproduction in fission yeast.
Bérard M et al. PLoS Biol 2024 Dec 20;22(12):e3002963
PMID:27298342 - Identification of S-phase DNA damage-response targets in fission yeast reveals conservation of damage-response networks.
Willis NA et al. Proc Natl Acad Sci U S A 2016 Jun 28;113(26):E3676-85
PMID:15632072 - Functional comparison of the Tup11 and Tup12 transcriptional corepressors in fission yeast.
Fagerström-Billai F et al. Mol Cell Biol 2005 Jan;25(2):716-27
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:12529438 - Global transcriptional responses of fission yeast to environmental stress.
Chen D et al. Mol Biol Cell 2003 Jan;14(1):214-29
PMID:26404184 - High Confidence Fission Yeast SUMO Conjugates Identified by Tandem Denaturing Affinity Purification.
Nie M et al. Sci Rep 2015 Sep 25;5:14389
PMID:26412298 - A Degenerate Cohort of Yeast Membrane Trafficking DUBs Mediates Cell Polarity and Survival.
Beckley JR et al. Mol Cell Proteomics 2015 Dec;14(12):3132-41
GO_REF:0000033 - Annotation inferences using phylogenetic trees
PMID:20200159 - The LAMMER kinase homolog, Lkh1, regulates Tup transcriptional repressors through phosphorylation in Schizosaccharomyces pombe.
Kang WH et al. J Biol Chem 2010 Apr 30;285(18):13797-806
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: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:26537787 - Targeting of SUMO substrates to a Cdc48-Ufd1-Npl4 segregase and STUbL pathway in fission yeast.
Køhler JB et al. Nat Commun 2015 Nov 05;6:8827
PMID:29686279 - Iron homeostasis regulates facultative heterochromatin assembly in adaptive genome control.
Gallagher PS et al. Nat Struct Mol Biol 2018 May;25(5):372-383
PB_REF:0000006 - Disease associations from Monarch via human-pombe orthologs
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: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:17101775 - Individual subunits of the Ssn6-Tup11/12 corepressor are selectively required for repression of different target genes.
Fagerström-Billai F et al. Mol Cell Biol 2007 Feb;27(3):1069-82
PMID:37970674 - SUMOylation regulates Lem2 function in centromere clustering and silencing.
Strachan J et al. J Cell Sci 2023 Dec 01;136(23)
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:39476757 - Characterization of Ksg1 protein kinase-dependent phosphoproteome in the fission yeast S. pombe.
Cipak L et al. Biochem Biophys Res Commun 2024 Oct 25;736:150895
GO_REF:0000024 - Manual transfer of experimentally-verified manual GO annotation data to orthologs by curator judgment of sequence similarity.
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:29996109 - Quantitative Phosphoproteomics Reveals the Signaling Dynamics of Cell-Cycle Kinases in the Fission Yeast Schizosaccharomyces pombe.
Swaffer MP et al. Cell Rep 2018 Jul 10;24(2):503-514
PMID:18257517 - Phosphoproteome analysis of fission yeast.
Wilson-Grady JT et al. J Proteome Res 2008 Mar;7(3):1088-97
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