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protein coding gene - snf22 (SPCC1620.14c) - SWI/SNF ATP-dependent chromatin remodeler Snf22

Gene summary

Standard name
snf22
Systematic ID
SPCC1620.14c
Product
SWI/SNF ATP-dependent chromatin remodeler Snf22
Organism
Schizosaccharomyces pombe (fission yeast)
Synonyms
SPCC830.01c
UniProt ID
O94421
ORFeome ID
31/31B02
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome III: 2171573..2178240 reverse strand

Annotation

Comment

PBO:0000206 - deletion mutant expression profiling

References:

Disease association

MONDO:0859139 - blepharophimosis-impaired intellectual development syndrome

References:

MONDO:0013821 - intellectual disability, autosomal dominant 16

References:

MONDO:0011053 - intellectual disability-sparse hair-brachydactyly syndrome

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MONDO:0968980 - otosclerosis 12

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MONDO:0013224 - rhabdoid tumor predisposition syndrome 2

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GO biological process

GO:0031507 - heterochromatin formation

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GO:0120262 - negative regulation of heterochromatin organization

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GO:0045944 - positive regulation of transcription by RNA polymerase II

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GO:0045815 - transcription initiation-coupled chromatin remodeling

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GO cellular component

GO:0000785 - chromatin

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GO:0072686 - mitotic spindle

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GO:0005634 - nucleus

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GO:0016514 - SWI/SNF complex

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GO molecular function

GO:0005524 - ATP binding

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GO:0016887 - ATP hydrolysis activity

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GO:0003682 - chromatin binding

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GO:0003677 - DNA binding

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GO:0042393 - histone binding

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GO:0140750 - nucleosome array spacer 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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Multi-locus phenotype

FYPO:0006358 - abolished chromatin remodeling during glucose starvation

References:

Genotypes:

FYPO:0002879 - abolished transcription during glucose starvation

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Genotypes:

FYPO:0001045 - decreased acid phosphatase activity

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Genotypes:

FYPO:0000080 - decreased cell population growth at low temperature

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Genotypes:

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

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Genotypes:

FYPO:0005845 - decreased histone H3-K9 trimethylation at silent mating-type cassette during vegetative growth

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Genotypes:

FYPO:0006754 - decreased promoter-enhancer looping during glucose starvation

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Genotypes:

FYPO:0005154 - decreased protein localization to heterochromatin at mat2P silent mating-type cassette

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Genotypes:

FYPO:0000826 - decreased RNA level

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Genotypes:

FYPO:0006355 - delayed onset of transcription during glucose starvation

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Genotypes:

FYPO:0002243 - increased acid phosphatase activity

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Genotypes:

FYPO:0008416 - increased histone exchange at silent mating-type cassette during vegetative growth

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Genotypes:

FYPO:0007633 - increased histone H3-K14 acetylation at silent mating-type cassette during vegetative growth

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Genotypes:

FYPO:0008327 - increased histone H3-K9 trimethylation at heterochromatin island during vegetative growth

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Genotypes:

FYPO:0008419 - increased protein localization to heterochromatin island

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Genotypes:

FYPO:0001890 - increased RNA level

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Genotypes:

FYPO:0004749 - increased spatial extent of subtelomeric heterochromatin assembly

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Genotypes:

FYPO:0003267 - normal acid phosphatase activity

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Genotypes:

FYPO:0000047 - normal cell population growth

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Genotypes:

FYPO:0002141 - normal cell population growth at low temperature

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Genotypes:

FYPO:0000962 - normal growth on hydrogen peroxide

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Genotypes:

FYPO:0007002 - normal histone exchange at silent mating-type cassette

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Genotypes:

FYPO:0008364 - normal histone H3-K9 trimethylation at silent mating-type cassette during vegetative growth

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Genotypes:

FYPO:0001357 - normal vegetative cell population growth

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Genotypes:

FYPO:0002060 - viable vegetative cell population

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Genotypes:

Protein features

PBO:0111788 - bromodomain

Quantitative gene expression

PBO:0006310 - protein level

References:

PBO:0011963 - RNA level

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Single locus phenotype

FYPO:0001045 - decreased acid phosphatase activity

References:

Genotypes:

FYPO:0006658 - decreased acid phosphatase activity during cellular response to phosphate starvation

References:

Genotypes:

FYPO:0000080 - decreased cell population growth at low temperature

References:

Genotypes:

FYPO:0006357 - decreased chromatin remodeling during glucose starvation

References:

Genotypes:

FYPO:0005948 - decreased protein localization to chromatin at highly transcribed RNA polymerase II genes during vegetative growth

References:

Genotypes:

FYPO:0000826 - decreased RNA level

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Genotypes:

FYPO:0001117 - decreased RNA level during vegetative growth

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Genotypes:

FYPO:0006355 - delayed onset of transcription during glucose starvation

References:

Genotypes:

FYPO:0008417 - increased epigenetic heterochromatin inheritance

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Genotypes:

FYPO:0005005 - increased level of hexose transport gene mRNA during vegetative growth

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Genotypes:

FYPO:0002742 - increased level of iron transport gene mRNA during vegetative growth

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Genotypes:

FYPO:0001890 - increased RNA level

References:

Genotypes:

FYPO:0002390 - normal mitotic sister chromatid cohesion

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Genotypes:

FYPO:0001357 - normal vegetative cell population growth

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Genotypes:

FYPO:0000064 - resistance to 2-deoxyglucose

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Genotypes:

FYPO:0000094 - sensitive to benomyl

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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:0006822 - viable small vegetative cell with normal cell growth rate

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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

Protein features

IDNameInterPro nameDB name
PF00176SNF2-rel_domSNF2_NPFAM
PF14619SnACSnACPFAM
PF08880QLQGln-Leu-Gln_QLQPFAM
PF00271Helicase_CHelicase_C-likePFAM
PF00439BromodomainBromodomainPFAM
cd18793SF2_C_SNFSNF2/RAD54-like_CCDD
cd05519Bromo_SNF2CDD
cd17996DEXHc_SMARCA2_SMARCA4CDD
PS00633BROMODOMAIN_1Bromodomain_CSPROSITE_PATTERNS
PS51204HSAHSA_domPROSITE_PROFILES
PS50014BROMODOMAIN_2BromodomainPROSITE_PROFILES
PS51194HELICASE_CTERHelicase_C-likePROSITE_PROFILES
PS51666QLQGln-Leu-Gln_QLQPROSITE_PROFILES
PS51192HELICASE_ATP_BIND_1Helicase_ATP-bdPROSITE_PROFILES
SM00490helicmild6Helicase_C-likeSMART
SM00297bromo_6BromodomainSMART
SM01314SnAC_2SnACSMART
SM00487ultradead3Helicase_ATP-bdSMART
SM00951QLQ_2Gln-Leu-Gln_QLQSMART
PR00503BROMODOMAINBromodomainPRINTS
G3DSA:3.40.50.300:FF:000843FUNFAM
G3DSA:3.40.50.10810:FF:000008FUNFAM
SSF52540P-loop containing nucleoside triphosphate hydrolasesP-loop_NTPaseSUPERFAMILY
SSF47370BromodomainBromodomain-like_sfSUPERFAMILY
G3DSA:1.20.5.170GENE3D
G3DSA:3.40.50.10810SNF2-like_sfGENE3D
G3DSA:1.20.920.10Bromodomain-like_sfGENE3D
G3DSA:3.40.50.300P-loop_NTPaseGENE3D
PTHR10799SNF2/RAD54 HELICASE FAMILYPANTHER
CoilCoilCOILS
mobidb-lite-Disorderdisorder_predictionMOBIDB-Disorder
mobidb-lite-Low-complexitydisorder_predictionMOBIDB-Low-complexity
mobidb-lite-Polardisorder_predictionMOBIDB-Polar
mobidb-lite-Polyampholytedisorder_predictionMOBIDB-Polyampholyte
mobidb-lite-Positive-Polyelectrolytedisorder_predictionMOBIDB-Positive-Polyelectrolyte

Orthologs

References / Literature

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:28934464 - Recruitment and delivery of the fission yeast Rst2 transcription factor via a local genome structure counteracts repression by Tup1-family corepressors.
Asada R et al. Nucleic Acids Res 2017 Sep 19;45(16):9361-9371
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
GO_REF:0000002 - Comments
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:24774534 - Schizosaccharomyces pombe centromere protein Mis19 links Mis16 and Mis18 to recruit CENP-A through interacting with NMD factors and the SWI/SNF complex.
Hayashi T et al. Genes Cells 2014 Jul;19(7):541-54
GO_REF:0000033 - Annotation inferences using phylogenetic trees
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: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
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: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
PMID:36509793 - Functional crosstalk between the cohesin loader and chromatin remodelers.
Muñoz S et al. Nat Commun 2022 Dec 13;13(1):7698
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
GO_REF:0000111 - Gene Ontology annotations Inferred by Curator (IC) using at least one Inferred by Sequence Similarity (ISS) annotation to support the inference
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: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:39096900 - Nucleosome remodeler exclusion by histone deacetylation enforces heterochromatic silencing and epigenetic inheritance.
Sahu RK et al. Mol Cell 2024 Sep 05;84(17):3175-3191.e8
PMID:22624651 - A systematic screen reveals new elements acting at the G2/M cell cycle control.
Navarro FJ et al. Genome Biol 2012 May 24;13(5):R36
PB_REF:0000006 - Disease associations from Monarch via human-pombe orthologs
PMID:33468217 - Rbm10 facilitates heterochromatin assembly via the Clr6 HDAC complex.
Weigt M et al. Epigenetics Chromatin 2021 Jan 19;14(1):8
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:18622392 - Fission yeast SWI/SNF and RSC complexes show compositional and functional differences from budding yeast.
Monahan BJ et al. Nat Struct Mol Biol 2008 Aug;15(8):873-80
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:28674280 - Interplay between chromatin modulators and histone acetylation regulates the formation of accessible chromatin in the upstream regulatory region of fission yeast fbp1.
Adachi A et al. Genes Genet Syst 2018 May 03;92(6):267-276
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:32277274 - Conserved roles of chromatin remodellers in cohesin loading onto chromatin.
Muñoz S et al. Curr Genet 2020 Oct;66(5):951-956
PMID:22540037 - Predicting the fission yeast protein interaction network.
Pancaldi V et al. G3 (Bethesda) 2012 Apr;2(4):453-67
PMID:38899862 - Suppression of inositol pyrophosphate toxicosis and hyper-repression of the fission yeast PHO regulon by loss-of-function mutations in chromatin remodelers Snf22 and Sol1.
Schwer B et al. mBio 2024 Jun 20;:e0125224
PMID:18199689 - Distinct chromatin modulators regulate the formation of accessible and repressive chromatin at the fission yeast recombination hotspot ade6-M26.
Hirota K et al. Mol Biol Cell 2008 Mar;19(3):1162-73
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:36200823 - The chromatin remodeler RSC prevents ectopic CENP-A propagation into pericentromeric heterochromatin at the chromatin boundary.
Tsunemine S et al. Nucleic Acids Res 2022 Oct 28;50(19):10914-10928
PMID:39747188 - PhpC NF-Y transcription factor infiltrates heterochromatin to generate cryptic intron-containing transcripts crucial for small RNA production.
Srivastav MK et al. Nat Commun 2025 Jan 02;16(1):268
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:22144913 - Widespread cotranslational formation of protein complexes.
Duncan CD et al. PLoS Genet 2011 Dec;7(12):e1002398
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:37956308 - Topoisomerase 1 facilitates nucleosome reassembly at stress genes during recovery.
Vega M et al. Nucleic Acids Res 2023 Dec 11;51(22):12161-12173
PMID:27984725 - CDK Substrate Phosphorylation and Ordering the Cell Cycle.
Swaffer MP et al. Cell 2016 Dec 15;167(7):1750-1761.e16