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protein coding gene - snf21 (SPAC1250.01) - RSC-type complex ATPase Snf21

Gene summary

Standard name
snf21
Systematic ID
SPAC1250.01
Product
RSC-type complex ATPase Snf21
Organism
Schizosaccharomyces pombe (fission yeast)
Synonyms
SPAC29A4.21, brg1
UniProt ID
Q9UTN6
ORFeome ID
39/39B09
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome I: 5100148..5104177 reverse strand

Annotation

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

References:

MONDO:0968980 - otosclerosis 12

References:

MONDO:0013224 - rhabdoid tumor predisposition syndrome 2

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GO biological process

GO:0033696 - heterochromatin boundary formation

References:

GO:0007064 - mitotic sister chromatid cohesion

References:

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

References:

GO:0045815 - transcription initiation-coupled chromatin remodeling

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GO cellular component

GO:0005634 - nucleus

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GO:0016586 - RSC-type 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:0140463 - chromatin-protein adaptor activity

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GO:0003677 - DNA binding

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GO:0042393 - histone binding

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GO:0140751 - histone octamer slider activity

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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:01149 - sumoylated lysine

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MOD:01148 - ubiquitinylated lysine

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Multi-locus phenotype

FYPO:0006355 - delayed onset of transcription during glucose starvation

References:

Genotypes:

Protein features

PBO:0111788 - bromodomain

PBO:0111747 - DEAD/DEAH box helicase

PBO:0111748 - helicase C-terminal domain

Qualitative gene expression

PomGeneEx:0000024 - protein level fluctuates

References:

PomGeneEx:0000017 - RNA level fluctuates

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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:0000059 - abnormal mitotic cell cycle

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Genotypes:

FYPO:0003738 - abnormal mitotic cell cycle arrest with condensed chromosomes

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Genotypes:

FYPO:0000141 - abnormal mitotic sister chromatid segregation

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Genotypes:

FYPO:0004481 - abolished cell population growth at high temperature

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Genotypes:

FYPO:0000711 - decreased cell cycle arrest in mitotic G1 phase in response to nitrogen starvation

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Genotypes:

FYPO:0000082 - decreased cell population growth at high temperature

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Genotypes:

FYPO:0000080 - decreased cell population growth at low temperature

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Genotypes:

FYPO:0006857 - decreased histone H3-K37 methylation

References:

Genotypes:

FYPO:0000460 - decreased mitotic centromeric sister chromatid cohesion

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Genotypes:

FYPO:0006599 - decreased protein localization to centromeric chromatin during vegetative growth

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Genotypes:

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

References:

Genotypes:

FYPO:0007209 - decreased sister chromatid cohesion along chromosome arms during mitotic interphase

References:

Genotypes:

FYPO:0001355 - decreased vegetative cell population growth

References:

Genotypes:

FYPO:0006355 - delayed onset of transcription during glucose starvation

References:

Genotypes:

FYPO:0008035 - ectopic CENP-A containing chromatin assembly at pericentromeric heterochromatin

References:

Genotypes:

FYPO:0000288 - gene expression regulation phenotype

References:

Genotypes:

FYPO:0002262 - inviable after spore germination, multiple cell divisions, elongated cell

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Genotypes:

FYPO:0002411 - inviable curved elongated vegetative cell

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Genotypes:

FYPO:0002061 - inviable vegetative cell population

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Genotypes:

FYPO:0001387 - loss of viability at high temperature

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Genotypes:

FYPO:0001317 - normal RNA level during vegetative growth

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Genotypes:

FYPO:0006842 - normal spatial extent of CENP-A containing nucleosome assembly

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Genotypes:

FYPO:0000091 - sensitive to thiabendazole

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
PF00271Helicase_CHelicase_C-likePfam
PF00439BromodomainBromodomainPfam
PF07529HSAHSA_domPfam
PF14619SnACSnACPfam
cd05519Bromo_SNF2CDD
cd17996DEXHc_SMARCA2_SMARCA4CDD
cd18793SF2_C_SNFSNF2/RAD54-like_CCDD
PS00633BROMODOMAIN_1Bromodomain_CSPROSITE patterns
PS50014BROMODOMAIN_2BromodomainPROSITE profiles
PS51192HELICASE_ATP_BIND_1Helicase_ATP-bdPROSITE profiles
PS51194HELICASE_CTERHelicase_C-likePROSITE profiles
PS51204HSAHSA_domPROSITE profiles
SM00297BROMOBromodomainSMART
SM00487DEXDcHelicase_ATP-bdSMART
SM00490HELICcHelicase_C-likeSMART
SM00573HSAHSA_domSMART
SM01314SnACSnACSMART
PR00503BROMODOMAINBromodomainPRINTS
G3DSA:1.20.920.10:FF:000065CATH-FunFam
G3DSA:3.40.50.10810:FF:000008CATH-FunFam
G3DSA:3.40.50.300:FF:000843CATH-FunFam
G3DSA:1.20.5.170CATH-Gene3D
G3DSA:1.20.920.10Bromodomain-like_sfCATH-Gene3D
G3DSA:3.40.50.10810SNF2-like_sfCATH-Gene3D
G3DSA:3.40.50.300P-loop_NTPaseCATH-Gene3D
SSF47370Bromodomain-like_sfSUPERFAMILY
SSF52540P-loop_NTPaseSUPERFAMILY
PTHR10799PANTHER
CoilCOILS
mobidb-lite-Disorderdisorder_predictionMobiDB-Disorder

Orthologs

References / Literature

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: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: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: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:24362309 - A genetic screen for functional partners of condensin in fission yeast.
Robellet X et al. G3 (Bethesda) 2014 Feb 19;4(2):373-81
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: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:40193710 - An enzymatic-independent function of palmitoyl hydrolase in cohesin loading onto chromosome.
Wang YT et al. Nucleic Acids Res 2025 Mar 20;53(6)
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: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:18257517 - Phosphoproteome analysis of fission yeast.
Wilson-Grady JT et al. J Proteome Res 2008 Mar;7(3):1088-97
PMID:22144913 - Widespread cotranslational formation of protein complexes.
Duncan CD et al. PLoS Genet 2011 Dec;7(12):e1002398
PMID:31883795 - Positioning Heterochromatin at the Nuclear Periphery Suppresses Histone Turnover to Promote Epigenetic Inheritance.
Holla S et al. Cell 2020 Jan 09;180(1):150-164.e15
PMID:19168987 - Essential roles of Snf21, a Swi2/Snf2 family chromatin remodeler, in fission yeast mitosis.
Yamada K et al. Genes Genet Syst 2008 Oct;83(5):361-72
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:24013502 - Epe1 recruits BET family bromodomain protein Bdf2 to establish heterochromatin boundaries.
Wang J et al. Genes Dev 2013 Sep 01;27(17):1886-902
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: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: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:32277274 - Conserved roles of chromatin remodellers in cohesin loading onto chromatin.
Muñoz S et al. Curr Genet 2020 Oct;66(5):951-956
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: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:22184112 - Histone H3 lysine 14 acetylation is required for activation of a DNA damage checkpoint in fission yeast.
Wang Y et al. J Biol Chem 2012 Feb 03;287(6):4386-93
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: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
PB_REF:0000006 - Disease associations from Monarch via human-pombe orthologs
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:22540037 - Predicting the fission yeast protein interaction network.
Pancaldi V et al. G3 (Bethesda) 2012 Apr;2(4):453-67
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:26404184 - High Confidence Fission Yeast SUMO Conjugates Identified by Tandem Denaturing Affinity Purification.
Nie M et al. Sci Rep 2015 Sep 25;5:14389
GO_REF:0000033 - Annotation inferences using phylogenetic trees
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:40015273 - A comprehensive Schizosaccharomyces pombe atlas of physical transcription factor interactions with proteins and chromatin.
Skribbe M et al. Mol Cell 2025 Feb 19;
PMID:37970674 - SUMOylation regulates Lem2 function in centromere clustering and silencing.
Strachan J et al. J Cell Sci 2023 Dec 01;136(23)
PMID:26167880 - SR protein kinases promote splicing of nonconsensus introns.
Lipp JJ et al. Nat Struct Mol Biol 2015 Aug;22(8):611-7
PMID:30355493 - Expanded Interactome of the Intrinsically Disordered Protein Dss1.
Schenstrøm SM et al. Cell Rep 2018 Oct 23;25(4):862-870
PMID:36509793 - Functional crosstalk between the cohesin loader and chromatin remodelers.
Muñoz S et al. Nat Commun 2022 Dec 13;13(1):7698