protein coding gene - hht3 (SPBC1105.11c) - histone H3 h3.3

Gene summary

Standard name

hht3

Systematic ID

SPBC1105.11c

Product

histone H3 h3.3

Organism

Schizosaccharomyces pombe (fission yeast)

Synonyms

h3.3, clo5

UniProt ID

P10651

Characterisation status

biological role published

Feature type

mRNA gene

Genomic location

chromosome II: 3528800..3529565 reverse strand

Annotation

Protein features

Orthologs

• H3C14 (HGNC:20503) Homo sapiens
• H3C15 (HGNC:20505) Homo sapiens
• H3C13 (HGNC:25311) Homo sapiens
• H3-7 (HGNC:32060) Homo sapiens
• H3-3A (HGNC:4764) Homo sapiens
• H3-3B (HGNC:4765) Homo sapiens
• H3C1 (HGNC:4766) Homo sapiens
• H3C3 (HGNC:4768) Homo sapiens
• H3C6 (HGNC:4769) Homo sapiens
• H3C11 (HGNC:4771) Homo sapiens
• H3C8 (HGNC:4772) Homo sapiens
• H3C7 (HGNC:4773) Homo sapiens
• H3C12 (HGNC:4774) Homo sapiens
• H3C10 (HGNC:4775) Homo sapiens
• H3-4 (HGNC:4778) Homo sapiens
• hht3 (SJAG_00302) Schizosaccharomyces japonicus
• hht1 (SJAG_00335) Schizosaccharomyces japonicus
• hht2 (SJAG_03543) Schizosaccharomyces japonicus
• HHT1 (YBR010W) Saccharomyces cerevisiae
• HHT2 (YNL031C) Saccharomyces cerevisiae

References / Literature

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:34731638 - The histone chaperone FACT facilitates heterochromatin spreading by regulating histone turnover and H3K9 methylation states.

Murawska M et al. Cell Rep 2021 Nov 02;37(5):109944

PMID:22683269 - HP1(Swi6) mediates the recognition and destruction of heterochromatic RNA transcripts.

Keller C et al. Mol Cell 2012 Jul 27;47(2):215-27

PMID:38181050 - The Cross-Regulation Between Set1, Clr4, and Lsd1/2 in Schizosaccharomyces pombe.

Liu H et al. PLoS Genet 2024 Jan 05;20(1):e1011107

PMID:34524082 - SUV39 SET domains mediate crosstalk of heterochromatic histone marks.

Stirpe A et al. Elife 2021 Sep 15;10

PMID:27890612 - In vitro reconstitution and biochemical analyses of the Schizosaccharomyces pombe nucleosome.

Koyama M et al. Biochem Biophys Res Commun 2017 Jan 22;482(4):896-901

PMID:10949293 - Regulation of chromatin structure by site-specific histone H3 methyltransferases.

Rea S et al. Nature 2000 Aug 10;406(6796):593-9

PB_REF:0000001 - Protein modification annotation by manual transfer of experimentally-verified annotation data to orthologs based on curator judgment of sequence features.

PMID:16087749 - Histone H3 K36 methylation is associated with transcription elongation in Schizosaccharomyces pombe.

Morris SA et al. Eukaryot Cell 2005 Aug;4(8):1446-54

PMID:31468675 - H3K14 ubiquitylation promotes H3K9 methylation for heterochromatin assembly.

Oya E et al. EMBO Rep 2019 Oct 04;20(10):e48111

PMID:15550243 - Methylation of histone H4 lysine 20 controls recruitment of Crb2 to sites of DNA damage.

Sanders SL et al. Cell 2004 Nov 24;119(5):603-14

GO_REF:0000033 - Annotation inferences using phylogenetic trees

PMID:11242054 - Selective recognition of methylated lysine 9 on histone H3 by the HP1 chromo domain.

Bannister AJ et al. Nature 2001 Mar 01;410(6824):120-4

PMID:23314747 - Myb-domain protein Teb1 controls histone levels and centromere assembly in fission yeast.

Valente LP et al. EMBO J 2013 Feb 06;32(3):450-60

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:24583182 - A novel method for purification of the endogenously expressed fission yeast Set2 complex.

Suzuki S et al. Protein Expr Purif 2014 May;97:44-9

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:41786738 - An H3K14ub-H3K9me3 feedback circuit governs heterochromatin spreading and inheritance in fission yeast.

Toda T et al. Nat Commun 2026 Mar 05;

PMID:22540037 - Predicting the fission yeast protein interaction network.

Pancaldi V et al. G3 (Bethesda) 2012 Apr;2(4):453-67

PMID:15507118 - An interactive gene network for securin-separase, condensin, cohesin, Dis1/Mtc1 and histones constructed by mass transformation.

Yuasa T et al. Genes Cells 2004 Nov;9(11):1069-82

PMID:39094570 - A replisome-associated histone H3-H4 chaperone required for epigenetic inheritance.

Yu J et al. Cell 2024 Sep 05;187(18):5010-5028.e24

PMID:11792803 - The S. pombe aurora-related kinase Ark1 associates with mitotic structures in a stage dependent manner and is required for chromosome segregation.

Petersen J et al. J Cell Sci 2001 Dec;114(Pt 24):4371-84

PMID:18818364 - Conservation and rewiring of functional modules revealed by an epistasis map in fission yeast.

Roguev A et al. Science 2008 Oct 17;322(5900):405-10

PMID:22291963 - Histone chaperone Asf1 plays an essential role in maintaining genomic stability in fission yeast.

Tanae K et al. PLoS One 2012;7(1):e30472

PMID:11129054 - A novel member of the Swi6p family of fission yeast chromo domain-containing proteins associates with the centromere in vivo and affects chromosome segregation.

Halverson D et al. Mol Gen Genet 2000 Nov;264(4):492-505

PMID:15908586 - The CHD remodeling factor Hrp1 stimulates CENP-A loading to centromeres.

Walfridsson J et al. Nucleic Acids Res 2005;33(9):2868-79

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: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:17369611 - Regulation of histone H3 lysine 56 acetylation in Schizosaccharomyces pombe.

Xhemalce B et al. J Biol Chem 2007 May 18;282(20):15040-7

PMID:26205977 - Highly condensed chromatins are formed adjacent to subtelomeric and decondensed silent chromatin in fission yeast.

Matsuda A et al. Nat Commun 2015 Jul 24;6:7753

PMID:37970674 - SUMOylation regulates Lem2 function in centromere clustering and silencing.

Strachan J et al. J Cell Sci 2023 Dec 01;136(23)

PMID:27648579 - A histone H3K9M mutation traps histone methyltransferase Clr4 to prevent heterochromatin spreading.

Shan CM et al. Elife 2016 Sep 20;5

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:11884604 - Functional divergence between histone deacetylases in fission yeast by distinct cellular localization and in vivo specificity.

Bjerling P et al. Mol Cell Biol 2002 Apr;22(7):2170-81

PMID:23281010 - Examining post-translational modification-mediated protein-protein interactions using a chemical proteomics approach.

Li X et al. Protein Sci 2013 Mar;22(3):287-95

PMID:31260531 - Gcn5-mediated acetylation at MBF-regulated promoters induces the G1/S transcriptional wave.

González-Medina A et al. Nucleic Acids Res 2019 Sep 19;47(16):8439-8451

PMID:39878217 - The ortholog of human DNAJC9 promotes histone H3-H4 degradation and is counteracted by Asf1 in fission yeast.

Ding Y et al. Nucleic Acids Res 2025 Jan 24;53(3)

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:28945192 - Regulated Ire1-dependent mRNA decay requires no-go mRNA degradation to maintain endoplasmic reticulum homeostasis in S. pombe .

Guydosh NR et al. Elife 2017 Sep 25;6

PMID:28718400 - Histone H3G34R mutation causes replication stress, homologous recombination defects and genomic instability in S. pombe .

Yadav RK et al. Elife 2017 Jul 18;6

PMID:40594858 - Dbl2 interacts with helicases and an endonuclease to maintain the integrity of repetitive regions.

Bakosova A et al. Sci Rep 2025 Jul 01;15(1):21895

PMID:29136238 - Regulation of transcriptional silencing and chromodomain protein localization at centromeric heterochromatin by histone H3 tyrosine 41 phosphorylation in fission yeast.

Ren B et al. Nucleic Acids Res 2018 Jan 09;46(1):189-202

PMID:30503616 - Centromere DNA Destabilizes H3 Nucleosomes to Promote CENP-A Deposition during the Cell Cycle.

Shukla M et al. Curr Biol 2018 Dec 17;28(24):3924-3936.e4

PMID:19217403 - Fission yeast Scm3 mediates stable assembly of Cnp1/CENP-A into centromeric chromatin.

Williams JS et al. Mol Cell 2009 Feb 13;33(3):287-98

PMID:22727667 - Intrinsic nucleic acid-binding activity of Chp1 chromodomain is required for heterochromatic gene silencing.

Ishida M et al. Mol Cell 2012 Jul 27;47(2):228-41

PMID:12589755 - The fission yeast spSet1p is a histone H3-K4 methyltransferase that functions in telomere maintenance and DNA repair in an ATM kinase Rad3-dependent pathway.

Kanoh J et al. J Mol Biol 2003 Feb 28;326(4):1081-94

PMID:18158900 - A NASP (N1/N2)-related protein, Sim3, binds CENP-A and is required for its deposition at fission yeast centromeres.

Dunleavy EM et al. Mol Cell 2007 Dec 28;28(6):1029-44

PMID:21211724 - Chromodomain-mediated oligomerization of HP1 suggests a nucleosome-bridging mechanism for heterochromatin assembly.

Canzio D et al. Mol Cell 2011 Jan 07;41(1):67-81

PMID:24710126 - The 19S proteasome subunit Rpt3 regulates distribution of CENP-A by associating with centromeric chromatin.

Kitagawa T et al. Nat Commun 2014 Apr 07;5:3597

PMID:27738016 - RNA interference is essential for cellular quiescence.

Roche B et al. Science 2016 Nov 11;354(6313)

PMID:27901072 - Characterisation of functional domains in fission yeast Ams2 that are required for core histone gene transcription.

Takayama Y et al. Sci Rep 2016 Nov 30;6:38111

PMID:32152323 - Time-lapse single-cell transcriptomics reveals modulation of histone H3 for dormancy breaking in fission yeast.

Tsuyuzaki H et al. Nat Commun 2020 Mar 09;11(1):1265

PMID:34010645 - The histone H3K9M mutation synergizes with H3K14 ubiquitylation to selectively sequester histone H3K9 methyltransferase Clr4 at heterochromatin.

Shan CM et al. Cell Rep 2021 May 18;35(7):109137

PMID:26896847 - Ensembl comparative genomics resources.

Herrero J et al. Database (Oxford) 2016;2016

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:38376141 - Disordered regions and folded modules in CAF-1 promote histone deposition in Schizosaccharomyces pombe .

Ouasti F et al. Elife 2024 Feb 20;12

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

PMID:22825872 - Mph1 kinetochore localization is crucial and upstream in the hierarchy of spindle assembly checkpoint protein recruitment to kinetochores.

Heinrich S et al. J Cell Sci 2012 Oct 15;125(Pt 20):4720-7

PMID:38479839 - Coordination of histone chaperones for parental histone segregation and epigenetic inheritance.

Fang Y et al. Genes Dev 2024 Mar 13;

PMID:31584934 - Histone deposition promotes recombination-dependent replication at arrested forks.

Hardy J et al. PLoS Genet 2019 Oct;15(10):e1008441

PMID:27334362 - Inner nuclear membrane protein Lem2 augments heterochromatin formation in response to nutritional conditions.

Tange Y et al. Genes Cells 2016 Aug;21(8):812-32

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:40132111 - A fission yeast CENP-B homologue Abp1 prevents RNAi-mediated heterochromatin formation at ribosomal DNA repeats.

Tsunemine S et al. Genetics 2025 Mar 25;

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:20929775 - Two histone marks establish the inner centromere and chromosome bi-orientation.

Yamagishi Y et al. Science 2010 Oct 08;330(6001):239-43

GO_REF:0000002 - Comments

PMID:20230746 - Hsk1- and SCF(Pof3)-dependent proteolysis of S. pombe Ams2 ensures histone homeostasis and centromere function.

Takayama Y et al. Dev Cell 2010 Mar 16;18(3):385-96

PMID:17677001 - Plasticity of fission yeast CENP-A chromatin driven by relative levels of histone H3 and H4.

Castillo AG et al. PLoS Genet 2007 Jul;3(7):e121

PMID:21511999 - Comparative functional genomics of the fission yeasts.

Rhind N et al. Science 2011 May 20;332(6032):930-6

PMID:20299449 - A chromodomain switch mediated by histone H3 Lys 4 acetylation regulates heterochromatin assembly.

Xhemalce B et al. Genes Dev 2010 Apr 01;24(7):647-52

PMID:19362535 - High-affinity binding of Chp1 chromodomain to K9 methylated histone H3 is required to establish centromeric heterochromatin.

Schalch T et al. Mol Cell 2009 Apr 10;34(1):36-46

PMID:30773398 - Set7 Is a H3K37 Methyltransferase in Schizosaccharomyces pombe and Is Required for Proper Gametogenesis.

Shen Y et al. Structure 2019 Apr 02;27(4):631-638.e8

PMID:30992049 - The NuA4 acetyltransferase and histone H4 acetylation promote replication recovery after topoisomerase I-poisoning.

Noguchi C et al. Epigenetics Chromatin 2019 Apr 16;12(1):24

PMID:18345014 - Roles of the Clr4 methyltransferase complex in nucleation, spreading and maintenance of heterochromatin.

Zhang K et al. Nat Struct Mol Biol 2008 Apr;15(4):381-8

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: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:18344406 - Schizosaccharomyces pombe Hst4 functions in DNA damage response by regulating histone H3 K56 acetylation.

Haldar D et al. Eukaryot Cell 2008 May;7(5):800-13

PB_REF:0000006 - Disease associations from Monarch via human-pombe orthologs

PMID:25356590 - Multifaceted genome control by Set1 Dependent and Independent of H3K4 methylation and the Set1C/COMPASS complex.

Mikheyeva IV et al. PLoS Genet 2014 Oct;10(10):e1004740

PMID:33670267 - The Role of Non-Catalytic Domains of Hrp3 in Nucleosome Remodeling.

Dong W et al. Int J Mol Sci 2021 Feb 11;22(4)

PMID:26369364 - Mutation of histone H3 serine 86 disrupts GATA factor Ams2 expression and precise chromosome segregation in fission yeast.

Lim KK et al. Sci Rep 2015 Sep 15;5:14064

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:25076038 - Large scale screening of genetic interaction with sgf73(+) in fission yeast.

Guo Y et al. Yi Chuan 2014 Jul;36(7):723-31

PMID:18579787 - The FACT Spt16 "peptidase" domain is a histone H3-H4 binding module.

Stuwe T et al. Proc Natl Acad Sci U S A 2008 Jul 01;105(26):8884-9

PB_REF:0000003 - Disease Association Curation

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:17452352 - Differential regulation of repeated histone genes during the fission yeast cell cycle.

Takayama Y et al. Nucleic Acids Res 2007;35(10):3223-37

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