SET1 histone methyltransferase SET1 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: SET1
Official Full Name: histone methyltransferase SET1
Primary source: SGD:S000001161
Locus tag: YHR119W
See related: AllianceGenome:SGD:S000001161; FungiDB:YHR119W; VEuPathDB:YHR119W
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as: KMT2; YTX1
Summary: Enables RNA binding activity and protein-lysine N-methyltransferase activity. Contributes to histone H3K4 methyltransferase activity. Involved in several processes, including DNA metabolic process; ascospore formation; and regulation of gene expression. Part of Set1C/COMPASS complex. Human ortholog(s) of this gene implicated in early-onset epilepsy 2 and neurodevelopmental disorder with speech impairment and dysmorphic facies. Orthologous to human SETD1A (SET domain containing 1A, histone lysine methyltransferase) and SETD1B (SET domain containing 1B, histone lysine methyltransferase). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See SET1 in Genome Data Viewer

Location:: chromosome: VIII

Exon count:: 1

Sequence:: Chromosome: VIII; NC_001140.6 (346043..349285)

Chromosome VIII - NC_001140.6 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001140.6

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Cla4 phosphorylates histone methyltransferase Set1 to prevent its degradation by the APC/C[Cdh1] complex.
Title: Cla4 phosphorylates histone methyltransferase Set1 to prevent its degradation by the APC/C(Cdh1) complex.
Diverse and dynamic forms of gene regulation by the S. cerevisiae histone methyltransferase Set1.
Title: Diverse and dynamic forms of gene regulation by the S. cerevisiae histone methyltransferase Set1.
Set1 regulates telomere function via H3K4 methylation-dependent and -independent pathways and calibrates the abundance of telomere maintenance factors.
Title: Set1 regulates telomere function via H3K4 methylation-dependent and -independent pathways and calibrates the abundance of telomere maintenance factors.
Distinct requirements for the COMPASS core subunits Set1, Swd1, and Swd3 during meiosis in the budding yeast Saccharomyces cerevisiae.
Title: Distinct requirements for the COMPASS core subunits Set1, Swd1, and Swd3 during meiosis in the budding yeast Saccharomyces cerevisiae.
Set1-dependent H3K4 methylation becomes critical for limiting DNA damage in response to changes in S-phase dynamics in Saccharomyces cerevisiae.
Title: Set1-dependent H3K4 methylation becomes critical for limiting DNA damage in response to changes in S-phase dynamics in Saccharomyces cerevisiae.
Methylation of histone H3 at lysine 37 by Set1 and Set2 prevents spurious DNA replication.
Title: Methylation of histone H3 at lysine 37 by Set1 and Set2 prevents spurious DNA replication.
the histone H3K4 methyltransferase Set1, and the histone H3K36 methyltransferase Set2, control choice ofpolyadenylation site in Saccharomyces cerevisiae
Title: Regulation of alternative polyadenylation in the yeast Saccharomyces cerevisiae by histone H3K4 and H3K36 methyltransferases.
Set1 N-terminal region and the COMPASS subunit Swd2, which interact with each other, are both needed for efficient RNA polymerase II C-terminal domain binding in Saccharomyces cerevisiae.
Title: The Set1 N-terminal domain and Swd2 interact with RNA polymerase II CTD to recruit COMPASS.
Set1 N-terminal basic motifs are involved in H2B ubiquitylation-dependent H3K4 methylation.
Title: Crosstalk among Set1 complex subunits involved in H2B ubiquitylation-dependent H3K4 methylation.
A model has been proposed wherein combined actions of Set1 and Jhd2 via modulating H3K4 methylation-demethylation together control chromatin dynamics during various facets of transcriptional regulation.
Title: Counteracting H3K4 methylation modulators Set1 and Jhd2 co-regulate chromatin dynamics and gene transcription.

Submit: New GeneRIF Correction See all GeneRIFs (35)

Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
enables RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables RNA binding	IMP Inferred from Mutant Phenotype more info	PubMed
contributes_to histone H3K4 methyltransferase activity	IDA Inferred from Direct Assay more info	PubMed
enables histone H3K4 methyltransferase activity	IEA Inferred from Electronic Annotation more info
contributes_to histone H3K4 methyltransferase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables histone H3K4 trimethyltransferase activity	IEA Inferred from Electronic Annotation more info
enables methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables protein-lysine N-methyltransferase activity	IGI Inferred from Genetic Interaction more info	PubMed
enables protein-lysine N-methyltransferase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables zinc ion binding	RCA inferred from Reviewed Computational Analysis more info	PubMed

Process	Evidence Code	Pubs
involved_in ascospore formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cellular response to stress	IGI Inferred from Genetic Interaction more info	PubMed
involved_in cellular response to stress	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in chromatin organization	IEA Inferred from Electronic Annotation more info
involved_in meiotic DNA double-strand break formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in methylation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of chromatin organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of meiotic DNA double-strand break formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in silent mating-type cassette heterochromatin formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in subtelomeric heterochromatin formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in telomere maintenance	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of Set1C/COMPASS complex	IBA Inferred from Biological aspect of Ancestor more info
part_of Set1C/COMPASS complex	IEA Inferred from Electronic Annotation more info
part_of Set1C/COMPASS complex	IPI Inferred from Physical Interaction more info	PubMed
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: histone methyltransferase SET1

NP_011987.1

EC 2.1.1.354

Histone methyltransferase, subunit of the COMPASS (Set1C) complex; COMPASS methylates histone H3K4; Set1p-dependent H3K4 trimethylation recruits Nrd1p, allowing efficient termination of snoRNAs and cryptic unstable transcripts (CUTs) by Nrd1p-Nab3p-Sen1p pathway; modulates histone acetylation levels in promoter proximal regions to ensure efficient Nrd1p-dependent termination; required in transcriptional silencing near telomeres and at silent mating type loci; has a SET domain

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_001140.6 Reference assembly

Range

346043..349285

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001179249.1 → NP_011987.1 TPA: histone methyltransferase SET1 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_011987.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D3DL69, P38827

UniProtKB/TrEMBL

B3LSN4, B5VK54, N1P2T0

Conserved Domains (3) summary

COG2940
Location:612 → 1080

SET; SET domain-containing protein (function unknown) [General function prediction only]

pfam11767
Location:422 → 486

SET_assoc; Histone lysine methyltransferase SET associated

cd12302
Location:246 → 360

RRM_scSet1p_like; RNA recognition motif in budding yeast Saccharomyces cerevisiae SET domain-containing protein 1 (scSet1p) and similar proteins