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set-2 Histone-lysine N-methyltransferase set-2 [ Caenorhabditis elegans ]

Gene ID: 175662, updated on 2-Nov-2024

Summary

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Official Symbol
set-2
Official Full Name
Histone-lysine N-methyltransferase set-2
Primary source
WormBase:WBGene00004782
Locus tag
CELE_C26E6.9
See related
AllianceGenome:WB:WBGene00004782
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Caenorhabditis elegans (strain: Bristol N2)
Lineage
Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary
Enables histone H3K4 methyltransferase activity. Involved in determination of adult lifespan and transdifferentiation. Located in nucleus. Is expressed in several structures, including germ line; hermaphrodite distal tip cell; hypodermis; nerve ring; and neurons. Human ortholog(s) of this gene implicated in early-onset epilepsy 2 and neurodevelopmental disorder with speech impairment and dysmorphic facies. Orthologous to several human genes including SETD1A (SET domain containing 1A, histone lysine methyltransferase). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See set-2 in Genome Data Viewer
Location:
chromosome: III
Exon count:
17
Sequence:
Chromosome: III; NC_003281.10 (4922427..4930204, complement)

Chromosome III - NC_003281.10Genomic Context describing neighboring genes Neighboring gene NEDD8-activating enzyme E1 regulatory subunit Neighboring gene Cobalamin adenosyltransferase-like domain-containing protein Neighboring gene OBG-type G domain-containing protein Neighboring gene Zc3h12a-like Ribonuclease NYN domain-containing protein

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003281.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. The C. elegans SET-2/SET1 histone H3 Lys4 (H3K4) methyltransferase preserves genome stability in the germline. Herbette M, et al. DNA Repair (Amst), 2017 Sep. PMID 28779964
  2. Transgenerational effects of proton beam irradiation on Caenorhabditis elegans germline apoptosis. Min H, et al. Biochem Biophys Res Commun, 2017 Aug 26. PMID 28630005
  3. The C. elegans SET1 histone methyltransferase SET-2 is not required for transgenerational memory of silencing. Bedet C, et al. MicroPubl Biol, 2024. PMID 38808193, Free PMC Article
  4. CFP-1 interacts with HDAC1/2 complexes in C. elegans development. Pokhrel B, et al. FEBS J, 2019 Jul. PMID 30941832
  5. A cellular memory of developmental history generates phenotypic diversity in C. elegans. Hall SE, et al. Curr Biol, 2010 Jan 26. PMID 20079644, Free PMC Article

See all (50) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Animals lacking SET-2 catalytic subunit show transgenerational increase in sensitivity to DNA damage-inducing agents that is accompanied by defect in DSB repair. These defects are not due to failure to activate the DNA damage response that allows detection, signaling and repair of DNA lesions, because cell cycle arrest and apoptosis, key components of this pathway, are efficiently induced in set2 mutants.
    Title: The C. elegans SET-2/SET1 histone H3 Lys4 (H3K4) methyltransferase preserves genome stability in the germline.
  2. SET-2 is responsible for the majority of bulk H3K4 methylation at all developmental stages
    Title: Caenorhabditis elegans chromatin-associated proteins SET-2 and ASH-2 are differentially required for histone H3 Lys 4 methylation in embryos and adult germ cells.
  3. These results suggest that HP1 and a SET1/MLL-related complex may play antagonistic roles in the epigenetic regulation of specific developmental programs.
    Title: Antagonistic functions of SET-2/SET1 and HPL/HP1 proteins in C. elegans development.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by WormBase

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables histone H3K4 methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables histone H3K4 methyltransferase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables histone H3K4 methyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables histone H3K4 trimethyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables methyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in chromatin organization IEA
Inferred from Electronic Annotation
more info
  
involved_in chromatin remodeling IEA
Inferred from Electronic Annotation
more info
  
involved_in determination of adult lifespan IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in methylation IEA
Inferred from Electronic Annotation
more info
  
involved_in transdifferentiation IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in transdifferentiation 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
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
Histone-lysine N-methyltransferase set-2
NP_498039.1
  • Confirmed by transcript evidence
NP_498040.1
  • Confirmed by transcript evidence
NP_498041.1
  • Confirmed by transcript evidence

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

  1. NC_003281.10 Reference assembly

    Range
    4922427..4930204 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_065640.6 → NP_498041.1  Histone-lysine N-methyltransferase set-2 [Caenorhabditis elegans]

    See identical proteins and their annotated locations for NP_498041.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q18221
    Conserved Domains (3) summary
    smart00317
    Location:602 → 723
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
    smart00508
    Location:723 → 739
    PostSET; Cysteine-rich motif following a subset of SET domains
    COG2940
    Location:593 → 739
    SET; SET domain-containing protein (function unknown) [General function prediction only]

  2. NM_065639.7 → NP_498040.1  Histone-lysine N-methyltransferase set-2 [Caenorhabditis elegans]

    See identical proteins and their annotated locations for NP_498040.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q18221, Q95QU6, Q95QU7
    Conserved Domains (4) summary
    smart00317
    Location:1370 → 1491
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
    smart00508
    Location:1491 → 1507
    PostSET; Cysteine-rich motif following a subset of SET domains
    COG2940
    Location:1361 → 1507
    SET; SET domain-containing protein (function unknown) [General function prediction only]
    cl17169
    Location:124 → 213
    RRM_SF; RNA recognition motif (RRM) superfamily

  3. NM_065638.6 → NP_498039.1  Histone-lysine N-methyltransferase set-2 [Caenorhabditis elegans]

    See identical proteins and their annotated locations for NP_498039.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q18221
    Conserved Domains (4) summary
    smart00317
    Location:1373 → 1494
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
    smart00508
    Location:1494 → 1510
    PostSET; Cysteine-rich motif following a subset of SET domains
    COG2940
    Location:1364 → 1510
    SET; SET domain-containing protein (function unknown) [General function prediction only]
    cl17169
    Location:124 → 213
    RRM_SF; RNA recognition motif (RRM) superfamily
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q18221.2

Gene LinkOut

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