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

    Gene ID: 175662, updated on 9-Dec-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, Dec 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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