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    JHD1 [Histone H3]-lysine-36 demethylase [ Saccharomyces cerevisiae S288C ]

    Gene ID: 856777, updated on 14-Nov-2024

    Summary

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    Official Symbol
    JHD1
    Official Full Name
    [Histone H3]-lysine-36 demethylase
    Primary source
    SGD:S000000853
    Locus tag
    YER051W
    See related
    AllianceGenome:SGD:S000000853; FungiDB:YER051W; VEuPathDB:YER051W
    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
    KDM2
    Summary
    Enables histone H3K36 demethylase activity and methylated histone binding activity. Involved in positive regulation of transcription elongation by RNA polymerase II. Predicted to be located in nucleus. Human ortholog(s) of this gene implicated in lung non-small cell carcinoma; melanoma; and syndromic X-linked intellectual disability Siderius type. Orthologous to several human genes including KDM2B (lysine demethylase 2B). [provided by Alliance of Genome Resources, Nov 2024]
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    Genomic context

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    See JHD1 in Genome Data Viewer
    Location:
    chromosome: V
    Exon count:
    1
    Sequence:
    Chromosome: V; NC_001137.3 (254656..256134)

    Chromosome V - NC_001137.3Genomic Context describing neighboring genes Neighboring gene oxidative DNA demethylase Neighboring gene mitochondrial 37S ribosomal protein RSM18 Neighboring gene aspartate kinase Neighboring gene Cu/Pi carrier

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_001137.3

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. The Saccharomyces cerevisiae histone demethylase Jhd1 fine-tunes the distribution of H3K36me2. Fang J, et al. Mol Cell Biol, 2007 Jul. PMID 17470555, Free PMC Article
    2. Site-specific Phosphorylation of Histone H3K36 Methyltransferase Set2p and Demethylase Jhd1p is Required for Stress Responses in Saccharomyces cerevisiae. Separovich RJ, et al. J Mol Biol, 2022 Apr 15. PMID 35183557
    3. Succinate inhibition of alpha-ketoglutarate-dependent enzymes in a yeast model of paraganglioma. Smith EH, et al. Hum Mol Genet, 2007 Dec 15. PMID 17884808
    4. Identification of histone demethylases in Saccharomyces cerevisiae. Tu S, et al. J Biol Chem, 2007 May 11. PMID 17369256, Free PMC Article
    5. Histone demethylation by a family of JmjC domain-containing proteins. Tsukada Y, et al. Nature, 2006 Feb 16. PMID 16362057

    See all (28) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Site-specific Phosphorylation of Histone H3K36 Methyltransferase Set2p and Demethylase Jhd1p is Required for Stress Responses in Saccharomyces cerevisiae.
      Title: Site-specific Phosphorylation of Histone H3K36 Methyltransferase Set2p and Demethylase Jhd1p is Required for Stress Responses in Saccharomyces cerevisiae.
    2. Possible role for jhd1 enzyme, through inhibition by succinate in paraganglioma oncogenesis.
      Title: Succinate inhibition of alpha-ketoglutarate-dependent enzymes in a yeast model of paraganglioma.
    3. Jhd1 and Rph1 demethylate histone H3 Lys36 in transcribed regions to promote elongation
      Title: Two Saccharomyces cerevisiae JmjC domain proteins demethylate histone H3 Lys36 in transcribed regions to promote elongation.
    4. These studies establish Jhd1 as a histone demethylase in budding yeast and suggest that Jhd1 functions to maintain the fidelity of histone methylation patterns along transcription units.
      Title: The Saccharomyces cerevisiae histone demethylase Jhd1 fine-tunes the distribution of H3K36me2.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by SGD

    Function Evidence Code Pubs
    enables dioxygenase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K36 demethylase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone H3K36 demethylase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables histone H3K36me/H3K36me2 demethylase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone demethylase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables methylated histone binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables transcription coregulator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables zinc ion binding RCA
    inferred from Reviewed Computational Analysis
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in chromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chromatin remodeling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of transcription elongation by RNA polymerase II IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    [Histone H3]-lysine-36 demethylase
    NP_010971.1
    • JmjC domain family histone demethylase specific for H3-K36; similar to proteins found in human, mouse, drosophila, X. laevis, C. elegans, and S. pombe

    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_001137.3 Reference assembly

      Range
      254656..256134
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001178942.1 → NP_010971.1  TPA: [Histone H3]-lysine-36 demethylase [Saccharomyces cerevisiae S288C]

      See identical proteins and their annotated locations for NP_010971.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      D3DLV3, P40034
      UniProtKB/TrEMBL
      B3LS64, B5VHI4, C7GSK0, C8Z755
      Conserved Domains (2) summary
      smart00249
      Location:6 → 69
      PHD; PHD zinc finger
      smart00558
      Location:278 → 320
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P40034.1

    Gene LinkOut

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