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Kdm3 Lysine demethylase 3 [ Drosophila melanogaster (fruit fly) ]

Gene ID: 41143, updated on 9-Dec-2024

Summary

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Official Symbol
Kdm3provided by FlyBase
Official Full Name
Lysine demethylase 3provided by FlyBase
Primary source
FLYBASE:FBgn0037703
Locus tag
Dmel_CG8165
See related
AllianceGenome:FB:FBgn0037703
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Drosophila melanogaster
Lineage
Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
Also known as
CG31123; CG8165; Dmel\CG8165; JHDM2; kdm3; KDM3
Summary
Enables histone H3K9me/H3K9me2 demethylase activity. Involved in negative regulation of DNA methylation-dependent heterochromatin formation. Located in chromatin. Used to study alcohol use disorder. Human ortholog(s) of this gene implicated in alopecia; alopecia universalis; atrichia with papular lesions; cervical cancer; and colon cancer. Orthologous to several human genes including KDM3A (lysine demethylase 3A) and KDM3B (lysine demethylase 3B). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs
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Genomic context

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See Kdm3 in Genome Data Viewer
Location:
85D19-85D19; 3-48 cM
Exon count:
3
Annotation release Status Assembly Chr Location
Release 6.54 current Release 6 plus ISO1 MT (GCF_000001215.4) 3R NT_033777.3 (9516007..9520938)
Release 5.57 previous assembly Release 5 (GCF_000001215.2) 3R NT_033777.2 (5341729..5346660)

Chromosome 3R - NT_033777.3Genomic Context describing neighboring genes Neighboring gene Ras oncogene at 85D Neighboring gene Rlb1 Neighboring gene mitochondrial ribosomal protein L47 Neighboring gene uncharacterized protein Neighboring gene mir-2283 stem loop Neighboring gene blistery Neighboring gene murashka Neighboring gene long non-coding RNA:CR42549

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Evolution of functional diversity in the cupin superfamily. Dunwell JM, et al. Trends Biochem Sci, 2001 Dec. PMID 11738598
  2. Little imaginal discs, a Trithorax group member, is a constituent of nuclear matrix of Drosophila melanogaster embryos. Varma P, et al. J Biosci, 2018 Sep. PMID 30207309
  3. Histone methylation regulates reproductive diapause in Drosophila melanogaster. DiVito Evans A, et al. PLoS Genet, 2023 Sep. PMID 37703303, Free PMC Article
  4. Targeted Downregulation of kdm4a Ameliorates Tau-engendered Defects in Drosophila melanogaster. Park SY, et al. J Korean Med Sci, 2019 Aug 26. PMID 31436053, Free PMC Article
  5. Epigenetic Mechanisms of Alcohol Neuroadaptation: Insights from Drosophila. Ramirez-Roman ME, et al. J Exp Neurosci, 2018. PMID 29899666, Free PMC Article

See all (44) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. However, for the N terminal region harboring both a PHD and an ARID finger, Lid anchors to the NuMat via both protein-protein and protein-DNA interactions. The association of JmjC domain with NuMat is the first report of the association of a demethylase domain with NuMat suggesting that Lid, a demethylase, being part of NuMat might be involved in regulating the chromatin dynamics via its NuMat association.
    Title: Little imaginal discs, a Trithorax group member, is a constituent of nuclear matrix of Drosophila melanogaster embryos.
  2. Paper describes the multifunctional cupin superfamily. This protein contains the cupin signature at its C-terminus. Residues H643, D645, and H774 represent the conserved Fe binding ligands of the active site of this presumed dioxygenase subtype.
    Title: Evolution of functional diversity in the cupin superfamily.
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

  • mir-2283-RA; Dmel\mir-2283-RA; CR42887-RA; Dmel\CR42887-RA
  • mir-2283-RB; Dmel\mir-2283-RB; CR42887-RB; Dmel\CR42887-RB

Gene Ontology Provided by FlyBase

Function Evidence Code Pubs
enables chromatin DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables histone H3K9 demethylase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables histone H3K9 demethylase activity IEA
Inferred from Electronic Annotation
more info
  
enables histone H3K9me/H3K9me2 demethylase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables histone H3K9me/H3K9me2 demethylase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables transcription coregulator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in negative regulation of heterochromatin formation IMP
Inferred from Mutant Phenotype
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
located_in chromatin IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in chromatin IDA
Inferred from Direct Assay
more info
 PubMed 
part_of histone deacetylase complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISM
Inferred from Sequence Model
more info
 PubMed 

General protein information

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Preferred Names
lysine demethylase 3
Names
CG8165-PA
CG8165-PB
JmjC domain-containing histone demethylase 2
Kdm3-PA
Kdm3-PB
NP_001287255.1
NP_788611.1

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. NT_033777.3 Reference assembly

    Range
    9516007..9520938
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_176434.2 → NP_788611.1  lysine demethylase 3, isoform A [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_788611.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q9VHC5
    Related
    FBpp0081541
    Conserved Domains (2) summary
    smart00558
    Location:605 → 657
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    cl21464
    Location:694 → 789
    cupin_like; Conserved domain found in cupin and related proteins

  2. NM_001300326.1 → NP_001287255.1  lysine demethylase 3, isoform B [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_001287255.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q9VHC5
    Conserved Domains (2) summary
    smart00558
    Location:605 → 657
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    cl21464
    Location:694 → 789
    cupin_like; Conserved domain found in cupin and related proteins
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9VHC5 Q9VHC5

Gene LinkOut

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