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Aliases for KDM7A Gene

Aliases for KDM7A Gene

  • Lysine (K)-Specific Demethylase 7A 2 3
  • JmjC Domain-Containing Histone Demethylation Protein 1D 3 4
  • Lysine-Specific Demethylase 7 3 4
  • JHDM1D 3 4
  • Jumonji C Domain Containing Histone Demethylase 1 Homolog D (S. Cerevisiae) 2
  • Jumonji C Domain Containing Histone Demethylase 1 Homolog D 3
  • Jumonji C Domain-Containing Histone Demethylase 1 Homolog D 3
  • Histone Lysine Demethylase JHDM1D 3
  • Lysine-Specific Demethylase 7A 3
  • EC 1.14.11.- 4
  • KIAA1718 4
  • KDM7 4

External Ids for KDM7A Gene

Previous Symbols for KDM7A Gene

  • JHDM1D

Summaries for KDM7A Gene

GeneCards Summary for KDM7A Gene

KDM7A (Lysine (K)-Specific Demethylase 7A) is a Protein Coding gene. An important paralog of this gene is KDM2B.

UniProtKB/Swiss-Prot for KDM7A Gene

  • Histone demethylase required for brain development. Specifically demethylates dimethylated Lys-9 and Lys-27 (H3K9me2 and H3K27me2, respectively) of histone H3 and monomethylated histone H4 Lys-20 residue (H4K20Me1), thereby playing a central role in histone code. Specifically binds trimethylated Lys-4 of histone H3 (H3K4me3), affecting histone demethylase specificity: in presence of H3K4me3, it has no demethylase activity toward H3K9me2, while it has high activity toward H3K27me2. Demethylates H3K9me2 in absence of H3K4me3. Has activity toward H4K20Me1 only when nucleosome is used as a substrate and when not histone octamer is used as substrate.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for KDM7A Gene

Genomics for KDM7A Gene

Genomic Location for KDM7A Gene

Start:
140,084,746 bp from pter
End:
140,177,035 bp from pter
Size:
92,290 bases
Orientation:
Minus strand

Genomic View for KDM7A Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for KDM7A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for KDM7A Gene

No data available for Regulatory Elements for KDM7A Gene

Proteins for KDM7A Gene

  • Protein details for KDM7A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6ZMT4-KDM7A_HUMAN
    Recommended name:
    Lysine-specific demethylase 7A
    Protein Accession:
    Q6ZMT4
    Secondary Accessions:
    • A4D1S9
    • C9JJH9
    • C9JQU2
    • Q6MZL8
    • Q9C0E5

    Protein attributes for KDM7A Gene

    Size:
    941 amino acids
    Molecular mass:
    106557 Da
    Cofactor:
    Name=Fe(2+); Xref=ChEBI:CHEBI:29033; Note=Binds 1 Fe(2+) ion per subunit.;
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAD18641.1; Type=Frameshift; Positions=902; Evidence={ECO:0000305}; Sequence=EAL24032.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for KDM7A Gene

    Alternative splice isoforms for KDM7A Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for KDM7A Gene

Proteomics data for KDM7A Gene at MOPED

Post-translational modifications for KDM7A Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for KDM7A Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for KDM7A Gene

Domains for KDM7A Gene

Gene Families for KDM7A Gene

HGNC:
  • PHF :Zinc fingers, PHD-type
  • KDM :Chromatin-modifying enzymes / K-demethylases

Graphical View of Domain Structure for InterPro Entry

Q6ZMT4

UniProtKB/Swiss-Prot:

KDM7A_HUMAN
Domain:
  • The PHD-type zinc finger mediates the binding to H3K4me3. Binding to H3K4me3 prevents its access to H3K9me2.:
    • Q6ZMT4
  • The linker region is a critical determinant of demethylase specificity. It prevents the active site of JmjC to reach the target H3K9me2 when the PHD-type zinc finger binds to H3K4me3, while it favors selectivity toward H3K27me2.:
    • Q6ZMT4
  • Contains 1 JmjC domain.:
    • Q6ZMT4
Family:
  • Belongs to the JHDM1 histone demethylase family. JHDM1D subfamily.:
    • Q6ZMT4
Similarity:
  • Contains 1 PHD-type zinc finger.:
    • Q6ZMT4
genes like me logo Genes that share domains with KDM7A: view

No data available for Suggested Antigen Peptide Sequences for KDM7A Gene

Function for KDM7A Gene

Molecular function for KDM7A Gene

UniProtKB/Swiss-Prot BiophysicochemicalProperties: Kinetic parameters: KM=1.2 uM for histone H3 H3K9Me2 {ECO:0000269 PubMed:20023638};
UniProtKB/Swiss-Prot Function: Histone demethylase required for brain development. Specifically demethylates dimethylated Lys-9 and Lys-27 (H3K9me2 and H3K27me2, respectively) of histone H3 and monomethylated histone H4 Lys-20 residue (H4K20Me1), thereby playing a central role in histone code. Specifically binds trimethylated Lys-4 of histone H3 (H3K4me3), affecting histone demethylase specificity: in presence of H3K4me3, it has no demethylase activity toward H3K9me2, while it has high activity toward H3K27me2. Demethylates H3K9me2 in absence of H3K4me3. Has activity toward H4K20Me1 only when nucleosome is used as a substrate and when not histone octamer is used as substrate.

Enzyme Numbers (IUBMB) for KDM7A Gene

Gene Ontology (GO) - Molecular Function for KDM7A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005506 iron ion binding TAS 20194436
GO:0005515 protein binding --
GO:0008270 zinc ion binding IDA 20023638
GO:0016706 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors IDA 20023638
GO:0032454 histone demethylase activity (H3-K9 specific) IDA 20023638
genes like me logo Genes that share ontologies with KDM7A: view
genes like me logo Genes that share phenotypes with KDM7A: view

miRNA for KDM7A Gene

miRTarBase miRNAs that target KDM7A

No data available for Animal Models , Transcription Factor Targeting and HOMER Transcription for KDM7A Gene

Localization for KDM7A Gene

Subcellular locations from UniProtKB/Swiss-Prot for KDM7A Gene

Gene Ontology (GO) - Cellular Components for KDM7A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IC 20023638
GO:0005654 nucleoplasm TAS --
GO:0005730 nucleolus IDA --
genes like me logo Genes that share ontologies with KDM7A: view

No data available for Subcellular locations from COMPARTMENTS for KDM7A Gene

Pathways for KDM7A Gene

SuperPathways for KDM7A Gene

No Data Available

Interacting Proteins for KDM7A Gene

Gene Ontology (GO) - Biological Process for KDM7A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006325 chromatin organization TAS --
GO:0006351 transcription, DNA-templated IEA --
GO:0030901 midbrain development ISS --
GO:0033169 histone H3-K9 demethylation IDA 20023638
GO:0035574 histone H4-K20 demethylation IDA 20622853
genes like me logo Genes that share ontologies with KDM7A: view

No data available for Pathways by source for KDM7A Gene

Transcripts for KDM7A Gene

mRNA/cDNA for KDM7A Gene

(3) REFSEQ mRNAs :
(10) Selected AceView cDNA sequences:
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for KDM7A Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15
SP1: -
SP2:

Relevant External Links for KDM7A Gene

GeneLoc Exon Structure for
KDM7A
ECgene alternative splicing isoforms for
KDM7A

Expression for KDM7A Gene

mRNA expression in normal human tissues for KDM7A Gene

mRNA differential expression in normal tissues according to GTEx for KDM7A Gene

This gene is overexpressed in Muscle - Skeletal (4.3).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for KDM7A Gene

genes like me logo Genes that share expressions with KDM7A: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA Expression by UniProt/SwissProt for KDM7A Gene

Orthologs for KDM7A Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for KDM7A Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia JHDM1D 35
  • 99.72 (n)
  • 99.68 (a)
KDM7A 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia JHDM1D 35
  • 93.46 (n)
  • 93.27 (a)
KDM7A 36
  • 93 (a)
OneToOne
dog
(Canis familiaris)
Mammalia JHDM1D 35
  • 93.55 (n)
  • 93.99 (a)
KDM7A 36
  • 94 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Jhdm1d 16
Jhdm1d 36
  • 90 (a)
OneToOne
Kdm7a 35
  • 90.84 (n)
  • 90.24 (a)
oppossum
(Monodelphis domestica)
Mammalia KDM7A 36
  • 86 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia KDM7A 36
  • 79 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Jhdm1d 35
  • 90.66 (n)
  • 90.5 (a)
chicken
(Gallus gallus)
Aves JHDM1D 35
  • 79.13 (n)
  • 80.57 (a)
KDM7A 36
  • 80 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia KDM7A 36
  • 70 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia kdm7a 35
  • 68.41 (n)
  • 71.33 (a)
zebrafish
(Danio rerio)
Actinopterygii kdm7aa 36
  • 54 (a)
OneToMany
kdm7ab 35
  • 63.21 (n)
  • 63.75 (a)
kdm7ab 36
  • 56 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea jmjd-1.1 36
  • 27 (a)
ManyToMany
jmjd-1.2 36
  • 19 (a)
ManyToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes JHD1 36
  • 27 (a)
OneToMany
Species with no ortholog for KDM7A:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for KDM7A Gene

ENSEMBL:
Gene Tree for KDM7A (if available)
TreeFam:
Gene Tree for KDM7A (if available)

Paralogs for KDM7A Gene

Paralogs for KDM7A Gene

Selected SIMAP similar genes for KDM7A Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with KDM7A: view

Variants for KDM7A Gene

Sequence variations from dbSNP and Humsavar for KDM7A Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type MAF
rs10984 -- 140,085,224(+) ACCCC(A/C)AACAA utr-variant-3-prime
rs41377 -- 140,153,430(-) cggct(C/T)actgc intron-variant
rs41378 -- 140,153,337(-) agcta(A/G)ttttt intron-variant
rs41379 -- 140,153,323(-) atttt(C/T)agtag intron-variant
rs41380 -- 140,152,956(-) cttga(A/G)cccag intron-variant

Relevant External Links for KDM7A Gene

HapMap Linkage Disequilibrium report
KDM7A

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for KDM7A Gene

Disorders for KDM7A Gene

No disorders were found for KDM7A Gene.

No data available for UniProtKB/Swiss-Prot for KDM7A Gene

Publications for KDM7A Gene

  1. Enzymatic and structural insights for substrate specificity of a family of jumonji histone lysine demethylases. (PMID: 20023638) Horton J.R. … Cheng X. (Nat. Struct. Mol. Biol. 2010) 2 3 4
  2. Dual-specificity histone demethylase KIAA1718 (KDM7A) regulates neural differentiation through FGF4. (PMID: 20084082) Huang C. … Chen C.D. (Cell Res. 2010) 2 3
  3. KDM7 is a dual demethylase for histone H3 Lys 9 and Lys 27 and functions in brain development. (PMID: 20194436) Tsukada Y. … Nakayama K.I. (Genes Dev. 2010) 3 4
  4. Histone H4K20/H3K9 demethylase PHF8 regulates zebrafish brain and craniofacial development. (PMID: 20622853) Qi H.H. … Shi Y. (Nature 2010) 3 4
  5. Prediction of the coding sequences of unidentified human genes. XIX. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 11214970) Nagase T. … Ohara O. (DNA Res. 2000) 3 4

Products for KDM7A Gene

Sources for KDM7A Gene

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