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Aliases for DPF3 Gene

Aliases for DPF3 Gene

  • D4, Zinc And Double PHD Fingers, Family 3 2 3
  • CERD4 3 4 6
  • Zinc Finger Protein Cer-D4 3 4
  • BRG1-Associated Factor 45C 3 4
  • BAF45C 3 4
  • Zinc Finger Protein DPF3 3

External Ids for DPF3 Gene

Summaries for DPF3 Gene

Entrez Gene Summary for DPF3 Gene

  • This gene encodes a member of the D4 protein family. The encoded protein is a transcription regulator that binds acetylated histones and is a component of the BAF chromatin remodeling complex. Alternate splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2013]

GeneCards Summary for DPF3 Gene

DPF3 (D4, Zinc And Double PHD Fingers, Family 3) is a Protein Coding gene. An important paralog of this gene is DPF2.

UniProtKB/Swiss-Prot for DPF3 Gene

  • Belongs to the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth (By similarity). Muscle-specific component of the BAF complex, a multiprotein complex involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). Specifically binds acetylated lysines on histone 3 and 4 (H3K14ac, H3K9ac, H4K5ac, H4K8ac, H4K12ac, H4K16ac). In the complex, it acts as a tissue-specific anchor between histone acetylations and methylations and chromatin remodeling. It thereby probably plays an essential role in heart and skeletal muscle development.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for DPF3 Gene

Genomics for DPF3 Gene

Genomic Location for DPF3 Gene

Start:
72,616,185 bp from pter
End:
72,894,116 bp from pter
Size:
277,932 bases
Orientation:
Minus strand

Genomic View for DPF3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for DPF3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for DPF3 Gene

Regulatory Elements for DPF3 Gene

Proteins for DPF3 Gene

  • Protein details for DPF3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q92784-DPF3_HUMAN
    Recommended name:
    Zinc finger protein DPF3
    Protein Accession:
    Q92784
    Secondary Accessions:
    • A8MSI3
    • B7Z276
    • F5H575
    • Q32UJ0
    • Q6P9E6
    • Q6ZT41
    • Q9H7Y5

    Protein attributes for DPF3 Gene

    Size:
    378 amino acids
    Molecular mass:
    43084 Da
    Quaternary structure:
    • Component of the BAF complex, which includes at least actin (ACTB), ARID1A, ARID1B/BAF250, SMARCA2, SMARCA4/BRG1/BAF190A, ACTL6A/BAF53, ACTL6B/BAF53B, SMARCE1/BAF57, SMARCC1/BAF155, SMARCC2/BAF170, SMARCB1/SNF5/INI1, and one or more of SMARCD1/BAF60A, SMARCD2/BAF60B, or SMARCD3/BAF60C. In muscle cells, the BAF complex also contains DPF3. Interacts with acetylated histones H3 and H4. Component of neuron-specific chromatin remodeling complex (nBAF complex) composed of at least, ARID1A/BAF250A or ARID1B/BAF250B, SMARCD1/BAF60A, SMARCD3/BAF60C, SMARCA2/BRM/BAF190B, SMARCA4/BRG1/BAF190A, SMARCB1/BAF47, SMARCC1/BAF155, SMARCE1/BAF57, SMARCC2/BAF170, DPF1/BAF45B, DPF3/BAF45C, ACTL6B/BAF53B and actin (By similarity).

    Three dimensional structures from OCA and Proteopedia for DPF3 Gene

    Alternative splice isoforms for DPF3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for DPF3 Gene

Proteomics data for DPF3 Gene at MOPED

Post-translational modifications for DPF3 Gene

No Post-translational modifications

No data available for DME Specific Peptides for DPF3 Gene

Domains for DPF3 Gene

Gene Families for DPF3 Gene

HGNC:
  • PHF :Zinc fingers, PHD-type

UniProtKB/Swiss-Prot:

DPF3_HUMAN
Domain:
  • The PHD-type zinc fingers mediate the binding to acetylated histones.:
    • Q92784
Family:
  • Belongs to the requiem/DPF family.:
    • Q92784
Similarity:
  • Contains 1 C2H2-type zinc finger.:
    • Q92784
  • Contains 2 PHD-type zinc fingers.:
    • Q92784
genes like me logo Genes that share domains with DPF3: view

Function for DPF3 Gene

Molecular function for DPF3 Gene

UniProtKB/Swiss-Prot Function: Belongs to the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth (By similarity). Muscle-specific component of the BAF complex, a multiprotein complex involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). Specifically binds acetylated lysines on histone 3 and 4 (H3K14ac, H3K9ac, H4K5ac, H4K8ac, H4K12ac, H4K16ac). In the complex, it acts as a tissue-specific anchor between histone acetylations and methylations and chromatin remodeling. It thereby probably plays an essential role in heart and skeletal muscle development.

Gene Ontology (GO) - Molecular Function for DPF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding --
GO:0008270 zinc ion binding NAS 8812431
GO:0046872 metal ion binding --
genes like me logo Genes that share ontologies with DPF3: view

miRNA for DPF3 Gene

miRTarBase miRNAs that target DPF3

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , Transcription Factor Targeting and HOMER Transcription for DPF3 Gene

Localization for DPF3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for DPF3 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for DPF3 Gene COMPARTMENTS Subcellular localization image for DPF3 gene
Compartment Confidence
nucleus 4
cytosol 2

Gene Ontology (GO) - Cellular Components for DPF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0071565 nBAF complex ISS --
genes like me logo Genes that share ontologies with DPF3: view

Pathways for DPF3 Gene

SuperPathways for DPF3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for DPF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002230 positive regulation of defense response to virus by host IMP 22020285
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0007399 nervous system development IEA --
GO:0008150 biological_process ND --
genes like me logo Genes that share ontologies with DPF3: view

No data available for Pathways by source for DPF3 Gene

Transcripts for DPF3 Gene

Unigene Clusters for DPF3 Gene

D4, zinc and double PHD fingers, family 3:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for DPF3 Gene

No ASD Table

Relevant External Links for DPF3 Gene

GeneLoc Exon Structure for
DPF3
ECgene alternative splicing isoforms for
DPF3

Expression for DPF3 Gene

mRNA expression in normal human tissues for DPF3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for DPF3 Gene

This gene is overexpressed in Muscle - Skeletal (6.6), Brain - Cerebellar Hemisphere (5.0), Heart - Left Ventricle (4.6), and Brain - Cerebellum (4.3).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for DPF3 Gene

SOURCE GeneReport for Unigene cluster for DPF3 Gene Hs.162868

genes like me logo Genes that share expressions with DPF3: view

Orthologs for DPF3 Gene

This gene was present in the common ancestor of animals.

Orthologs for DPF3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia DPF3 36
  • 99.89 (n)
  • 100 (a)
DPF3 37
  • 85 (a)
OneToOne
cow
(Bos Taurus)
Mammalia DPF3 36
  • 93.56 (n)
  • 99.74 (a)
DPF3 37
  • 78 (a)
OneToOne
dog
(Canis familiaris)
Mammalia DPF3 36
  • 87.85 (n)
  • 93.42 (a)
DPF3 37
  • 100 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Dpf3 36
  • 92.15 (n)
  • 99.74 (a)
Dpf3 16
Dpf3 37
  • 80 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia DPF3 37
  • 75 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia DPF3 37
  • 68 (a)
OneToOne
chicken
(Gallus gallus)
Aves DPF3 36
  • 82.72 (n)
  • 91.27 (a)
DPF3 37
  • 63 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia DPF3 37
  • 70 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100125167 36
  • 74.38 (n)
  • 80.17 (a)
Str.19639 36
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.6137 36
zebrafish
(Danio rerio)
Actinopterygii dpf3 36
  • 71.07 (n)
  • 73.58 (a)
dpf3 37
  • 55 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta d4 37
  • 22 (a)
ManyToMany
tth 37
  • 18 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea dpff-1 36
  • 46.1 (n)
  • 35.96 (a)
dpff-1 37
  • 23 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 37
  • 28 (a)
OneToMany
Species with no ortholog for DPF3:
  • 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)
  • baker's yeast (Saccharomyces cerevisiae)
  • 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)
  • 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)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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 DPF3 Gene

ENSEMBL:
Gene Tree for DPF3 (if available)
TreeFam:
Gene Tree for DPF3 (if available)

Paralogs for DPF3 Gene

Paralogs for DPF3 Gene

Selected SIMAP similar genes for DPF3 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with DPF3: view

Variants for DPF3 Gene

Sequence variations from dbSNP and Humsavar for DPF3 Gene

SNP ID Clin Chr 14 pos Sequence Context AA Info Type MAF
rs1377 -- 72,663,112(-) CTGTG(C/T)TCTCT intron-variant
rs1381 -- 72,663,063(-) TGGCT(C/G)ATCTC intron-variant
rs1383 -- 72,663,057(-) ATCTC(A/T)TGCTG intron-variant
rs3327 -- 72,627,042(+) ACACT(C/T)CTTTT intron-variant
rs3854 -- 72,662,275(-) TTTAA(A/G)TAAGA intron-variant, utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for DPF3 Gene

Variant ID Type Subtype PubMed ID
nsv517683 CNV Gain 19592680
nsv85673 CNV Loss 16902084
nsv520843 CNV Loss 19592680
esv260025 OTHER Complex 20981092
esv29330 CNV Gain 19812545
esv2675309 CNV Deletion 23128226
esv2748861 CNV Deletion 23290073
esv32878 CNV Loss 17666407

Relevant External Links for DPF3 Gene

HapMap Linkage Disequilibrium report
DPF3

Disorders for DPF3 Gene

(1) University of Copenhagen DISEASES for DPF3 Gene

Relevant External Links for DPF3

Genetic Association Database (GAD)
DPF3
Human Genome Epidemiology (HuGE) Navigator
DPF3
genes like me logo Genes that share disorders with DPF3: view

No data available for UniProtKB/Swiss-Prot for DPF3 Gene

Publications for DPF3 Gene

  1. Cerd4, third member of the d4 gene family: expression and organization of genomic locus. (PMID: 11845289) Ninkina N.N. … Buchman V.L. (Mamm. Genome 2001) 2 3 23
  2. The d4 gene family in the human genome. (PMID: 8812431) Chestkov A.V. … Buchman V.L. (Genomics 1996) 2 3 4
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  4. Regulation of muscle development by DPF3, a novel histone acetylation and methylation reader of the BAF chromatin remodeling complex. (PMID: 18765789) Lange M. … Sperling S. (Genes Dev. 2008) 3 4
  5. Candidate gene/loci studies in cleft lip/palate and dental anomalies finds novel susceptibility genes for clefts. (PMID: 18978678) Vieira A.R. … Marazita M.L. (Genet. Med. 2008) 3 49

Products for DPF3 Gene

Sources for DPF3 Gene

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