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Aliases for DPF3 Gene

Aliases for DPF3 Gene

  • Double PHD Fingers 3 2 3
  • D4, Zinc And Double PHD Fingers, Family 3 2 3 5
  • Zinc Finger Protein Cer-D4 3 4
  • BRG1-Associated Factor 45C 3 4
  • BAF45C 3 4
  • CERD4 3 4

External Ids for DPF3 Gene

Previous GeneCards Identifiers for DPF3 Gene

  • GC14M066871
  • GC14M071065
  • GC14M072145
  • GC14M073086
  • GC14M053303

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 (Double PHD Fingers 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

Regulatory Elements for DPF3 Gene

Enhancers for DPF3 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around DPF3 on UCSC Golden Path with GeneCards custom track

Promoters for DPF3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around DPF3 on UCSC Golden Path with GeneCards custom track

Genomic Location for DPF3 Gene

Chromosome:
14
Start:
72,609,032 bp from pter
End:
72,894,116 bp from pter
Size:
285,085 bases
Orientation:
Minus strand

Genomic View for DPF3 Gene

Genes around DPF3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
DPF3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for DPF3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence 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

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for DPF3 Gene

Domains & Families for DPF3 Gene

Gene Families for DPF3 Gene

Suggested Antigen Peptide Sequences for DPF3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q92784

UniProtKB/Swiss-Prot:

DPF3_HUMAN :
  • The PHD-type zinc fingers mediate the binding to acetylated histones.
  • Belongs to the requiem/DPF family.
  • Contains 1 C2H2-type zinc finger.
Domain:
  • The PHD-type zinc fingers mediate the binding to acetylated histones.
Family:
  • Belongs to the requiem/DPF family.
Similarity:
  • Contains 1 C2H2-type zinc finger.
  • Contains 2 PHD-type zinc fingers.
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:0008270 zinc ion binding NAS 8812431
genes like me logo Genes that share ontologies with DPF3: view
genes like me logo Genes that share phenotypes with DPF3: view

Animal Models for DPF3 Gene

MGI Knock Outs for DPF3:

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets 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 5
cytosol 2

No data available for Gene Ontology (GO) - Cellular Components for DPF3 Gene

Pathways & Interactions 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:0007399 nervous system development IEA --
GO:0008150 biological_process ND --
GO:0016568 chromatin modification IEA --
GO:0098779 mitophagy in response to mitochondrial depolarization IGI 22020285
GO:0098792 xenophagy IMP 22020285
genes like me logo Genes that share ontologies with DPF3: view

No data available for Pathways by source and SIGNOR curated interactions for DPF3 Gene

Drugs & Compounds for DPF3 Gene

No Compound Related Data Available

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 (x6.6), Brain - Cerebellar Hemisphere (x5.0), Heart - Left Ventricle (x4.6), and Brain - Cerebellum (x4.3).

Protein differential expression in normal tissues from HIPED for DPF3 Gene

This gene is overexpressed in Retina (29.8), Fetal Brain (26.9), and Blymphocyte (6.3).

Integrated Proteomics: protein expression in normal tissues and cell lines 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 expression patterns with DPF3: view

Protein tissue co-expression partners for DPF3 Gene

Primer Products

No data available for mRNA Expression by UniProt/SwissProt for DPF3 Gene

Orthologs for DPF3 Gene

This gene was present in the common ancestor of animals.

Orthologs for DPF3 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia DPF3 35
  • 93.56 (n)
  • 99.74 (a)
DPF3 36
  • 78 (a)
OneToOne
dog
(Canis familiaris)
Mammalia DPF3 35
  • 87.85 (n)
  • 93.42 (a)
DPF3 36
  • 100 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Dpf3 35
  • 92.15 (n)
  • 99.74 (a)
Dpf3 16
Dpf3 36
  • 80 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia DPF3 35
  • 99.89 (n)
  • 100 (a)
DPF3 36
  • 85 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia DPF3 36
  • 75 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia DPF3 36
  • 68 (a)
OneToOne
chicken
(Gallus gallus)
Aves DPF3 35
  • 82.72 (n)
  • 91.27 (a)
DPF3 36
  • 63 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia DPF3 36
  • 70 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100125167 35
  • 74.38 (n)
  • 80.17 (a)
Str.19639 35
zebrafish
(Danio rerio)
Actinopterygii dpf3 35
  • 71.07 (n)
  • 73.58 (a)
dpf3 36
  • 55 (a)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.6137 35
fruit fly
(Drosophila melanogaster)
Insecta d4 36
  • 22 (a)
ManyToMany
tth 36
  • 18 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea dpff-1 35
  • 46.1 (n)
  • 35.96 (a)
dpff-1 36
  • 23 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 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

(2) 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
rs17855717 - 72,714,497(+) AGCCG(C/T)GAGCC reference, missense
rs11463 -- 72,662,412(-) GACAT(G/T)GCACA intron-variant, utr-variant-3-prime
rs16455 -- 72,638,271(-) CAGCC(-/GCC)TGACC intron-variant
rs2526909 -- 72,674,833(-) CAGGG(A/G)CAGGA intron-variant
rs2526910 -- 72,687,739(-) TTCAC(A/C/T)GAAGA intron-variant

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

Variation tolerance for DPF3 Gene

Residual Variation Intolerance Score: 57.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.54; 44.29% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for DPF3 Gene

Disorders for DPF3 Gene

Relevant External Links for DPF3

Genetic Association Database (GAD)
DPF3
Human Genome Epidemiology (HuGE) Navigator
DPF3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
DPF3

No disorders were found for DPF3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for DPF3 Gene

Publications for DPF3 Gene

  1. The d4 gene family in the human genome. (PMID: 8812431) Chestkov A.V. … Buchman V.L. (Genomics 1996) 2 3 4 67
  2. 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
  3. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  4. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C. … Emili A. (Nature 2015) 3
  5. Variants in DPF3 and DSCAML1 are associated with sperm morphology. (PMID: 24271036) Kosova G. … Ober C. (J. Assist. Reprod. Genet. 2014) 3

Products for DPF3 Gene

Sources for DPF3 Gene

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