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Aliases for ZFHX3 Gene

Aliases for ZFHX3 Gene

  • Zinc Finger Homeobox 3 2 3 5
  • AT-Binding Transcription Factor 1 2 3 4
  • Alpha-Fetoprotein Enhancer-Binding Protein 3 4
  • Zinc Finger Homeodomain Protein 3 3 4
  • AT Motif-Binding Factor 1 3 4
  • ATBF1 3 4
  • ZFH-3 3 4
  • Alpha-Fetoprotein Enhancer Binding Protein 3
  • ZNF927 3
  • ATBT 3

External Ids for ZFHX3 Gene

Previous HGNC Symbols for ZFHX3 Gene

  • ATBF1

Previous GeneCards Identifiers for ZFHX3 Gene

  • GC16M071374
  • GC16M072816
  • GC16M058584

Summaries for ZFHX3 Gene

Entrez Gene Summary for ZFHX3 Gene

  • This gene encodes a transcription factor with multiple homeodomains and zinc finger motifs, and regulates myogenic and neuronal differentiation. The encoded protein suppresses expression of the alpha-fetoprotein gene by binding to an AT-rich enhancer motif. The protein has also been shown to negatively regulate c-Myb, and transactivate the cell cycle inhibitor cyclin-dependent kinase inhibitor 1A (also known as p21CIP1). This gene is reported to function as a tumor suppressor in several cancers, and sequence variants of this gene are also associated with atrial fibrillation. Multiple transcript variants expressed from alternate promoters and encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2009]

GeneCards Summary for ZFHX3 Gene

ZFHX3 (Zinc Finger Homeobox 3) is a Protein Coding gene. Diseases associated with ZFHX3 include prostate cancer and prostate cancer susceptibility. Among its related pathways are Signaling pathways regulating pluripotency of stem cells and Transcriptional Regulatory Network in Embryonic Stem Cell. GO annotations related to this gene include nucleic acid binding and sequence-specific DNA binding. An important paralog of this gene is ZFHX4.

UniProtKB/Swiss-Prot for ZFHX3 Gene

  • Transcriptional regulator which can act as an activator or a repressor. Inhibits the enhancer element of the AFP gene by binding to its AT-rich core sequence. In concert with SMAD-dependent TGF-beta signaling can repress the transcription of AFP via its interaction with SMAD2/3 (PubMed:25105025). Regulates the circadian locomotor rhythms via transcriptional activation of neuropeptidergic genes which are essential for intercellular synchrony and rhythm amplitude in the suprachiasmatic nucleus (SCN) of the brain (By similarity). Regulator of myoblasts differentiation through the binding to the AT-rich sequence of MYF6 promoter and promoter repression (PubMed:11312261). Down-regulates the MUC5AC promoter in gastric cancer (PubMed:17330845). In association with RUNX3, upregulates CDKN1A promoter activity following TGF-beta stimulation (PubMed:20599712). Inhibits estrogen receptor (ESR1) function by selectively competing with coactivator NCOA3 for binding to ESR1 in ESR1-positive breast cancer cells (PubMed:20720010).

Gene Wiki entry for ZFHX3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ZFHX3 Gene

Genomics for ZFHX3 Gene

Regulatory Elements for ZFHX3 Gene

Promoters for ZFHX3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around ZFHX3 on UCSC Golden Path with GeneCards custom track

Genomic Location for ZFHX3 Gene

Chromosome:
16
Start:
72,782,885 bp from pter
End:
73,059,698 bp from pter
Size:
276,814 bases
Orientation:
Minus strand

Genomic View for ZFHX3 Gene

Genes around ZFHX3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZFHX3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZFHX3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZFHX3 Gene

Proteins for ZFHX3 Gene

  • Protein details for ZFHX3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q15911-ZFHX3_HUMAN
    Recommended name:
    Zinc finger homeobox protein 3
    Protein Accession:
    Q15911
    Secondary Accessions:
    • D3DWS8
    • O15101
    • Q13719

    Protein attributes for ZFHX3 Gene

    Size:
    3703 amino acids
    Molecular mass:
    404419 Da
    Quaternary structure:
    • Interacts with FNBP3 (By similarity). Interacts with ALKBH4 and PIAS3. Interacts with ESR1. Interacts with RUNX3. Interacts with TRIM25. Interacts with SMAD2 and SMAD3.

    Three dimensional structures from OCA and Proteopedia for ZFHX3 Gene

    Alternative splice isoforms for ZFHX3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for ZFHX3 Gene

Proteomics data for ZFHX3 Gene at MOPED

Post-translational modifications for ZFHX3 Gene

  • Adult brain-derived ZFHX3 is sensitive, but embryonic brain-derived ZFHX3 is resistant to calpain 1-mediated proteolysis.
  • Nuclear localization is essential for its sumoylation.
  • Phosphorylation decreases its sensitivity to calpain-mediated proteolysis.
  • Ubiquitinated, leading to its proteasomal degradation.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for ZFHX3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for ZFHX3 Gene

Domains & Families for ZFHX3 Gene

Suggested Antigen Peptide Sequences for ZFHX3 Gene

Graphical View of Domain Structure for InterPro Entry

Q15911

UniProtKB/Swiss-Prot:

ZFHX3_HUMAN :
  • Contains 4 homeobox DNA-binding domains.
  • Contains 23 C2H2-type zinc fingers.
Domain:
  • Contains 4 homeobox DNA-binding domains.
Similarity:
  • Contains 23 C2H2-type zinc fingers.
genes like me logo Genes that share domains with ZFHX3: view

Function for ZFHX3 Gene

Molecular function for ZFHX3 Gene

UniProtKB/Swiss-Prot Function:
Transcriptional regulator which can act as an activator or a repressor. Inhibits the enhancer element of the AFP gene by binding to its AT-rich core sequence. In concert with SMAD-dependent TGF-beta signaling can repress the transcription of AFP via its interaction with SMAD2/3 (PubMed:25105025). Regulates the circadian locomotor rhythms via transcriptional activation of neuropeptidergic genes which are essential for intercellular synchrony and rhythm amplitude in the suprachiasmatic nucleus (SCN) of the brain (By similarity). Regulator of myoblasts differentiation through the binding to the AT-rich sequence of MYF6 promoter and promoter repression (PubMed:11312261). Down-regulates the MUC5AC promoter in gastric cancer (PubMed:17330845). In association with RUNX3, upregulates CDKN1A promoter activity following TGF-beta stimulation (PubMed:20599712). Inhibits estrogen receptor (ESR1) function by selectively competing with coactivator NCOA3 for binding to ESR1 in ESR1-positive breast cancer cells (PubMed:20720010).

Gene Ontology (GO) - Molecular Function for ZFHX3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0044212 transcription regulatory region DNA binding IDA 11312261
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZFHX3: view
genes like me logo Genes that share phenotypes with ZFHX3: view

Animal Models for ZFHX3 Gene

MGI Knock Outs for ZFHX3:

Animal Model Products

CRISPR Products

miRNA for ZFHX3 Gene

miRTarBase miRNAs that target ZFHX3

Inhibitory RNA Products

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for ZFHX3 Gene

Localization for ZFHX3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZFHX3 Gene

Nucleus. Cytoplasm. Note=Translocates from the cytoplasm to the nucleus following TGF-beta stimulation. Expressed in nuclear body (NB)-like dots in the nucleus some of which overlap or closely associate with PML body. {ECO:0000269 PubMed:20599712, ECO:0000269 PubMed:24651376}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for ZFHX3 Gene COMPARTMENTS Subcellular localization image for ZFHX3 gene
Compartment Confidence
nucleus 5
mitochondrion 2

No data available for Gene Ontology (GO) - Cellular Components for ZFHX3 Gene

Pathways & Interactions for ZFHX3 Gene

genes like me logo Genes that share pathways with ZFHX3: view

Pathways by source for ZFHX3 Gene

Gene Ontology (GO) - Biological Process for ZFHX3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006355 regulation of transcription, DNA-templated IEA,TAS 1719379
GO:0032922 circadian regulation of gene expression ISS --
GO:0045664 regulation of neuron differentiation IEA --
GO:0045893 positive regulation of transcription, DNA-templated IDA 20599712
GO:0071559 response to transforming growth factor beta IDA 20599712
genes like me logo Genes that share ontologies with ZFHX3: view

No data available for SIGNOR curated interactions for ZFHX3 Gene

Drugs & Compounds for ZFHX3 Gene

(2) Drugs for ZFHX3 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with ZFHX3: view

Transcripts for ZFHX3 Gene

Unigene Clusters for ZFHX3 Gene

Zinc finger homeobox 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for ZFHX3 Gene

No ASD Table

Relevant External Links for ZFHX3 Gene

GeneLoc Exon Structure for
ZFHX3
ECgene alternative splicing isoforms for
ZFHX3

Expression for ZFHX3 Gene

mRNA expression in normal human tissues for ZFHX3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for ZFHX3 Gene

This gene is overexpressed in Artery - Tibial (x5.2).

Protein differential expression in normal tissues from HIPED for ZFHX3 Gene

This gene is overexpressed in Colon muscle (28.6), Adrenal (26.4), and Pancreatic juice (9.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for ZFHX3 Gene



SOURCE GeneReport for Unigene cluster for ZFHX3 Gene Hs.598297

mRNA Expression by UniProt/SwissProt for ZFHX3 Gene

Q15911-ZFHX3_HUMAN
Tissue specificity: Not found in normal gastric mucosa but found in gastric carcinoma cells (at protein level). Expression is higher in ER-positive breast tumors than ER-negative breast tumors (at protein level).
genes like me logo Genes that share expression patterns with ZFHX3: view

Primer Products

In Situ Assay Products

No data available for Protein tissue co-expression partners for ZFHX3 Gene

Orthologs for ZFHX3 Gene

This gene was present in the common ancestor of animals.

Orthologs for ZFHX3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ZFHX3 36
  • 99 (a)
OneToOne
ZFHX3 35
  • 98.67 (n)
  • 98.56 (a)
cow
(Bos Taurus)
Mammalia ZFHX3 36
  • 96 (a)
OneToOne
ZFHX3 35
  • 91.35 (n)
  • 94.7 (a)
dog
(Canis familiaris)
Mammalia ZFHX3 35
  • 92.65 (n)
  • 96 (a)
ZFHX3 36
  • 97 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Zfhx3 36
  • 94 (a)
OneToOne
Zfhx3 16
Zfhx3 35
  • 89.93 (n)
  • 94.66 (a)
oppossum
(Monodelphis domestica)
Mammalia ZFHX3 36
  • 89 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia ZFHX3 36
  • 92 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Zfhx3 35
  • 89.9 (n)
  • 94.82 (a)
chicken
(Gallus gallus)
Aves ZFHX3 35
  • 82.49 (n)
  • 87.9 (a)
ZFHX3 36
  • 89 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia ZFHX3 36
  • 80 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.31945 35
tropical clawed frog
(Silurana tropicalis)
Amphibia zfhx3 35
  • 72.83 (n)
  • 77.17 (a)
zebrafish
(Danio rerio)
Actinopterygii zfhx3 36
  • 64 (a)
OneToMany
ZFHX3 (2 of 2) 36
  • 49 (a)
OneToMany
zfhx3 35
  • 67.38 (n)
  • 69.35 (a)
fruit fly
(Drosophila melanogaster)
Insecta zfh2 36
  • 25 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea zfh-2 36
  • 33 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 25 (a)
ManyToMany
-- 36
  • 32 (a)
ManyToMany
Species with no ortholog for ZFHX3:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • 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 ZFHX3 Gene

ENSEMBL:
Gene Tree for ZFHX3 (if available)
TreeFam:
Gene Tree for ZFHX3 (if available)

Paralogs for ZFHX3 Gene

Paralogs for ZFHX3 Gene

(2) SIMAP similar genes for ZFHX3 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with ZFHX3: view

Variants for ZFHX3 Gene

Polymorphic Variants from UniProtKB/Swiss-Prot for ZFHX3 Gene

Q15911-ZFHX3_HUMAN
Genetic variations in ZFHX3 are associated with atrial fibrillation and ischemic stroke in individuals of European ancestry.

Sequence variations from dbSNP and Humsavar for ZFHX3 Gene

SNP ID Clin Chr 16 pos Sequence Context AA Info Type
VAR_011694 -
rs2073852 - 72,958,768(+) CTCTT(C/G/T)GGCTG intron-variant, reference, missense
rs7193297 - 72,959,932(+) CTCGG(A/C/T)GGGGG intron-variant, reference, missense
rs16971436 - 72,958,864(+) TTTGG(C/G/T)AGGAC intron-variant, reference, missense
rs4788682 - 72,957,816(+) CAGCC(A/G)CCGCC intron-variant, reference, missense

Structural Variations from Database of Genomic Variants (DGV) for ZFHX3 Gene

Variant ID Type Subtype PubMed ID
nsv7285 OTHER Inversion 18451855
nsv1868 CNV Loss 18451855
esv259436 OTHER Complex 20981092
nsv819379 CNV Gain 19587683
nsv906898 CNV Loss 21882294
esv2672800 CNV Deletion 23128226
nsv1869 CNV Insertion 18451855
dgv487n67 CNV Gain 20364138
nsv827733 CNV Gain 20364138
esv268829 CNV Insertion 20981092
nsv827734 CNV Gain 20364138
esv29824 CNV Loss 19812545

Variation tolerance for ZFHX3 Gene

Residual Variation Intolerance Score: 0.259% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 16.21; 97.61% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ZFHX3 Gene

HapMap Linkage Disequilibrium report
ZFHX3
Human Gene Mutation Database (HGMD)
ZFHX3

Disorders for ZFHX3 Gene

MalaCards: The human disease database

(4) MalaCards diseases for ZFHX3 Gene - From: OMIM, GeneTests, DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
prostate cancer
  • prostate cancer, hereditary, 5
prostate cancer susceptibility
atrial fibrillation
  • a-fib
arteriolosclerosis
- elite association - COSMIC cancer census association via MalaCards
Search ZFHX3 in MalaCards View complete list of genes associated with diseases

Relevant External Links for ZFHX3

Genetic Association Database (GAD)
ZFHX3
Human Genome Epidemiology (HuGE) Navigator
ZFHX3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
ZFHX3
genes like me logo Genes that share disorders with ZFHX3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for ZFHX3 Gene

Publications for ZFHX3 Gene

  1. A human alpha-fetoprotein enhancer-binding protein, ATBF1, contains four homeodomains and seventeen zinc fingers. (PMID: 1719379) Morinaga T. … Tamaoki T. (Mol. Cell. Biol. 1991) 2 3 4 23 67
  2. Cloning and characterization of an ATBF1 isoform that expresses in a neuronal differentiation-dependent manner. (PMID: 7592926) Miura Y. … Tamaoki T. (J. Biol. Chem. 1995) 2 3 23
  3. ATBF1 and NQO1 as candidate targets for allelic loss at chromosome arm 16q in breast cancer: absence of somatic ATBF1 mutations and no role for the C609T NQO1 polymorphism. (PMID: 18416817) Cleton-Jansen A.M. … Cornelisse C.J. (BMC Cancer 2008) 3 23
  4. Down-regulation of ATBF1 is a major inactivating mechanism in hepatocellular carcinoma. (PMID: 18312352) Kim C.J. … Park W.S. (Histopathology 2008) 3 23
  5. Infrequent mutation of ATBF1 in human breast cancer. (PMID: 16932943) Sun X. … Dong J.T. (J. Cancer Res. Clin. Oncol. 2007) 3 23

Products for ZFHX3 Gene

Sources for ZFHX3 Gene

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