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Aliases for NKX3-1 Gene

Aliases for NKX3-1 Gene

  • NK3 Homeobox 1 2 3 5
  • Homeobox Protein NK-3 Homolog A 3 4
  • NKX3.1 3 4
  • NKX3A 3 4
  • NK3 Transcription Factor Related, Locus 1 (Drosophila) 2
  • NK3 Transcription Factor Related, Locus 1 3
  • NK Homeobox (Drosophila), Family 3, A 2
  • NK3 Transcription Factor Homolog A 3
  • NK Homeobox, Family 3, A 3
  • Homeobox Protein Nkx-3.1 3
  • BAPX2 3
  • NKX3 3

External Ids for NKX3-1 Gene

Previous HGNC Symbols for NKX3-1 Gene

  • NKX3A

Previous GeneCards Identifiers for NKX3-1 Gene

  • GC08M023268
  • GC08M023889
  • GC08M023558
  • GC08M023592
  • GC08M022081
  • GC08M023536

Summaries for NKX3-1 Gene

Entrez Gene Summary for NKX3-1 Gene

  • This gene encodes a homeobox-containing transcription factor. This transcription factor functions as a negative regulator of epithelial cell growth in prostate tissue. Aberrant expression of this gene is associated with prostate tumor progression. Alternate splicing results in multiple transcript variants of this gene. [provided by RefSeq, Jan 2012]

GeneCards Summary for NKX3-1 Gene

NKX3-1 (NK3 Homeobox 1) is a Protein Coding gene. Diseases associated with NKX3-1 include Chromosome 8P Deletion and Prostate Cancer. Among its related pathways are Sudden Infant Death Syndrome (SIDS) Susceptibility Pathways and Pathways in cancer. GO annotations related to this gene include transcription factor activity, sequence-specific DNA binding and transcription factor binding. An important paralog of this gene is NKX3-2.

UniProtKB/Swiss-Prot for NKX3-1 Gene

  • Transcription factor, which binds preferentially the consensus sequence 5-TAAGT[AG]-3 and can behave as a transcriptional repressor. Plays an important role in normal prostate development, regulating proliferation of glandular epithelium and in the formation of ducts in prostate. Acts as a tumor suppressor controlling prostate carcinogenesis, as shown by the ability to inhibit proliferation and invasion activities of PC-3 prostate cancer cells.

Gene Wiki entry for NKX3-1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NKX3-1 Gene

Genomics for NKX3-1 Gene

Regulatory Elements for NKX3-1 Gene

Enhancers for NKX3-1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH08G023760 1.8 FANTOM5 Ensembl ENCODE dbSUPER 11 -79.3 -79340 2.9 TBP GATA2 FOS ETV6 IKZF2 CREM SMARCC1 CEBPB JUNB ZNF518A NKX3-1 STC1 SLC25A37 ENTPD4 LOC101929258 ENSG00000271118
GH08G023557 1.8 FANTOM5 Ensembl ENCODE dbSUPER 10.5 +122.8 122845 4.8 ELF3 FOXA2 ZSCAN4 ZNF48 ZSCAN9 RAD21 RARA YY1 GATA2 FOS SLC25A37 ENSG00000253200 C8orf58 ENTPD4 LOC107986927 ENSG00000253390 NKX3-1 RNU4-71P EGR3 TNFRSF10C
GH08G023483 1.4 FANTOM5 ENCODE dbSUPER 11.5 +198.8 198792 0.7 HDAC1 HDGF PKNOX1 ATF1 GATA2 ETV6 ZEB2 ZNF592 MAFF SMARCA4 SLC25A37 ENSG00000253390 ENTPD4 NKX3-1 LOC646708 LOC105379327
GH08G023754 1.5 FANTOM5 Ensembl ENCODE dbSUPER 10.5 -72.4 -72413 1.0 CTCF ATF1 FOXA2 MAX SIN3A BRCA1 RAD21 RFX5 GATA3 SMC3 NKX3-1 SLC25A37 ENTPD4 LOC101929258 ENSG00000271118
GH08G023496 1.3 ENCODE dbSUPER 10.4 +188.6 188575 0.2 PKNOX1 CREB3L1 ARNT SIN3A YBX1 ZNF766 KLF13 JUNB REST SMARCB1 SLC25A37 ENTPD4 ENSG00000253390 NKX3-1 LOC105379327
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around NKX3-1 on UCSC Golden Path with GeneCards custom track

Promoters for NKX3-1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000222257 337 1201 SIN3A DMAP1 ZNF48 GLIS2 ZNF766 ZNF263 NFYC GLIS1 HNF4A KDM1A

Genomic Location for NKX3-1 Gene

Chromosome:
8
Start:
23,678,693 bp from pter
End:
23,682,937 bp from pter
Size:
4,245 bases
Orientation:
Minus strand

Genomic View for NKX3-1 Gene

Genes around NKX3-1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NKX3-1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NKX3-1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NKX3-1 Gene

Proteins for NKX3-1 Gene

  • Protein details for NKX3-1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q99801-NKX31_HUMAN
    Recommended name:
    Homeobox protein Nkx-3.1
    Protein Accession:
    Q99801
    Secondary Accessions:
    • O15465
    • Q9H2P4
    • Q9H2P5
    • Q9H2P6
    • Q9H2P7
    • Q9HBG0

    Protein attributes for NKX3-1 Gene

    Size:
    234 amino acids
    Molecular mass:
    26350 Da
    Quaternary structure:
    • Interacts with serum response factor (SRF) (By similarity). Interacts with SPDEF. Interacts with WDR77. Interacts with TOPORS which polyubiquitinates NKX3-1 and induces its proteasomal degradation.

    Three dimensional structures from OCA and Proteopedia for NKX3-1 Gene

    Alternative splice isoforms for NKX3-1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for NKX3-1 Gene

Post-translational modifications for NKX3-1 Gene

  • Ubiquitinated by TOPORS; monoubiquitinated at several residues and also polyubiquitinated on single residues.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for NKX3-1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for NKX3-1 Gene

Domains & Families for NKX3-1 Gene

Gene Families for NKX3-1 Gene

Suggested Antigen Peptide Sequences for NKX3-1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q99801

UniProtKB/Swiss-Prot:

NKX31_HUMAN :
  • Belongs to the NK-3 homeobox family.
Family:
  • Belongs to the NK-3 homeobox family.
genes like me logo Genes that share domains with NKX3-1: view

Function for NKX3-1 Gene

Molecular function for NKX3-1 Gene

UniProtKB/Swiss-Prot Function:
Transcription factor, which binds preferentially the consensus sequence 5-TAAGT[AG]-3 and can behave as a transcriptional repressor. Plays an important role in normal prostate development, regulating proliferation of glandular epithelium and in the formation of ducts in prostate. Acts as a tumor suppressor controlling prostate carcinogenesis, as shown by the ability to inhibit proliferation and invasion activities of PC-3 prostate cancer cells.
UniProtKB/Swiss-Prot Induction:
By androgens and, in the LNCaP cell line, by estrogens. Androgenic control may be lost in prostate cancer cells during tumor progression from an androgen-dependent to an androgen-independent phase.

Gene Ontology (GO) - Molecular Function for NKX3-1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000976 transcription regulatory region sequence-specific DNA binding IDA 20855495
GO:0000983 transcription factor activity, RNA polymerase II core promoter sequence-specific IEA --
GO:0001047 core promoter binding IDA 18974119
GO:0003677 DNA binding IEA --
GO:0003700 transcription factor activity, sequence-specific DNA binding NAS,IDA 11137288
genes like me logo Genes that share ontologies with NKX3-1: view
genes like me logo Genes that share phenotypes with NKX3-1: view

Animal Models for NKX3-1 Gene

MGI Knock Outs for NKX3-1:

Animal Model Products

CRISPR Products

miRNA for NKX3-1 Gene

Transcription Factor Targets for NKX3-1 Gene

Selected GeneGlobe predicted Target genes for NKX3-1
Targeted motifs for NKX3-1 Gene
HOMER Transcription Factor Regulatory Elements motif NKX3-1
  • Consensus sequence: AAGCACTTAA Submotif: canonical Cell Type: LNCaP GEO ID: GSE28264

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) and Human Phenotype Ontology for NKX3-1 Gene

Localization for NKX3-1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NKX3-1 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for NKX3-1 gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for NKX3-1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IDA 19597465
GO:0005634 nucleus NAS,IC 11137288
genes like me logo Genes that share ontologies with NKX3-1: view

Pathways & Interactions for NKX3-1 Gene

genes like me logo Genes that share pathways with NKX3-1: view

SIGNOR curated interactions for NKX3-1 Gene

Is activated by:

Gene Ontology (GO) - Biological Process for NKX3-1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001655 urogenital system development IEA --
GO:0001656 metanephros development IEA --
GO:0001756 somitogenesis IEA --
GO:0001934 positive regulation of protein phosphorylation IDA 20395202
GO:0006351 transcription, DNA-templated IEA --
genes like me logo Genes that share ontologies with NKX3-1: view

Drugs & Compounds for NKX3-1 Gene

(2) Drugs for NKX3-1 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(2) Additional Compounds for NKX3-1 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with NKX3-1: view

Transcripts for NKX3-1 Gene

mRNA/cDNA for NKX3-1 Gene

Unigene Clusters for NKX3-1 Gene

NK3 homeobox 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for NKX3-1 Gene

No ASD Table

Relevant External Links for NKX3-1 Gene

GeneLoc Exon Structure for
NKX3-1
ECgene alternative splicing isoforms for
NKX3-1

Expression for NKX3-1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for NKX3-1 Gene

mRNA differential expression in normal tissues according to GTEx for NKX3-1 Gene

This gene is overexpressed in Prostate (x29.4) and Minor Salivary Gland (x7.0).

Protein differential expression in normal tissues from HIPED for NKX3-1 Gene

This gene is overexpressed in Heart (43.8) and Prostate (24.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for NKX3-1 Gene



Protein tissue co-expression partners for NKX3-1 Gene

SOURCE GeneReport for Unigene cluster for NKX3-1 Gene:

Hs.55999

mRNA Expression by UniProt/SwissProt for NKX3-1 Gene:

Q99801-NKX31_HUMAN
Tissue specificity: Highly expressed in the prostate and, at a lower level, in the testis.

Evidence on tissue expression from TISSUES for NKX3-1 Gene

  • Lung(4.1)
genes like me logo Genes that share expression patterns with NKX3-1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and Phenotype-based relationships between genes and organs from Gene ORGANizer for NKX3-1 Gene

Orthologs for NKX3-1 Gene

This gene was present in the common ancestor of animals.

Orthologs for NKX3-1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NKX3-1 34 35
  • 99.3 (n)
dog
(Canis familiaris)
Mammalia NKX3-1 34 35
  • 87.86 (n)
cow
(Bos Taurus)
Mammalia NKX3-1 34 35
  • 80.48 (n)
mouse
(Mus musculus)
Mammalia Nkx3-1 34 16 35
  • 73.6 (n)
rat
(Rattus norvegicus)
Mammalia Nkx3-1 34
  • 72.15 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia NKX3-1 35
  • 66 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia NKX3-1 35
  • 59 (a)
OneToOne
chicken
(Gallus gallus)
Aves NKX3-1 34
  • 60.93 (n)
SOHO-1 35
  • 21 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia NKX3-1 35
  • 94 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia nkx3-1 34
  • 56.68 (n)
Str.5202 34
African clawed frog
(Xenopus laevis)
Amphibia nkx3-1-prov 34
zebrafish
(Danio rerio)
Actinopterygii nkx3-1 34 35
  • 65.15 (n)
fruit fly
(Drosophila melanogaster)
Insecta bap 35
  • 21 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea ceh-27 35
  • 19 (a)
ManyToMany
Species where no ortholog for NKX3-1 was found in the sources mined by GeneCards:
  • 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 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 NKX3-1 Gene

ENSEMBL:
Gene Tree for NKX3-1 (if available)
TreeFam:
Gene Tree for NKX3-1 (if available)

Paralogs for NKX3-1 Gene

(1) SIMAP similar genes for NKX3-1 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with NKX3-1: view

Variants for NKX3-1 Gene

Sequence variations from dbSNP and Humsavar for NKX3-1 Gene

SNP ID Clin Chr 08 pos Sequence Context AA Info Type
rs1001460327 -- 23,680,172(+) CTAAA(C/T)AAGCG intron-variant, nc-transcript-variant, utr-variant-3-prime
rs1001814841 -- 23,679,795(+) CCTCC(A/C)CTGGA intron-variant, nc-transcript-variant, utr-variant-3-prime
rs1001941445 -- 23,684,696(+) GAGTG(A/C)AGTGG intron-variant, upstream-variant-2KB
rs1002442915 -- 23,680,164(+) ATCTC(A/G)GGCTA intron-variant, nc-transcript-variant, utr-variant-3-prime
rs1003936267 -- 23,678,683(+) AAAAT(-/CACA)CACAC intron-variant, downstream-variant-500B

Structural Variations from Database of Genomic Variants (DGV) for NKX3-1 Gene

Variant ID Type Subtype PubMed ID
nsv1028341 CNV gain 25217958
nsv831269 CNV gain 17160897

Variation tolerance for NKX3-1 Gene

Residual Variation Intolerance Score: 60.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.85; 48.12% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for NKX3-1 Gene

Human Gene Mutation Database (HGMD)
NKX3-1
SNPedia medical, phenotypic, and genealogical associations of SNPs for
NKX3-1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NKX3-1 Gene

Disorders for NKX3-1 Gene

MalaCards: The human disease database

(8) MalaCards diseases for NKX3-1 Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
chromosome 8p deletion
  • 8p deletion
prostate cancer
  • prostate cancer, hereditary, 5
prostatitis
urethral diverticulum
male reproductive organ cancer
  • male genital cancer
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for NKX3-1

Genetic Association Database (GAD)
NKX3-1
Human Genome Epidemiology (HuGE) Navigator
NKX3-1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
NKX3-1
genes like me logo Genes that share disorders with NKX3-1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for NKX3-1 Gene

Publications for NKX3-1 Gene

  1. A novel human prostate-specific, androgen-regulated homeobox gene (NKX3.1) that maps to 8p21, a region frequently deleted in prostate cancer. (PMID: 9226374) He W.-W. … Carter K.C. (Genomics 1997) 2 3 4 22 64
  2. Gene expression profiles in the PC-3 human prostate cancer cells induced by NKX3.1. (PMID: 19462257) Zhang P. … Jiang A. (Mol. Biol. Rep. 2010) 3 4 22 64
  3. Purification and identification of a novel complex which is involved in androgen receptor-dependent transcription. (PMID: 12972618) Hosohata K. … Wang Z. (Mol. Cell. Biol. 2003) 3 4 22 64
  4. Full-length cDNA sequence and genomic organization of human NKX3A -- alternative mRNA forms and regulation by both androgens and estrogens. (PMID: 11137288) Korkmaz K.S. … Saatcioglu F. (Gene 2000) 3 4 22 64
  5. Isolation and androgen regulation of the human homeobox cDNA, NKX3.1. (PMID: 9537602) Prescott J.L. … Tindall D.J. (Prostate 1998) 3 4 22 64

Products for NKX3-1 Gene

Sources for NKX3-1 Gene

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