NKX3-1 (NK3 homeobox 1)

2009-03-01   Liang-Nian Song , Edward P Gelmann 

Herbert Irving Comprehensive Cancer Center, Columbia University, New York, NY 10032, USA

Identity

HGNC
LOCATION
8p21.2
LOCUSID
ALIAS
BAPX2,NKX3,NKX3.1,NKX3A
FUSION GENES

DNA/RNA

Atlas Image
The gene for NKX3-1 comprises two exons of 334 and 2947 bp, respectively. The length of the intron is 964 bp. Positions of start and stop codons are indicated.

Description

The gene has two exons and one intron.

Transcription

Transcription takes place in a centromere --> telomere orientation. The length of the processed mRNA is about 3200 bp.

Pseudogene

Not known.

Proteins

Atlas Image
NKX3-1 contains two exons encoding a 234-amino acid protein including a homeodomain (grey).

Description

234 amino acids; 35-38 kDa, contains one N-terminal domain (residues 1-123), one homeodomain (residues 124-183), and one C-terminal domain (residues 184-234).

Expression

Expression is restricted to the adult murine prostate and bulbourethral gland. During early murine embryogenesis NKX3-1 expression has also been detected in developing somites and testes. In the adult human expression is seen in prostate epithelium, testis, ureter, and pulmonary bronchial mucous glands.

Localisation

Nuclear.

Function

Binds to DNA to suppress transcription. Interacts with transcription factors, e.g. serum response factor, to enhance transcriptional activation. Binds to and potentiates topoisomerase I DNA resolving activity. Acts as prostate tumor suppressor.

Homology

Homeodomain protein with membership of the NKX family.

Mutations

Germinal

Twenty-one germ-line variants have been identified in 159 probands of hereditary prostate cancer families. These variants were linked to prostate cancer risk in hereditary prostate cancer families. For example, the C154T (11% of the population) polymorphism mutation is associated with prostatic enlargement and prostate cancer risk. A T164A mutations in one family cosegregates with prostate cancer in three affected brothers. For a more complete list of identified mutations, please visit http://cancerres.aacrjournals.org/cgi/content/full/66/1/69.

Somatic

None.

Implicated in

Entity name
Prostate Cancer
Disease
Prostate cancer is the most commonly diagnosed cancer in American men and the second leading cause of cancer-related deaths. Prostate cancer predominantly occurs in the peripheral zone of the human prostate, with roughly 5 to 10% of cases found in the central zone. Disease development involves the temporal and spatial loss of the basal epithelial compartment accompanied by increased proliferation and dedifferentiation of the luminal (secretory) epithelial cells. Prostate cancer is a slow developing disease that is typically found in men greater than 60 years of age and incidence increases with increasing age.
Prognosis
PSA test combined with digital-rectal exams are used to screen for the presence of disease. If the digital-rectal exams are positive, additional tests including needle core biopsies are taken to assess disease stage and grade. Patients with localized, prostate-restricted disease are theoretically curable with complete removal of the prostate (radical prostatectomy). Patients with extra-prostatic disease are treated with hormone (androgen ablation) therapy, radiation, and/or antiandrogens; however, no curative treatments are available for nonorgan confined, metastatic disease.
Cytogenetics
Various forms of aneuploidy.
Oncogenesis
Nkx3.1 plays an essential role in normal murine prostate development. Loss of function of Nkx3.1 leads to defects in prostatic protein secretions and in ductal morphogenesis. Loss-of-function of Nkx3.1 also contributes to prostate carcinogenesis. For example, Nkx3.1 mutant mice develop prostatic dysplasia. Nkx3.1 loss potentiates prostate carcinogenesis in a Pten+/- background. Furthermore, by a variety of mechanisms NKX3.1 expression is reduced in noninvasive and early stage human prostate cancer, suggesting that its decreased expression is one of the earliest steps in the majority of human prostate cancers.

Bibliography

Pubmed IDLast YearTitleAuthors

Other Information

Locus ID:

NCBI: 4824
MIM: 602041
HGNC: 7838
Ensembl: ENSG00000167034

Variants:

dbSNP: 4824
ClinVar: 4824
TCGA: ENSG00000167034
COSMIC: NKX3-1

RNA/Proteins

Gene IDTranscript IDUniprot
ENSG00000167034ENST00000380871Q99801
ENSG00000167034ENST00000523261Q99801

Expression (GTEx)

0
50
100
150
200
250
300

Pathways

PathwaySourceExternal ID
Prostate cancerKEGGko05215
Pathways in cancerKEGGhsa05200
Prostate cancerKEGGhsa05215

Protein levels (Protein atlas)

Not detected
Low
Medium
High

References

Pubmed IDYearTitleCitations
197677532009Identification of seven new prostate cancer susceptibility loci through a genome-wide association study.225
166979572006NKX3.1 stabilizes p53, inhibits AKT activation, and blocks prostate cancer initiation caused by PTEN loss.81
220839572012Integration of regulatory networks by NKX3-1 promotes androgen-dependent prostate cancer survival.71
171081052006Decreased NKX3.1 protein expression in focal prostatic atrophy, prostatic intraepithelial neoplasia, and adenocarcinoma: association with gleason score and chromosome 8p deletion.64
204799322010ETS transcription factors control transcription of EZH2 and epigenetic silencing of the tumor suppressor gene Nkx3.1 in prostate cancer.55
157349992005Deletion, methylation, and expression of the NKX3.1 suppressor gene in primary human prostate cancer.50
205643192010Prostate cancer risk-associated variants reported from genome-wide association studies: meta-analysis and their contribution to genetic Variation.36
203639132010Loss of Nkx3.1 expression in bacterial prostatitis: a potential link between inflammation and neoplasia.34
146488542003Roles of the Nkx3.1 homeobox gene in prostate organogenesis and carcinogenesis.31
208554952010NKX3.1 is a direct TAL1 target gene that mediates proliferation of TAL1-expressing human T cell acute lymphoblastic leukemia.29

Citation

Liang-Nian Song ; Edward P Gelmann

NKX3-1 (NK3 homeobox 1)

Atlas Genet Cytogenet Oncol Haematol. 2009-03-01

Online version: http://atlasgeneticsoncology.org/gene/41541/js/lib/zoomerang.js