SLC9A3R1 (solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 1)

2010-12-01   Wendy S McDonough , Michael E Berens 

The Translational Genomics Research Institute, 445 N Fifth Street, Phoenix, Arizona 85004, USA

Identity

HGNC
LOCATION
17q25.1
IMAGE
Atlas Image
LEGEND
SLC9A3R1 Physical Map.
LOCUSID
ALIAS
EBP50,NHERF,NHERF-1,NHERF1,NPHLOP2
FUSION GENES

DNA/RNA

Atlas Image
DNA size 20.71 Kb; mRNA size 1978 bp; 6 exons.

Description

The SLC9A3R1 gene is comprised of 6 exons and spans approximately 20.7 kb of genomic DNA.

Transcription

The SLC9A3R1 gene encodes a 1978 bp mRNA transcript.
Reported regulatory transcription factor binding sites upstream of the SLC9A3R1 promoter region include: NF-kappaB1, HNF-4alpha2, COUP-TF1, NF-kappaB, NRSF form 2, NRSF form 1, FOXD1, PPAR-gamma2, PPAR-gamma1, GATA-1.

Proteins

Atlas Image
NHERF (human)-358 aminos acids.

Description

The SLC9A3R1 protein is composed of 353 amino acids (389 kDa).
Post-transcriptional regulation of SLC9A3R1 occurs via Serines S77-p, S162-p, S339-p, S340-p.
SLC9A3R1 is also phosphroylated on T95-p.
SLC9A3R1 has two PDZ (DHR) domains.
SLC9A3R1 can exist as a homodimer or heterodimer with SLC9A3R2.

Expression

SLC9A3R1 is expressed in liver, salivary glands, kidney, pancreas, trachea, small intestine, stomach, prostate and brain.

Localisation

SLC9A3R1 is a cytoplasmic protein. SLC9A3R1 translocates from the cytoplasm to the apical cell membrane in a PODXL-dependent manner. SLC9A3R1 colocalizes with actin in microvilli-rich apical regions of the syncytiotrophoblast. SLC9A3R1 has been found in microvilli, ruffling membrane and filopodia of HeLa cells. SLC9A3R1 is also been discovered in lipid rafts of T-cells.
Subcellular localization is present in cells with apical specialized structure such as micorvili and cilia. SLC9A3R1 also has a membranous expression in cells of non-epithelial origin (astrocytes) and hematopoietic stem cells and has been found in membrane rafts in lymphocytes and at the rear edge of neutrophils.

Function

SLC9A3R1 is a scaffold protein that connects plasma membrane proteins with members of the ezrin/moesin/radixin family and thereby helps to link them to the actin cytoskeleton to regulate their surface expression. SLC9A3R1 has been shown to be necessary for recycling of internalized ADRB2. SLC9A3R1 regulates SLC9A3 as well as its subcellular location. SLC9A3R1 is required for cAMP-mediated phosphorylation and inhibition of SLC9A3R1. SLC9A3R1 interacts with MCC. SLC9A3R1 may participate in HTR4 targeting to microvilli. SLC9A3R1 has been shown to play a role in the WNT signaling pathway.
Induction: SLC9A3R1 can be induced by estrogen.
SLC9A3R1 has been show to have binary interaction with the following proteins: CFTR, CLCN3, MSN, NF2, RDX.

Mutations

Note

SLC9A3R1 has been shown to have three natural variants.
Natural variant 110L --> V in NPHLOP2; the mutant expressed in cultured renal cells increases the generation of cyclic AMP (cAMP) by parathyroid hormone (PTH) and inhibits phosphate transport.
Natural variant 153R --> Q in NPHLOP2; the mutant expressed in cultured renal cells increases the generation of cAMP by PTH and inhibits phosphate transport.
Natural variant 225E --> K in NPHLOP2; the mutant expressed in cultured renal cells increases the generation of cAMP by PTH and inhibits phosphate transport.

Implicated in

Entity name
Cancer progression
Note
There is growing evidence SLC9A3R1 plays an important role in cancer progression. SLC9A3R1 functions as an adaptor protein to control cell transformation. In addition, recent evidence suggests that SLC9A3R1 has a dual role either acting as a tumor suppressor when it is localized as the cell membrane or as an oncogenic protein when it is localized in the cytoplasm (Georgescu et al., 2008).
Entity name
Glioblastoma
Note
The invasive nature of glioblastoma multiforme presents a clinical problem rendering tumors incurable by conventional treatment modalities such as surgery, ionizing radiation, and temozolomide.
SLC9A3R1 has been implicated to play a role in sustaining glioma cell migration and invasion. SLC9A3R1 has been shown to be over-expressed in invading glioma cells as compared to the tumor core (Kislin et al., 2009).
Entity name
Breast cancer
Note
Increased cytoplasmic expression of SLC9A3R1 in breast tumors suggests a key role of its localization and compartmentalization in defining cancerogenesis, progression, and invasion. SLC9A3R1 overexpression has been associated with increasing tumor cytohistological grade, aggressive clinical behavior, unfavorable prognosis, and increased tumor hypoxia. Moreover, SLC9A3R1 co-localizes with the oncogenic receptor HER2/neu in HER2/neu-overexpressing carcinoma and in distant metastases (Mangia et al., 2009).
The switch from apical membranous to cytoplasmic expression is compatible with a dual role for NHERF1 as a tumour suppressor or tumour promoter dependent on its subcellular localization (Georgescu et al., 2008).
Entity name
Cystic fibrosis
Note
The inherited disease cystic fibrosis is one of the most common chronic lung diseases in children and young adults and may lead to an early death.
Cystic fibrosis transmembrane regulator (CFTR) functions as a cAMP-regulated chloride channel, and mutations in CFTR are contributory in cystic fibrosis. CFTR contains a C-terminal SLC9A3R1 consensus sequence affording the two proteins to bind with high affinity. Recent experiments have postulated two roles for SLC9A3R1 in CFTR function. Guggino, Stanton, and coworkers have proposed that NHERF functions as a membrane retention signal for CFTR (Moyer et al., 1999).
Raghuram et al. suggest that SLC9A3R1 facilitates the dimerization of CFTR leading to its full expression of chloride channel activity (Raghuram et al., 2001).
Lastly, ss2-adrenoceptors have been shown to physically interact with CFTR Na+/H+ Exchanger Regulatory Factor 1 SLC9A3R1 protein. This function of SLC9A3R1 could be a new therapeutic target in CF patients to facilitate the trafficking of mutated CFTR to plasma membrane (Bossard et al., 2011).
Entity name
Hypophosphatemia and nephrolithiasis
Note
SLC9A3R1 plays an important role in tumor phosphorous transport. Inactivating missense mutations in SLC9AR1 have been identified in patients with hypercalciuria and neprolithiasis (Karim et al., 2008).

Bibliography

Pubmed IDLast YearTitleAuthors

Other Information

Locus ID:

NCBI: 9368
MIM: 604990
HGNC: 11075
Ensembl: ENSG00000109062

Variants:

dbSNP: 9368
ClinVar: 9368
TCGA: ENSG00000109062
COSMIC: SLC9A3R1

RNA/Proteins

Gene IDTranscript IDUniprot
ENSG00000109062ENST00000262613O14745
ENSG00000109062ENST00000413388O14745
ENSG00000109062ENST00000581356J3QRA3
ENSG00000109062ENST00000583369J3QRP6

Expression (GTEx)

0
50
100
150
200
250
300
350
400
450
500

Pathways

PathwaySourceExternal ID
Tight junctionKEGGko04530
Tight junctionKEGGhsa04530

Protein levels (Protein atlas)

Not detected
Low
Medium
High

PharmGKB

Entity IDNameTypeEvidenceAssociationPKPDPMIDs
PA27745ELF2GenePathwayassociated

References

Pubmed IDYearTitleCitations
146083572003A putative RUNX1 binding site variant between SLC9A3R1 and NAT9 is associated with susceptibility to psoriasis.71
218045992012PTEN, NHERF1 and PHLPP form a tumor suppressor network that is disabled in glioblastoma.64
128300002003EBP50, a beta-catenin-associating protein, enhances Wnt signaling and is over-expressed in hepatocellular carcinoma.62
173325062007The NHERF1 PDZ2 domain regulates PKA-RhoA-p38-mediated NHE1 activation and invasion in breast tumor cells.61
187841022008NHERF1 mutations and responsiveness of renal parathyroid hormone.60
191655272009Prefrontal cortex shotgun proteome analysis reveals altered calcium homeostasis and immune system imbalance in schizophrenia.56
187546782008The relative binding affinities of PDZ partners for CFTR: a biochemical basis for efficient endocytic recycling.55
129201192003Activation-independent parathyroid hormone receptor internalization is regulated by NHERF1 (EBP50).54
178848162007NHERF1 regulates parathyroid hormone receptor membrane retention without affecting recycling.53
172421912007NHERF1/EBP50 head-to-tail intramolecular interaction masks association with PDZ domain ligands.51

Citation

Wendy S McDonough ; Michael E Berens

SLC9A3R1 (solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 1)

Atlas Genet Cytogenet Oncol Haematol. 2010-12-01

Online version: http://atlasgeneticsoncology.org/gene/46023/img/logo-atlas-4.svg