NR3C2

protein-coding

nuclear receptor subfamily 3 group C member 2, the group of Nuclear receptor subfamily 3 group C

Gene summary

This gene encodes the mineralocorticoid receptor, which mediates aldosterone actions on salt and water balance within restricted target cells. The protein functions as a ligand-dependent transcription factor that binds to mineralocorticoid response elements in order to transactivate target genes. Mutations in this gene cause autosomal dominant pseudohypoaldosteronism type I, a disorder characterized by urinary salt wasting. Defects in this gene are also associated with early onset hypertension with severe exacerbation in pregnancy. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Oct 2009]

Previous symbols:
  • MLR

MANE transcript

NM_000901.5

Inheritance

AD

ClinVar variants

P:69U:230B:96

Top phenotype

Pseudohypoaldosteronism type I, autosomal dominant; Hypertension, early-onset, autosomal dominant, with exacerbation in pregnancy

gnomAD constraint

pLI —, LoF o/e 0.19

Max pathogenic AF

—

Genomic locus

chr4:148,078,762-148,444,698

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~365.9 kb
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GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

autosomal dominant pseudohypoaldosteronism type 1DEFINITIVE

Inheritance Pattern: AD

Disease ID:MONDO:0008329

Submitter: ClinGen

The *NR3C2* gene is located on chromosome 4 at q31.23 and encodes the nuclear receptor subfamily 3 group C member 2 protein, also known as mineralocorticoid receptor. The protein functions as a ligand-dependent transcription factor that mediates the effects of aldosterone on a variety of target tissues, including the distal parts of the nephron, the distal colon, the cardiovascular and central nervous systems, and brown adipose tissue (Zennaro 2001 PMID: 11518808). *NR3C2* mutation was first reported in relation to autosomal dominant Pseudohypoaldosteronism type 1 in 1998 (Geller PMID:9662404). This disorder is characterised by mineralocorticoid resistance and neonatal renal salt wasting, and failure to thrive in neonates and children. It is associated with low sodium, high potassium, acidosis, and low blood pressure, with high plasma renin and aldosterone levels. Symptoms improve by adolescence due to the reduced dependence on aldosterone action with age. However, there is compensation for the defective mineralocorticoid receptor by upregulating the mineralocorticoid axis with a lifelong increase in aldosterone levels. Treatment is with NaCl supplements. The mechanism is considered to be due to a loss of function; aldosterone cannot bind to the receptor and affects transcription, resulting in high aldosterone levels. *NR3C2* mutation has also been associated with autosomal dominant Hypertension, early-onset, with exacerbation in pregnancy by Geller in 2000 (PMID:10884226). This condition is due to a gain of function mechanism, where there is increased renal salt reabsorption leading to severe ‘early onset’ hypertension, with low renin and aldosterone. Per criteria outlined by the ClinGen Lumping and Splitting Working Group, although both conditions have an AD inheritance, there is a difference in molecular mechanism and in clinical phenotype. Therefore the diseases were split into Pseudohypoaldosteronism type I (OMIM:177735) and Hypertension, early onset, with exacerbation in pregnancy (OMIM:605115). Autosomal dominant hypertension, early-onset, with exacerbation in pregnancy has been curated separately. More than 40 pathogenic variants had been reported in *NR3C2* in Pseudohypoaldosteronism type I, many of which are nonsense or frameshift variants with relatively fewer missense variants, in more than 80 individuals in many publications. More evidence is available in the literature but the maximum score for genetic evidence (12 points) has been reached. The gene-disease association is also supported by experimental evidence including biochemical function, expression studies, and a knockout mouse model that recapitulates the human disease. In summary, NR3C2 is definitively associated with autosomal dominant Pseudohypoaldosteronism type 1. This has been repeatedly demonstrated in both research and clinical diagnostic settings, and has been upheld over time.

autosomal dominant pseudohypoaldosteronism type 1DEFINITIVE

Inheritance Pattern: AD

Disease ID:MONDO:0008329

Submitter: Ambry Genetics

pseudohyperaldosteronism type 2LIMITED

Inheritance Pattern: Unknown

Disease ID:MONDO:0011517

Submitter: Labcorp Genetics (formerly Invitae)

autosomal dominant pseudohypoaldosteronism type 1DEFINITIVE

Inheritance Pattern: AD

Disease ID:MONDO:0008329

Submitter: Illumina

The NR3C2 gene is located on chromosome 4 at 4q31.23 and encodes nuclear receptor subfamily 3 group C member 2. As a ligand-dependent transcription factor, this protein acts as a receptor for mineralocorticoids such as aldosterone and glucocorticoids and regulates ion and water transport by transactivating target genes with mineralocorticoid response elements. The NR3C2 gene was first reported in relation to autosomal dominant pseudohypoaldosteronism type 1 in 1998 (9662404: Geller et al. 1998). Evidence supporting this gene-disease relationship includes case-level data and experimental data. Variants in this gene have been reported in at least seven individuals from three publications (9662404: Geller et al. 1998; 11344206: Viemann et al. 2001; 16972228: Pujo et al. 2007). In four cases, the variant was confirmed to have occurred de novo, and variants in this gene segregated with disease in at least three additional family members. More evidence is available in the literature, but the maximum score for genetic evidence (12 pts.) has been reached. The mechanism for disease is haploinsufficiency. Of note, this gene has also been implicated in early-onset autosomal dominant hypertension. This relationship will be assessed separately. The relationship between NR3C2 and autosomal dominant pseudohypoaldosteronism type 1 is supported by the biochemical function of the protein as a ligand-dependent transcription factor that mediates the effects of aldosterone (28804203: Tajima et al. 2017) and by animal model data, as heterozygous knock out mice show elevated plasma renin, angiotensin, and aldosterone levels as well as high levels of sodium in urine and elevated fractional excretion of sodium (9689096: Berger et al. 1998). Homozygous knockout mice show a more severe phenotype characterized by hypovolemia, hyponatremia, hyperkalemia, and failure to thrive, dying within 2 weeks of birth. In summary, NR3C2 is definitively associated with autosomal dominant pseudohypoaldosteronism type 1. This has been repeatedly demonstrated in both the research and clinical diagnostic settings and has been upheld over time.

pseudohyperaldosteronism type 2LIMITED

Inheritance Pattern: AD

Disease ID:MONDO:0011517

Submitter: ClinGen

The *NR3C2* gene is located on chromosome 4 at q31.23 and encodes the nuclear receptor subfamily 3 group C member 2 protein, also known as mineralocorticoid receptor. The protein functions as a ligand-dependent transcription factor that mediates the effects of aldosterone on a variety of target tissues, including the distal parts of the nephron, the distal colon, the cardiovascular and central nervous systems, and brown adipose tissue (Zennaro 2001 PMID: 11518808). *NR3C2* mutation was first reported in relation to autosomal dominant pseudohyperaldosteronism type 2 in 2000 (Geller, PMID:10884226). The preferred disease name suggested for this disorder is ‘Hypertension, early-onset, with exacerbation in pregnancy - NR3C2’. This condition has only been reported in one family, with 11 affected members all displaying severe hypertension before the age of 20 years. Affected males and females had severe ‘early onset’ hypertension, low renin, low aldosterone and no other cause for hypertension. In addition 2 female members of this family had severe hypertension but not preeclampsia in their 5 pregnancies presumably due to high progesterone levels. *NR3C2* mutation has also been associated with autosomal dominant Pseudohypoaldosteronism type 1 by Geller in 1998 (PMID:9662404). This condition is due to a loss of function mechanism, where aldosterone cannot bind to the receptor and affects transcription, resulting in high aldosterone and plasma renin levels, and low blood pressure. Per criteria outlined by the ClinGen Lumping and Splitting Working Group, although both conditions have an AD inheritance, there is a difference in molecular mechanism and in clinical phenotype. Therefore the diseases were split into Pseudohypoaldosteronism type I (OMIM:177735) and Hypertension, early onset, with exacerbation in pregnancy (OMIM:605115). Autosomal dominant Pseudohypoaldosteronism type 1 has been curated separately. Only one missense variant in *NR3C2* (p.Ser810Leu) has been reported in a single family with hypertension, early onset, with exacerbation in pregnancy. This variant affects a critical residue in the NR3C2 hormone binding domain and results in increased receptor specificity for progesterone and other steroids lacking the 21hydroxyl group. This variant thus results in a gain of function, resulting in increased renal salt reabsorption leading to severe hypertension. The gene-disease association is also supported by experimental evidence including biochemical function and expression studies. In summary, there is limited evidence to support the association of *NR3C2* with autosomal dominant hypertension, early onset, with exacerbation in pregnancy. Although more evidence is needed to support a causal role, no convincing evidence has emerged that contradicts the gene-disease relationship.

autosomal dominant pseudohypoaldosteronism type 1STRONG

Inheritance Pattern: AD

Disease ID:MONDO:0008329

Submitter: Labcorp Genetics (formerly Invitae)

autosomal dominant pseudohypoaldosteronism type 1STRONG

Inheritance Pattern: AD

Disease ID:MONDO:0008329

Submitter: PanelApp Australia

autosomal dominant pseudohypoaldosteronism type 1SUPPORTIVE

Inheritance Pattern: AD

Disease ID:MONDO:0008329

Submitter: Orphanet

Clinical Genomic Database (CGD)

Pseudohypoaldosteronism type I, autosomal dominant; Hypertension, early-onset, autosomal dominant, with exacerbation in pregnancyAD

Manifestation: Obstetric; Renal

Intervention: Obstetric; Pharmacogenomic; Renal

Rationale: In Pseudohypoaldosteronism type I, autosomal dominant Although the disorder may eventually become asymptomatic, individuals can present with neonatal salt wasting, and prompt recognition and treatment of electrolyte imbalances (eg, with sodium supplementation) can be beneficial; In Hypertension, early-onset, autosomal dominant, with exacerbation in pregnancy, hypertension can be severe, and present relatively early in life, and additionally may be exacerbated in pregnancy, and may be accompanied by findings such as hypokalemia, and may necessitate interventions including delivery; It has been suggested the spironolactone is contraindicated

Refs: 1939532; 9662404; 10884226; 11134129; 11344206; 12788847; 16954160; 16972228; 20453518; 21159846; 21903996; 21932599Source: CGD (NHGRI)

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to NR3C2 variants in ClinVar

12 Conditions Cataloged
not providedTotal: 191
Autosomal dominant pseudohypoaldosteronism type 1Total: 170
Pseudohyperaldosteronism type 2Total: 97
Inborn genetic diseasesTotal: 83
NR3C2-related disorderTotal: 42
not specifiedTotal: 33
Renal tubulopathiesTotal: 3
Autism spectrum disorderTotal: 2

ClinVar Variants & Pathogenicity by Type

Statistics based on transcript NM_000901.5. Only rare variants are included.

We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.

Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.

EffectPLPVUSLBBSum
synonymous
9
clinvar
66
clinvar
7
clinvar
82
missense
6
clinvar
6
clinvar
216
clinvar
20
clinvar
3
clinvar
251
nonsense
16
clinvar
9
clinvar
3
clinvar
28
start loss
0
frameshift
12
clinvar
13
clinvar
1
clinvar
26
splice donor/acceptor (+/-2bp)
1
clinvar
6
clinvar
1
clinvar
8
Total35342308610395

Highest pathogenic variant AF is 0.0000013685151

Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 30 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_000901.5RefSeqNP_000892.28MANE Select
ENST00000358102.8EnsemblENSP00000350815.38MANE Select
NM_001166104.2RefSeqNP_001159576.17Standard
NM_001354819.1RefSeqNP_001341748.17Standard

Gene Ontology (GO) Annotations & Pathways

Biological processes, molecular functions, cellular components and pathways

Pathways ConsensusPathDB

  • Agents Acting on the Renin-Angiotensin System Pathway, Pharmacodynamics
  • Aldosterone-regulated sodium reabsorption - Homo sapiens (human)
  • ACE Inhibitor Pathway, Pharmacodynamics
  • Polythiazide Action Pathway
  • Methyclothiazide Action Pathway

Biological Process

  • regulation of transcription by RNA polymerase II
  • transcription initiation from RNA polymerase II promoter
  • signal transduction
  • steroid hormone mediated signaling pathway

Molecular Function

  • DNA-binding transcription factor activity, RNA polymerase II-specific
  • DNA-binding transcription factor activity
  • steroid hormone receptor activity
  • steroid binding
  • protein binding

Cellular Component

  • nucleoplasm
  • endoplasmic reticulum membrane
  • cytosol
  • receptor complex

gnomAD Constraint

Source: gnomAD

Gene type
protein_coding
Transcript type
protein_coding
Transcript
ENST00000358102
Coding exons
8
Length
365938
Individuals with no LoFs
125736
Homozygous LoFs
0
Heterozygous LoFs
12
Defined
125748
p
0.0000477
Z-ScoreObservedExpectedObserved/ExpectedMutation RateTotal Possible
Missense2.103905250.7430.00002886424
Missense (PolyPhen)3365.2030.50611712
Synonymous-0.3812192121.030.00001331961
Loss of Function4.79841.20.1940.00000267471

Population LoF Frequency

PopulationCAFp-valueStatus
African0.0000620.000062rare
Latino/Admixed American0.0000870.000087rare
Ashkenazi Jewish0.0000990.000099rare
East Asian00.0absent
Finnish0.0000460.000046rare
European (Non-Finnish)0.0000440.000044rare
South Asian0.0000330.000033rare
Other00.0absent

dbNSFP Gene Annotations

Source: dbNSFP

Function
FUNCTION: Receptor for both mineralocorticoids (MC) such as aldosterone and glucocorticoids (GC) such as corticosterone or cortisol. Binds to mineralocorticoid response elements (MRE) and transactivates target genes. The effect of MC is to increase ion and water transport and thus raise extracellular fluid volume and blood pressure and lower potassium levels. {ECO:0000269|PubMed:3037703}.;
Disease
DISEASE: Pseudohypoaldosteronism 1, autosomal dominant (PHA1A) [MIM:177735]: A salt wasting disease resulting from target organ unresponsiveness to mineralocorticoids. PHA1A is a mild form characterized by target organ defects confined to kidney. Patients may present with neonatal renal salt wasting with hyperkalaemic acidosis despite high aldosterone levels. These patients improve with age and usually become asymptomatic without treatment. {ECO:0000269|PubMed:11134129, ECO:0000269|PubMed:12788847, ECO:0000269|PubMed:16954160, ECO:0000269|PubMed:16972228}. Note=The disease is caused by mutations affecting the gene represented in this entry.; DISEASE: Early-onset hypertension with severe exacerbation in pregnancy (EOHSEP) [MIM:605115]: Inheritance is autosomal dominant. The disease is characterized by the onset of severe hypertension before the age of 20, and by suppression of aldosterone secretion. {ECO:0000269|PubMed:10884226, ECO:0000269|PubMed:15908963, ECO:0000269|PubMed:15967794}. Note=The disease is caused by mutations affecting the gene represented in this entry.;

Recessive Scores

pRec
0.502

Intolerance Scores

LoFtool
0.0298
RVIS EVS
-0.35
RVIS percentile EVS
29.49

Essentials

Essential (CRISPR)
N
Essential (CRISPR2)
N
Essential (gene trap)
N
Indispensability pred.
E
Indispensability score
0.996

Gene Damage Prediction

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium
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