HSD11B1
hydroxysteroid 11-beta dehydrogenase 1, the group of Short chain dehydrogenase/reductase superfamily
Basic information
Region (hg38): 1:209686178-209734949
Previous symbols: [ "HSD11B", "HSD11" ]
Links
Phenotypes
GenCC
Source:
- cortisone reductase deficiency (Supportive), mode of inheritance: AD
- cortisone reductase deficiency 2 (Limited), mode of inheritance: AD
Clinical Genomic Database
Source:
| Condition | Inheritance | Intervention Categories | Intervention/Rationale | Manifestation Categories | References |
|---|---|---|---|---|---|
| Cortisone reductase deficiency 2 | AD/AR (Triallelic) | General | Genetic knowledge may be beneficial related to issues such as selection of optimal supportive care, informed medical decision-making, prognostic considerations, and avoidance of unnecessary testing | Endocrine | 3990293; 8923828; 10522997; 12858176; 21325058 |
ClinVar
This is a list of variants' phenotypes submitted to
Variants pathogenicity by type
Statistics on ClinVar variants can assist in determining whether a specific variant type in the HSD11B1 gene is commonly pathogenic or not.
In the table, we include only reliable ClinVar variants with their consequences to MANE Select, Mane Plus Clinical transcripts, or transcripts with TSL equals 1. Click the count to view the source variants.
Warning: slight differences between displayed counts and the number of variants in ClinVar may occur, primarily due to (1) the application of a different transcript and/or consequence by our variant effect predictor or (2) differences in clinical significance: we classify Benign/Likely benign variants as Likely benign and Pathogenic/Likely pathogenic variants as Likely pathogenic.
| Variant type | Pathogenic | Likely pathogenic | VUS | Likely benign | Benign | Sum |
|---|---|---|---|---|---|---|
| synonymous | 3 | |||||
| missense | 10 | 10 | ||||
| nonsense | 0 | |||||
| start loss | 0 | |||||
| frameshift | 1 | |||||
| inframe indel | 0 | |||||
| splice donor/acceptor (+/-2bp) | 0 | |||||
| splice region | 1 | 1 | ||||
| non coding | 3 | |||||
| Total | 0 | 0 | 11 | 1 | 5 |
Variants in HSD11B1
This is a list of pathogenic ClinVar variants found in the HSD11B1 region.
You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.
| Position | Type | Phenotype | Significance | ClinVar |
|---|---|---|---|---|
| 1-209704971-C-T | not specified | Uncertain significance (Feb 14, 2023) | ||
| 1-209705839-C-T | Benign (Dec 31, 2019) | |||
| 1-209705887-G-A | HSD11B1-related disorder | Benign (Dec 16, 2019) | ||
| 1-209706751-T-C | not specified | Uncertain significance (Nov 06, 2023) | ||
| 1-209706778-A-T | not specified | Uncertain significance (Feb 17, 2024) | ||
| 1-209706809-G-C | not specified | Uncertain significance (May 31, 2023) | ||
| 1-209706871-C-CA | Cortisone reductase deficiency 2 | Benign (Jan 23, 2024) | ||
| 1-209706914-T-G | Cortisone reductase deficiency 2 | Benign (-) | ||
| 1-209706972-A-G | not specified | Uncertain significance (May 13, 2024) | ||
| 1-209707018-T-A | not specified | Uncertain significance (Dec 21, 2023) | ||
| 1-209707020-C-T | Cortisone reductase deficiency 2 | Pathogenic (Mar 08, 2011) | ||
| 1-209707093-G-A | not specified | Uncertain significance (Aug 08, 2022) | ||
| 1-209707113-G-A | not specified | Uncertain significance (Jul 20, 2021) | ||
| 1-209707136-G-A | Uncertain significance (May 05, 2020) | |||
| 1-209732427-G-A | Benign (Dec 31, 2019) | |||
| 1-209732479-G-T | Cortisone reductase deficiency 2 | Pathogenic (Mar 08, 2011) | ||
| 1-209732565-G-C | not specified | Uncertain significance (Jun 29, 2023) | ||
| 1-209734320-A-AT | Exstrophy-epispadias complex | Uncertain significance (-) | ||
| 1-209734349-C-T | not specified | Uncertain significance (Jun 10, 2022) | ||
| 1-209734386-G-C | not specified • HSD11B1-related disorder | Benign/Likely benign (Dec 31, 2019) | ||
| 1-209734487-C-T | not specified | Uncertain significance (Dec 31, 2023) |
GnomAD
Source:
| Gene | Type | Bio Type | Transcript | Coding Exons | Length |
|---|---|---|---|---|---|
| HSD11B1 | protein_coding | protein_coding | ENST00000367028 | 6 | 48786 |
| pLI Probability LOF Intolerant | pRec Probability LOF Recessive | Individuals with no LOFs | Individuals with Homozygous LOFs | Individuals with Heterozygous LOFs | Defined | p |
|---|---|---|---|---|---|---|
| 0.417 | 0.576 | 125717 | 0 | 9 | 125726 | 0.0000358 |
| Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible in Transcript | |
|---|---|---|---|---|---|---|
| Missense | 0.959 | 120 | 153 | 0.782 | 0.00000794 | 1916 |
| Missense in Polyphen | 31 | 45.016 | 0.68864 | 523 | ||
| Synonymous | 0.0414 | 55 | 55.4 | 0.993 | 0.00000305 | 568 |
| Loss of Function | 2.26 | 2 | 9.51 | 0.210 | 4.11e-7 | 134 |
LoF frequencies by population
| Ethnicity | Sum of pLOFs | p |
|---|---|---|
| African & African-American | 0.0000615 | 0.0000615 |
| Ashkenazi Jewish | 0.00 | 0.00 |
| East Asian | 0.0000544 | 0.0000544 |
| Finnish | 0.00 | 0.00 |
| European (Non-Finnish) | 0.0000529 | 0.0000528 |
| Middle Eastern | 0.0000544 | 0.0000544 |
| South Asian | 0.00 | 0.00 |
| Other | 0.000163 | 0.000163 |
dbNSFP
Source:
- Function
- FUNCTION: Catalyzes reversibly the conversion of cortisol to the inactive metabolite cortisone. Catalyzes reversibly the conversion of 7-ketocholesterol to 7-beta-hydroxycholesterol. In intact cells, the reaction runs only in one direction, from 7- ketocholesterol to 7-beta-hydroxycholesterol (By similarity). {ECO:0000250}.;
- Disease
- DISEASE: Cortisone reductase deficiency 2 (CORTRD2) [MIM:614662]: An autosomal dominant error of cortisone metabolism characterized by a failure to regenerate cortisol from cortisone, resulting in increased cortisol clearance, activation of the hypothalamic- pituitary axis and ACTH-mediated adrenal androgen excess. Clinical features include hyperandrogenism resulting in hirsutism, oligo- amenorrhea, and infertility in females and premature pseudopuberty in males. {ECO:0000269|PubMed:12858176}. Note=The disease is caused by mutations affecting the gene represented in this entry.;
- Pathway
- Steroid hormone biosynthesis - Homo sapiens (human);Metabolism of xenobiotics by cytochrome P450 - Homo sapiens (human);Chemical carcinogenesis - Homo sapiens (human);Steroidogenesis;Apparent mineralocorticoid excess syndrome;3-Beta-Hydroxysteroid Dehydrogenase Deficiency;21-hydroxylase deficiency (CYP21);Corticosterone methyl oxidase I deficiency (CMO I);Corticosterone methyl oxidase II deficiency - CMO II;Adrenal Hyperplasia Type 5 or Congenital Adrenal Hyperplasia due to 17 Alpha-hydroxylase Deficiency;Adrenal Hyperplasia Type 3 or Congenital Adrenal Hyperplasia due to 21-hydroxylase Deficiency;Congenital Lipoid Adrenal Hyperplasia (CLAH) or Lipoid CAH;17-alpha-hydroxylase deficiency (CYP17);11-beta-hydroxylase deficiency (CYP11B1);Glucocorticoid and Mineralcorticoid Metabolism;Prostaglandin Synthesis and Regulation;visceral fat deposits and the metabolic syndrome;Metabolism of lipids;Androgen and estrogen biosynthesis and metabolism;Metabolism;Metabolism of steroid hormones;Metabolism of steroids;C21-steroid hormone biosynthesis and metabolism;Glucocorticoid biosynthesis;Steroid hormones
(Consensus)
Recessive Scores
- pRec
- 0.632
Intolerance Scores
- loftool
- 0.223
- rvis_EVS
- -0.43
- rvis_percentile_EVS
- 25.15
Haploinsufficiency Scores
- pHI
- 0.381
- hipred
- N
- hipred_score
- 0.452
- ghis
- 0.498
Essentials
- essential_gene_CRISPR
- N
- essential_gene_CRISPR2
- N
- essential_gene_gene_trap
- N
- gene_indispensability_pred
- E
- gene_indispensability_score
- 0.971
Gene Damage Prediction
| All | Recessive | Dominant | |
|---|---|---|---|
| Mendelian | Medium | Low | Medium |
| Primary Immunodeficiency | Medium | Low | Medium |
| Cancer | Medium | Medium | Medium |
Mouse Genome Informatics
- Gene name
- Hsd11b1
- Phenotype
- liver/biliary system phenotype; respiratory system phenotype; behavior/neurological phenotype (the observable actions or reactions of mammalian organisms that are manifested through development and lifespan); hematopoietic system phenotype; cardiovascular system phenotype (the observable morphological and physiological characteristics of the mammalian heart, blood vessels, or circulatory system that are manifested through development and lifespan); nervous system phenotype (the observable morphological and physiological characteristics of the extensive, intricate network of electochemical structures in the body that is comprised of the brain, spinal cord, nerves, ganglia and parts of the receptor organs that are manifested through development and lifespan); immune system phenotype; homeostasis/metabolism phenotype; cellular phenotype; endocrine/exocrine gland phenotype; adipose tissue phenotype (the observable morphological and physiological characteristics of mammalian fat tissue that are manifested through development and lifespan); growth/size/body region phenotype; integument phenotype (the observable morphological and physiological characteristics of the skin and its associated structures, such as the hair, nails, sweat glands, sebaceous glands and other secretory glands that are manifested through development and lifespan); muscle phenotype;
Gene ontology
- Biological process
- glucocorticoid biosynthetic process;lung development;oxidation-reduction process
- Cellular component
- endoplasmic reticulum membrane;membrane;integral component of membrane
- Molecular function
- 11-beta-hydroxysteroid dehydrogenase [NAD(P)] activity;steroid binding;11-beta-hydroxysteroid dehydrogenase (NADP+) activity