FHOD3
protein-codingformin homology 2 domain containing 3, the group of Formins|Armadillo like helical domain containing
Gene summary
The protein encoded by this gene is a member of the diaphanous-related formins (DRF), and contains multiple domains, including GBD (GTPase-binding domain), DID (diaphanous inhibitory domain), FH1 (formin homology 1), FH2 (formin homology 2), and DAD (diaphanous auto-regulatory domain) domains. This protein is thought to play a role in actin filament polymerization in cardiomyocytes. Mutations in this gene have been associated with dilated cardiomyopathy (DCM), characterized by dilation of the ventricular chamber, leading to impairment of systolic pump function and subsequent heart failure. Increased levels of the protein encoded by this gene have been observed in individuals with hypertrophic cardiomyopathy (HCM). Alternative splicing results in multiple transcript variants encoding different isoforms. A muscle-specific isoform has been shown to possess a casein kinase 2 (CK2) phosphorylation site at the C-terminal end of the FH2 domain. Phosphorylation of this site alters its interaction with sequestosome 1 (SQSTM1), and targets this isoform to myofibrils, while other isoforms form cytoplasmic aggregates. [provided by RefSeq, Aug 2015]
MANE transcript
Inheritance
ClinVar variants
Top phenotype
gnomAD constraint
Max pathogenic AF
Genomic locus
External References & Databases
Transcript & Mutation Effects
hg38 • Region Span ~482.5 kbGenCC Phenotypes & Disease Associations
Curated gene-disease validity assertions and inheritance patterns
Inheritance Pattern: AD
Disease ID:MONDO:0030317
Submitter: Labcorp Genetics (formerly Invitae)
Inheritance Pattern: AD
Disease ID:MONDO:0030317
Submitter: PanelApp Australia
Inheritance Pattern: AD
Disease ID:MONDO:0005045
Submitter: Illumina
The FHOD3 gene is located on chromosome 18 at 18q12.2 and encodes the formin homology 2 domain containing 3, which is associated with actin organization. The FHOD3 gene was first reported in relation to autosomal dominant hypertrophic cardiomyopathy in 2018 (30442288: Ochoa et al. 2018). Evidence supporting this gene-disease relationship includes case-level data and experimental data. Variants in this gene have been reported in at least five unrelated probands in two publications (30442288: Ochoa et al. 2018; 31742804: Huang et al. 2019). Variants in this gene segregated with disease in one large seven-generation family and in multiple nuclear families (30442288: Ochoa et al. 2018). The mechanism of disease has not been clearly defined, but both missense and in-frame deletion variants have been associated with disease (30442288: Ochoa et al. 2018; 31742804: Huang et al. 2019). This gene-disease relationship is supported by expression data in the developing heart and sarcomeres and functional alteration in non-patient cells demonstrating impaired myofibril maintenance and defective polymerization of actin filaments in cardiomyocytes (21149568: Iskratsch et al. 2010; 26848968: Fujimoto et al. 2016). Rescue experiments in cultured cardiomyocytes and a transgenic mouse line also support a role for FHOD3 in the developing sarcomere (19706596: Taniguchi et al. 2009; 26848968: Fujimoto et al. 2016). In summary, there is moderate evidence to support this gene-disease relationship. While more evidence is needed to establish this relationship definitively, no convincing contradictory evidence has emerged.
Inheritance Pattern: AD
Disease ID:MONDO:0005045
Submitter: G2P
Inheritance Pattern: AD
Disease ID:MONDO:0005045
Submitter: ClinGen
FHOD3 was first reported in relation to autosomal dominant hypertrophic cardiomyopathy in 2018 (Ochoa et al., PMID: 30442288). Over 50 variants (missense, nonsense, splice variants and in frame del/dup variants) that have been reported in over 100 probands in 6 publications (PMIDs: 29907873, 30442288, 30898215, 31742804, 32335906, 33586461) are included in this curation. The majority of variants are located at exon 12 and exon 15, including two recurring variants p.Ser527del and p.Tyr528Cys in exon 12. Most reported variants are missense with a smaller number of truncating, CNV and splice variants identified at these locations. Two CNVs were too large to be registered, an 11kb deletion from c.1836-1527 in intron 14 to c.2022-2042 in intron 16 and an 11kb deletion c.1836-2543 in intron 14 to c.2021+2217 in intron 16, but contribute 0.25 points each to the overall score (Ochoa JP, et al., 2020, PMID: 32335906). The mechanism of pathogenicity is unknown. This gene-disease relationship is also supported by expression studies, protein interaction, functional alteration and animal models (PMIDs: 15966898, 19706596, 29158260, 29686099, 23213483). However, it should be noted that while experimental studies have shown an important role for FHOD3 in heart and sarcomeric development, no studies have demonstrated a clear HCM phenotype. In summary, there is definitive evidence supporting the relationship between FHOD3 and autosomal dominant hypertrophic cardiomyopathy. This has been repeatedly demonstrated in both the research and clinical diagnostic settings and has been upheld over time. This classification was approved by the ClinGen Hereditary Cardiovascular Diseases GCEP on the meeting date September 29, 2023 (SOP Version 9).
Inheritance Pattern: AD
Disease ID:MONDO:0030317
Submitter: Ambry Genetics
Clinical Genomic Database (CGD)
Manifestation: Cardiovascular
Intervention: Cardiovascular
Rationale: The condition can include cardiomyopathy and/or arrhthymias, and awareness may allow early diagnosis and management
ClinVar Associated Diseases & Phenotypes
Reported disease conditions connected to FHOD3 variants in ClinVar
ClinVar Variants & Pathogenicity by Type
Statistics based on transcript NM_001281740.3. 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.
| Effect | PathogenicP | Likely pathogenicLP | VUS | Likely benignLB | BenignB | Sum |
|---|---|---|---|---|---|---|
| synonymous | 3 | 131 | 5 | 139 | ||
| missense | 3 | 308 | 75 | 2 | 388 | |
| nonsense | 11 | 1 | 12 | |||
| start loss | 0 | |||||
| frameshift | 6 | 6 | ||||
| splice donor/acceptor (+/-2bp) | 6 | 9 | 15 | |||
| Total | 0 | 9 | 337 | 206 | 8 | 560 |
Highest pathogenic variant AF is 0.0000039091565
Transcript Catalog
Annotated transcript isoforms across RefSeq and Ensembl databases
| Transcript ID | Source | Protein ID | Coding Exons | MANE Status |
|---|---|---|---|---|
| RefSeq | NP_001268669.1 | 29 | MANE Select | |
| Ensembl | ENSP00000466937.1 | 29 | MANE Select | |
| RefSeq | NP_001268668.1 | 24 | Standard | |
| RefSeq | NP_079411.2 | 25 | Standard |
Gene Ontology (GO) Annotations & Pathways
Biological processes, molecular functions, cellular components and pathways
Biological Process
- actin filament organization
- negative regulation of actin filament polymerization
- sarcomere organization
- cardiac myofibril assembly
Molecular Function
- actin binding
- protein binding
Cellular Component
- striated muscle thin filament
- Z disc
gnomAD Constraint
Source:
- Gene type
- protein_coding
- Transcript type
- protein_coding
- Transcript
- ENST00000257209
- Coding exons
- 25
- Length
- 482342
- Individuals with no LoFs
- 125702
- Homozygous LoFs
- 0
- Heterozygous LoFs
- 46
- Defined
- 125748
- p
- 0.000183
| Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible | |
|---|---|---|---|---|---|---|
| Missense | 0.876 | 742 | 812 | 0.913 | 0.0000470 | 9331 |
| Missense (PolyPhen) | 330 | 375.33 | 0.87922 | 4462 | ||
| Synonymous | -0.282 | 350 | 343 | 1.02 | 0.0000216 | 2849 |
| Loss of Function | 5.63 | 16 | 65.0 | 0.246 | 0.00000344 | 794 |
Population LoF Frequency
| Population | CAF | p-value | Status |
|---|---|---|---|
| African | 0 | 0.0 | absent |
| Latino/Admixed American | 0.00027 | 0.00026 | rare |
| Ashkenazi Jewish | 0.00010 | 0.000099 | rare |
| East Asian | 0.00011 | 0.00011 | rare |
| Finnish | 0.000095 | 0.000092 | rare |
| European (Non-Finnish) | 0.00020 | 0.00019 | rare |
| South Asian | 0.00042 | 0.00029 | rare |
| Other | 0.00016 | 0.00016 | rare |
dbNSFP Gene Annotations
Source:
- Function
- FUNCTION: Actin-organizing protein that may cause stress fiber formation together with cell elongation (By similarity). Isoform 4 may play a role in actin filament polymerization in cardiomyocytes. {ECO:0000250, ECO:0000269|PubMed:21149568}.;
Recessive Scores
- pRec
- 0.104
Intolerance Scores
- LoFtool
- 0.569
- RVIS EVS
- -0.51
- RVIS percentile EVS
- 21.22
Essentials
- Essential (CRISPR)
- N
- Essential (CRISPR2)
- N
- Essential (gene trap)
- N
- Indispensability pred.
- N
- Indispensability score
- 0.152
Gene Damage Prediction
| All | Recessive | Dominant | |
|---|---|---|---|
| Mendelian | High | High | High |
| Primary Immunodeficiency | High | High | High |
| Cancer | High | High | High |