ClinVar Miner

Submissions for variant NM_000183.3(HADHB):c.182G>A (p.Arg61His)

gnomAD frequency: 0.00005  dbSNP: rs121913132
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Total submissions: 6
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
GeneDx RCV000520375 SCV000616736 likely pathogenic not provided 2023-05-24 criteria provided, single submitter clinical testing In silico analysis, which includes protein predictors and evolutionary conservation, supports a deleterious effect; Not observed at significant frequency in large population cohorts (gnomAD); This variant is associated with the following publications: (PMID: 8651282, 25087612, 28112527, 29915090, 32778825, 31589614, 35383965, 35782614)
Laboratorio de Genetica e Diagnostico Molecular, Hospital Israelita Albert Einstein RCV003156215 SCV002512345 likely pathogenic Mitochondrial trifunctional protein deficiency 2 2021-06-21 criteria provided, single submitter clinical testing ACMG classification criteria: PS4 moderate, PM2 moderate, PM3 supporting, PP3 supporting
Fulgent Genetics, Fulgent Genetics RCV000015970 SCV002778419 likely pathogenic Mitochondrial trifunctional protein deficiency 2022-03-26 criteria provided, single submitter clinical testing
Invitae RCV000015970 SCV003524178 pathogenic Mitochondrial trifunctional protein deficiency 2023-12-15 criteria provided, single submitter clinical testing This sequence change replaces arginine, which is basic and polar, with histidine, which is basic and polar, at codon 61 of the HADHB protein (p.Arg61His). This variant is present in population databases (rs121913132, gnomAD 0.01%). This missense change has been observed in individual(s) with mitochondrial trifunctional protein deficiency (PMID: 8651282, 12754706, 16423905). In at least one individual the data is consistent with being in trans (on the opposite chromosome) from a pathogenic variant. This variant is also known as R28H and 185G>A (R62H). ClinVar contains an entry for this variant (Variation ID: 14845). Advanced modeling of protein sequence and biophysical properties (such as structural, functional, and spatial information, amino acid conservation, physicochemical variation, residue mobility, and thermodynamic stability) performed at Invitae indicates that this missense variant is expected to disrupt HADHB protein function with a positive predictive value of 80%. This variant disrupts the p.Arg61 (also known as p.Arg28) amino acid residue in HADHB. Other variant(s) that disrupt this residue have been determined to be pathogenic (PMID: 12754706). This suggests that this residue is clinically significant, and that variants that disrupt this residue are likely to be disease-causing. For these reasons, this variant has been classified as Pathogenic.
Baylor Genetics RCV000015970 SCV004191813 pathogenic Mitochondrial trifunctional protein deficiency 2023-09-27 criteria provided, single submitter clinical testing
OMIM RCV003156215 SCV000036237 pathogenic Mitochondrial trifunctional protein deficiency 2 1996-05-01 no assertion criteria provided literature only

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