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NM_000709.4(BCKDHA):c.794G>C (p.Arg265Pro) AND Maple syrup urine disease

Germline classification:
Conflicting interpretations of pathogenicity (2 submissions)
Last evaluated:
Jul 26, 2023
Review status:
criteria provided, conflicting classifications
Somatic classification
of clinical impact:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Somatic classification
of oncogenicity:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Record status:
current
Accession:
RCV000672950.3

Allele description [Variation Report for NM_000709.4(BCKDHA):c.794G>C (p.Arg265Pro)]

NM_000709.4(BCKDHA):c.794G>C (p.Arg265Pro)

Gene:
BCKDHA:branched chain keto acid dehydrogenase E1 subunit alpha [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
19q13.2
Genomic location:
Preferred name:
NM_000709.4(BCKDHA):c.794G>C (p.Arg265Pro)
HGVS:
  • NC_000019.10:g.41422311G>C
  • NG_013004.1:g.29523G>C
  • NM_000709.4:c.794G>CMANE SELECT
  • NM_001164783.2:c.794G>C
  • NP_000700.1:p.Arg265Pro
  • NP_001158255.1:p.Arg265Pro
  • NC_000019.9:g.41928216G>C
  • NM_000709.3:c.794G>C
Protein change:
R265P
Links:
dbSNP: rs761996996
NCBI 1000 Genomes Browser:
rs761996996
Molecular consequence:
  • NM_000709.4:c.794G>C - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001164783.2:c.794G>C - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
Maple syrup urine disease (MSUD)
Identifiers:
MONDO: MONDO:0009563; MeSH: D008375; MedGen: C0024776; Orphanet: 511; OMIM: PS248600

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000798109Counsyl
criteria provided, single submitter

(Counsyl Autosomal Recessive and X-Linked Classification Criteria (2018))
Uncertain significance
(Feb 26, 2018)
unknownclinical testing

PubMed (1)
[See all records that cite this PMID]

Citation Link,

SCV004298392Labcorp Genetics (formerly Invitae), Labcorp
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))
Pathogenic
(Jul 26, 2023)
germlineclinical testing

PubMed (4)
[See all records that cite these PMIDs]

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknownnot providednot providednot providednot providednot providedclinical testing
not providedunknownunknownnot providednot providednot providednot providednot providedclinical testing

Citations

PubMed

Analysis of gene mutations in Chinese patients with maple syrup urine disease.

Yang N, Han L, Gu X, Ye J, Qiu W, Zhang H, Gong Z, Zhang Y.

Mol Genet Metab. 2012 Aug;106(4):412-8. doi: 10.1016/j.ymgme.2012.05.023. Epub 2012 Jun 6.

PubMed [citation]
PMID:
22727569

Identification of six novel mutations in five infants with suspected maple syrup urine disease based on blood and urine metabolism screening.

Yang C, Linpeng S, Cao Y, Wu L.

Gene. 2019 Aug 20;710:9-16. doi: 10.1016/j.gene.2019.04.086. Epub 2019 May 18.

PubMed [citation]
PMID:
31112740
See all PubMed Citations (5)

Details of each submission

From Counsyl, SCV000798109.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1unknownunknownnot providednot providednot providednot providednot providednot providednot provided

From Labcorp Genetics (formerly Invitae), Labcorp, SCV004298392.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (4)

Description

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 BCKDHA protein function. For these reasons, this variant has been classified as Pathogenic. This variant disrupts the p.Arg265 amino acid residue in BCKDHA. Other variant(s) that disrupt this residue have been determined to be pathogenic (PMID: 31112740, 31980395). This suggests that this residue is clinically significant, and that variants that disrupt this residue are likely to be disease-causing. ClinVar contains an entry for this variant (Variation ID: 556887). This missense change has been observed in individual(s) with maple syrup urine disease (PMID: 22145486). This variant is not present in population databases (gnomAD no frequency). This sequence change replaces arginine, which is basic and polar, with proline, which is neutral and non-polar, at codon 265 of the BCKDHA protein (p.Arg265Pro).

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

Last Updated: Sep 29, 2024