NM_000036.3(AMPD1):c.1304A>G (p.Glu435Gly) AND Muscle AMP deaminase deficiency

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Jun 26, 2022
Review status:: 1 star out of maximum of 4 stars
criteria provided, single submitter

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:: RCV002598584.3

Allele description [Variation Report for NM_000036.3(AMPD1):c.1304A>G (p.Glu435Gly)]

NM_000036.3(AMPD1):c.1304A>G (p.Glu435Gly)

Gene:

AMPD1:adenosine monophosphate deaminase 1 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

1p13.2

Genomic location:

Preferred name:

NM_000036.3(AMPD1):c.1304A>G (p.Glu435Gly)

HGVS:

NC_000001.11:g.114677435T>C
NG_008012.1:g.23121A>G
NM_000036.3:c.1304A>GMANE SELECT
NM_001172626.2:c.1292A>G
NP_000027.3:p.Glu435Gly
NP_001166097.2:p.Glu431Gly
NC_000001.10:g.115220056T>C

Protein change:

E431G

Molecular consequence:

NM_000036.3:c.1304A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001172626.2:c.1292A>G - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:: Muscle AMP deaminase deficiency (MMDD)
Synonyms:: Myoadenylate deaminase deficiency, myopathy due to; Adenosine monophosphate deaminase 1 deficiency; AMP deaminase 1 deficiency; See all synonyms [MedGen]
Identifiers:: MONDO: MONDO:0014220; MedGen: C3714933; Orphanet: 45; OMIM: 615511

Recent activity

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PREDICTED: Mus musculus absent in melanoma 2 (Aim2), transcript variant X1, mRNA
PREDICTED: Mus musculus absent in melanoma 2 (Aim2), transcript variant X1, mRNA
gi|1039729445|ref|XM_011238831.2|

Nucleotide
PREDICTED: Mus musculus SPEG complex locus (Speg), transcript variant X5, mRNA
PREDICTED: Mus musculus SPEG complex locus (Speg), transcript variant X5, mRNA
gi|755493331|ref|XM_011238646.1|

Nucleotide
Profile neighbors for GEO Profiles (Select 132354373) (199)
GEO Profiles
Chromosome neighbors for GEO Profiles (Select 101651781) (20)
GEO Profiles
ZNF407 zinc finger protein 407 [Homo sapiens]
ZNF407 zinc finger protein 407 [Homo sapiens]
Gene ID:55628

Gene

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV003488117	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Uncertain significance (Jun 26, 2022)	germline	clinical testing	PubMed (1) [See all records that cite this PMID]

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV003488117

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Uncertain significance
(Jun 26, 2022)

germline

clinical testing

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

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	unknown	not provided	not provided	not provided	not provided	not provided	clinical testing

Citations

PubMed

Sherloc: a comprehensive refinement of the ACMG-AMP variant classification criteria.

Nykamp K, Anderson M, Powers M, Garcia J, Herrera B, Ho YY, Kobayashi Y, Patil N, Thusberg J, Westbrook M; Invitae Clinical Genomics Group., Topper S.

Genet Med. 2017 Oct;19(10):1105-1117. doi: 10.1038/gim.2017.37. Epub 2017 May 11. Erratum in: Genet Med. 2020 Jan;22(1):240. doi: 10.1038/s41436-019-0624-9.

PubMed [citation]

PMID:: 28492532
PMCID:: PMC5632818

Details of each submission

From Labcorp Genetics (formerly Invitae), Labcorp, SCV003488117.2

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	not provided	not provided	not provided	clinical testing	PubMed (1)

Description

In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance. Algorithms developed to predict the effect of missense changes on protein structure and function (SIFT, PolyPhen-2, Align-GVGD) all suggest that this variant is likely to be disruptive. This variant has not been reported in the literature in individuals affected with AMPD1-related conditions. This variant is present in population databases (rs764950035, gnomAD 0.006%). This sequence change replaces glutamic acid, which is acidic and polar, with glycine, which is neutral and non-polar, at codon 468 of the AMPD1 protein (p.Glu468Gly).

#	Sample				Method		Observation
#	Origin	Affected	Number tested	Tissue	Purpose	Method	Individuals	Allele frequency	Families	Co-occurrences
1	germline	unknown	not provided	not provided	not provided		not provided	not provided	not provided	not provided

Last Updated: Sep 29, 2024

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