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NM_170707.4(LMNA):c.1580G>A (p.Arg527His) AND Mandibuloacral dysplasia with type A lipodystrophy

Germline classification:
Pathogenic (3 submissions)
Last evaluated:
May 6, 2021
Review status:
2 stars out of maximum of 4 stars
criteria provided, multiple submitters, no conflicts
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:
RCV000015591.33

Allele description [Variation Report for NM_170707.4(LMNA):c.1580G>A (p.Arg527His)]

NM_170707.4(LMNA):c.1580G>A (p.Arg527His)

Gene:
LMNA:lamin A/C [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
1q22
Genomic location:
Preferred name:
NM_170707.4(LMNA):c.1580G>A (p.Arg527His)
Other names:
p.R527H:CGT>CAT
HGVS:
  • NC_000001.11:g.156137204G>A
  • NG_008692.2:g.59632G>A
  • NM_001257374.3:c.1244G>A
  • NM_001282624.2:c.1337G>A
  • NM_001282625.2:c.1580G>A
  • NM_001282626.2:c.1580G>A
  • NM_005572.4:c.1580G>A
  • NM_170707.4:c.1580G>AMANE SELECT
  • NM_170708.4:c.1580G>A
  • NP_001244303.1:p.Arg415His
  • NP_001269553.1:p.Arg446His
  • NP_001269554.1:p.Arg527His
  • NP_001269555.1:p.Arg527His
  • NP_005563.1:p.Arg527His
  • NP_005563.1:p.Arg527His
  • NP_733821.1:p.Arg527His
  • NP_733822.1:p.Arg527His
  • LRG_254t1:c.1580G>A
  • LRG_254t2:c.1580G>A
  • LRG_254:g.59632G>A
  • LRG_254p1:p.Arg527His
  • NC_000001.10:g.156106995G>A
  • NM_001257374.1:c.1244G>A
  • NM_005572.3:c.1580G>A
  • NM_170707.2:c.1580G>A
  • NM_170707.3:c.1580G>A
  • P02545:p.Arg527His
Protein change:
R415H; ARG527HIS
Links:
UniProtKB: P02545#VAR_018727; OMIM: 150330.0021; dbSNP: rs57520892
NCBI 1000 Genomes Browser:
rs57520892
Molecular consequence:
  • NM_001257374.3:c.1244G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001282624.2:c.1337G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001282625.2:c.1580G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001282626.2:c.1580G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_005572.4:c.1580G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_170707.4:c.1580G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_170708.4:c.1580G>A - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
Mandibuloacral dysplasia with type A lipodystrophy (MADA)
Synonyms:
CRANIOMANDIBULAR DERMATODYSOSTOSIS; LIPODYSTROPHY, TYPE A, ASSOCIATED WITH MANDIBULOACRAL DYSPLASIA
Identifiers:
MONDO: MONDO:0009557; MedGen: C5399785; Orphanet: 2457; OMIM: 248370

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000035856OMIM
no assertion criteria provided
Pathogenic
(Oct 1, 2009)
germlineliterature only

PubMed (5)
[See all records that cite these PMIDs]

SCV001522190Baylor Genetics
criteria provided, single submitter

(ACMG Guidelines, 2015)
Pathogenic
(Jan 9, 2020)
unknownclinical testing

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

SCV005399150Victorian Clinical Genetics Services, Murdoch Childrens Research Institute

See additional submitters

criteria provided, single submitter

(ACMG Guidelines, 2015)
Pathogenic
(May 6, 2021)
germlineclinical testing

PubMed (7)
[See all records that cite these PMIDs]

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedunknownyesnot providednot providednot providednot providednot providedclinical testing
not providedgermlinenot providednot providednot providednot providednot providednot providedliterature only
not providedgermlinenonot providednot providednot providednot providednot providedclinical testing

Citations

PubMed

Mandibuloacral dysplasia is caused by a mutation in LMNA-encoding lamin A/C.

Novelli G, Muchir A, Sangiuolo F, Helbling-Leclerc A, D'Apice MR, Massart C, Capon F, Sbraccia P, Federici M, Lauro R, Tudisco C, Pallotta R, Scarano G, Dallapiccola B, Merlini L, Bonne G.

Am J Hum Genet. 2002 Aug;71(2):426-31. Epub 2002 Jun 19.

PubMed [citation]
PMID:
12075506
PMCID:
PMC379176

Genetic and phenotypic heterogeneity in patients with mandibuloacral dysplasia-associated lipodystrophy.

Simha V, Agarwal AK, Oral EA, Fryns JP, Garg A.

J Clin Endocrinol Metab. 2003 Jun;88(6):2821-4.

PubMed [citation]
PMID:
12788894
See all PubMed Citations (10)

Details of each submission

From OMIM, SCV000035856.6

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedliterature only PubMed (5)

Description

In 5 consanguineous Italian families, Novelli et al. (2002) demonstrated that individuals with mandibuloacral dysplasia (MADA; 248370) were homozygous for an arg527-to-his (R527H) mutation.

In affected members from 2 pedigrees with MADA, Simha et al. (2003) identified the homozygous R527H mutation.

In a Mexican American boy with MADA born of related parents, Shen et al. (2003) identified homozygosity for the R527H mutation. The authors noted that all the patients reported by Novelli et al. (2002) shared a common disease haplotype, but that the patients reported by Simha et al. (2003) and their Mexican American patient had different haplotypes, indicating independent origins of the mutation. The mutation is located within the C-terminal immunoglobulin-like domain in the center of a beta sheet on the domain surface of the protein.

Lombardi et al. (2007) identified this mutation in compound heterozygosity with another missense mutation (V440M; 150330.0044) in a patient with an apparent MADA phenotype associated with muscular hyposthenia and generalized hypotonia.

Garavelli et al. (2009) reported 2 unrelated patients with early childhood onset of MADA features associated with a homozygous R527H mutation. One presented at age 5 years, 3 months with bulbous distal phalanges of fingers and was observed to have dysmorphic craniofacial features, lipodystrophy type A, and acroosteolysis. The second child, born of consanguineous Pakistani parents, presented at age 4 years, 2 months with a round face, chubby cheeks, thin nose, lipodystrophy type A, and short, broad distal phalanges. Garavelli et al. (2009) emphasized that features of this disorder may become apparent as early as preschool age and that bulbous fingertips may be a clue to the diagnosis.

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

From Baylor Genetics, SCV001522190.1

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

Description

This variant was determined to be pathogenic according to ACMG Guidelines, 2015 [PMID:25741868].

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

From Victorian Clinical Genetics Services, Murdoch Childrens Research Institute, SCV005399150.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (7)

Description

Based on the classification scheme VCGS_Germline_v1.3.4, this variant is classified as Pathogenic. Following criteria are met: 0103 - Dominant negative, loss of function and gain of function are known mechanisms of disease in this gene. Missense variants have been reported to result in gain of function and dominant negative effects, and are associated with childhood-onset disease or skeletal muscle involvement while protein truncating variants have been reported to result in loss of function and haploinsufficiency, and are associated with the adult-onset disease, cardiac disorders or myopathy (PMID: 17377071). (I) 0108 - This gene is associated with both recessive and dominant disease (OMIM). (I) 0112 - The condition associated with this gene has incomplete penetrance, mainly associated with Emery-Dreifuss muscular dystrophy and LMNA-related dilated cardiomyopathy (PMID: 20301609). (I) 0200 - Variant is predicted to result in a missense amino acid change from arginine to histidine. (I) 0251 - This variant is heterozygous. (I) 0304 - Variant is present in gnomAD <0.01 for a condition (v2: 10 heterozygotes, 0 homozygotes). (SP) 0309 - An alternative amino acid change at the same position has been observed in gnomAD (v2) (5 heterozygotes, 0 homozygotes). (I) 0502 - Missense variant with conflicting in silico predictions and uninformative conservation. (I) 0600 - Variant is located in the annotated lamin tail domain (NCBI conserved domain]. (I) 0801 - This variant has strong previous evidence of pathogenicity in unrelated individuals. This variant is a recurrent pathogenic variant associated with mandibuloacral dysplasia (MIM#248370) (MAD) and has been reported in at least ten homozygous or compound heterozygous in individuals with MAD (ClinVar; PMIDs: 14627682, 17848409, 28663758, 29557732). The association of this variant with cardiomyopathy is currently unclear (ClinVar). (SP) 1208 - Inheritance information for this variant is not currently available in this individual. (I) Legend: (SP) - Supporting pathogenic, (I) - Information, (SB) - Supporting benign

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

Last Updated: Jan 13, 2025