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NM_006918.5(SC5D):c.630C>A (p.Asp210Glu) AND Lathosterolosis

Germline classification:
Pathogenic (1 submission)
Last evaluated:
Jun 2, 2020
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
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:
RCV001171520.1

Allele description [Variation Report for NM_006918.5(SC5D):c.630C>A (p.Asp210Glu)]

NM_006918.5(SC5D):c.630C>A (p.Asp210Glu)

Gene:
SC5D:sterol-C5-desaturase [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
11q24.1
Genomic location:
Preferred name:
NM_006918.5(SC5D):c.630C>A (p.Asp210Glu)
HGVS:
  • NC_000011.10:g.121307242C>A
  • NG_009446.1:g.19564C>A
  • NM_001024956.3:c.630C>A
  • NM_006918.5:c.630C>AMANE SELECT
  • NP_001020127.1:p.Asp210Glu
  • NP_008849.2:p.Asp210Glu
  • NC_000011.9:g.121177951C>A
  • NM_006918.4:c.630C>A
Protein change:
D210E; ASP210GLU
Links:
OMIM: 602286.0004; dbSNP: rs760167278
NCBI 1000 Genomes Browser:
rs760167278
Molecular consequence:
  • NM_001024956.3:c.630C>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_006918.5:c.630C>A - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
Lathosterolosis
Synonyms:
Sterol c5-desaturase deficiency; SC5D deficiency
Identifiers:
MONDO: MONDO:0011816; MedGen: C1846421; Orphanet: 46059; OMIM: 607330

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV001334305OMIM
no assertion criteria provided
Pathogenic
(Jun 2, 2020)
germlineliterature only

PubMed (2)
[See all records that cite these PMIDs]

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlinenot providednot providednot providednot providednot providednot providedliterature only

Citations

PubMed

Lathosterolosis: a disorder of cholesterol biosynthesis resembling smith-lemli-opitz syndrome.

Ho AC, Fung CW, Siu TS, Ma OC, Lam CW, Tam S, Wong VC.

JIMD Rep. 2014;12:129-34. doi: 10.1007/8904_2013_255. Epub 2013 Oct 20.

PubMed [citation]
PMID:
24142275
PMCID:
PMC3897790

Lathosterolosis: A Relatively Mild Case with Cataracts and Learning Difficulties.

Anderson R, Rust S, Ashworth J, Clayton-Smith J, Taylor RL, Clayton PT, Morris AAM.

JIMD Rep. 2019;44:79-84. doi: 10.1007/8904_2018_127. Epub 2018 Aug 11.

PubMed [citation]
PMID:
30097991
PMCID:
PMC6323057

Details of each submission

From OMIM, SCV001334305.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedliterature only PubMed (2)

Description

In a child with lathosterolosis (LATHOS; 607330), Ho et al. (2014) identified compound heterozygosity for 2 mutations in the SC5D gene: a c.630C-A transversion (c.630C-A, NM_006918.4), resulting in an asp210-to-glu (D210E) substitution, and a c.442A-G transition, resulting in a lys148-to-glu (K148E; 602286.0005) substitution. Each parent was heterozygous for one of the mutations. Neither variant was present in the dbSNP database or in 150 normal controls. Patient fibroblasts grown on lipid-depleted medium showed elevated concentrations of lathosterol and its precursor, 8,9-cholestenol. Fibroblast staining for filipin showed a 'variant' cholesterol storage pattern, and perinuclear cholesterol content was moderately elevated.

In a 10-year-old boy with lathosterolosis, Anderson et al. (2019) identified compound heterozygosity for 2 mutations in the SC5D gene: the D210E mutation and a c.479C-G transversion resulting in a pro160-to-arg (P160R; 602286.0006) substitution. Both mutations occur at highly conserved residues. Each parent was heterozygous for one of the mutations. The mutations were identified by next-generation sequencing of a panel of genes associated with congenital or childhood cataracts. Both variants were rare in the gnomAD database.

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

Last Updated: Jul 29, 2023