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NM_004646.4(NPHS1):c.793T>C (p.Cys265Arg) AND Finnish congenital nephrotic syndrome

Germline classification:
Pathogenic (1 submission)
Last evaluated:
Aug 15, 2009
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:
RCV000007277.2

Allele description [Variation Report for NM_004646.4(NPHS1):c.793T>C (p.Cys265Arg)]

NM_004646.4(NPHS1):c.793T>C (p.Cys265Arg)

Gene:
NPHS1:NPHS1 adhesion molecule, nephrin [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
19q13.12
Genomic location:
Preferred name:
NM_004646.4(NPHS1):c.793T>C (p.Cys265Arg)
HGVS:
  • NC_000019.10:g.35849283A>G
  • NG_013356.2:g.25005T>C
  • NG_051206.1:g.2649A>G
  • NM_004646.4:c.793T>CMANE SELECT
  • NP_004637.1:p.Cys265Arg
  • LRG_693:g.25005T>C
  • NC_000019.9:g.36340185A>G
  • O60500:p.Cys265Arg
Protein change:
C265R; CYS265ARG
Links:
UniProtKB: O60500#VAR_064200; OMIM: 602716.0008; dbSNP: rs267606917
NCBI 1000 Genomes Browser:
rs267606917
Molecular consequence:
  • NM_004646.4:c.793T>C - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
Finnish congenital nephrotic syndrome (NPHS1)
Synonyms:
NEPHROTIC SYNDROME, TYPE 1; Nephrosis 1, congenital, Finnish type; Congenital nephrotic syndrome 1
Identifiers:
MONDO: MONDO:0009732; MedGen: C0403399; Orphanet: 839; OMIM: 256300

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000027473OMIM
no assertion criteria provided
Pathogenic
(Aug 15, 2009)
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

A familial childhood-onset relapsing nephrotic syndrome.

Kitamura A, Tsukaguchi H, Hiramoto R, Shono A, Doi T, Kagami S, Iijima K.

Kidney Int. 2007 May;71(9):946-51. Epub 2007 Feb 7. No abstract available.

PubMed [citation]
PMID:
17290294

Predisposition to relapsing nephrotic syndrome by a nephrin mutation that interferes with assembly of functioning microdomains.

Shono A, Tsukaguchi H, Kitamura A, Hiramoto R, Qin XS, Doi T, Iijima K.

Hum Mol Genet. 2009 Aug 15;18(16):2943-56. doi: 10.1093/hmg/ddp232. Epub 2009 May 14.

PubMed [citation]
PMID:
19443487

Details of each submission

From OMIM, SCV000027473.1

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

Description

In a Japanese brother and sister with a mild variant of Finnish congenital nephrosis (NPHS1; 256300), Kitamura et al. (2007) identified compound heterozygosity for a 793T-C transition in the NPHS1 gene, resulting in a cys265-to-arg (C265R) substitution in Ig domain 3, and a 2464G-A transition in the NPHS1 gene, resulting in a val822-to-met (V822M; 602716.0009) substitution in the spacer region between Ig domains 7 and 8. The parents, who had no urinary abnormalities, were each heterozygous for 1 of the missense mutations, respectively, which were not identified in 74 control chromosomes. Expression studies in COS-7 cells revealed that the C265R mutation, which disrupts formation of a disulfide bond within the third Ig domain, resulted in mutant protein that was predominantly trapped within the endoplasmic reticulum (ER). In contrast, the V822M variant protein reached the plasma membrane, although partial ER retention was observed. Antibody crosslinking experiments revealed a fine granular pattern of puncta on the plasma membrane with the V822M variant compared to the distinct large punctate staining seen with wildtype nephrin, suggesting impairment of lateral oligomerization of the V822M-mutant protein.

Shono et al. (2009) reported the biochemical effects of compound heterozygosity for the nephrin variants C265R and V822M. When heterologously expressed, these variants exhibited normal metabolic half-life and raft binding. Clustering of V822M-mutant protein failed to evoke a maximum tyrosine-phosphorylation and actin reorganization, suggesting an inability to assemble into functioning membrane microdomains. Shono et al. (2009) suggested that C265R and V822M mutants may compose a dysfunctional slit diaphragm complex due to their mixed defects comprising reduced cell surface targeting and ineffective assembly of signaling microdomains. The defective slit diaphragm may confer a susceptibility to immunogenic stimuli and predisposition to a relapsing phenotype.

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

Last Updated: Apr 23, 2022