U.S. flag

An official website of the United States government

NM_198578.4(LRRK2):c.4321C>T (p.Arg1441Cys) AND Autosomal dominant Parkinson disease 8

Germline classification:
Pathogenic (6 submissions)
Last evaluated:
Oct 28, 2023
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:
RCV000002015.26

Allele description [Variation Report for NM_198578.4(LRRK2):c.4321C>T (p.Arg1441Cys)]

NM_198578.4(LRRK2):c.4321C>T (p.Arg1441Cys)

Gene:
LRRK2:leucine rich repeat kinase 2 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
12q12
Genomic location:
Preferred name:
NM_198578.4(LRRK2):c.4321C>T (p.Arg1441Cys)
HGVS:
  • NC_000012.12:g.40310434C>T
  • NG_011709.1:g.90424C>T
  • NM_198578.4:c.4321C>TMANE SELECT
  • NP_940980.4:p.Arg1441Cys
  • NC_000012.11:g.40704236C>T
  • NM_198578.3:c.4321C>T
  • Q5S007:p.Arg1441Cys
Protein change:
R1441C; ARG1441CYS
Links:
UniProtKB: Q5S007#VAR_024945; OMIM: 609007.0003; dbSNP: rs33939927
NCBI 1000 Genomes Browser:
rs33939927
Molecular consequence:
  • NM_198578.4:c.4321C>T - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
Autosomal dominant Parkinson disease 8
Synonyms:
Parkinson disease 8; Parkinson disease 8, susceptibility to; LRRK2-Related Parkinson Disease
Identifiers:
MONDO: MONDO:0011764; MedGen: C1846862; Orphanet: 411602; OMIM: 607060

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...

Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000022173OMIM
no assertion criteria provided
Pathogenic
(Aug 25, 2009)
germlineliterature only

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

SCV000056116GeneReviews
no classification provided
not providedunknownliterature only

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

SCV000599864Bioscientia Institut fuer Medizinische Diagnostik GmbH, Sonic Healthcare
no assertion criteria provided
Pathogenic
(Apr 20, 2017)
germlineclinical testing

SCV000640130Labcorp Genetics (formerly Invitae), Labcorp
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))
Pathogenic
(Oct 28, 2023)
germlineclinical testing

PubMed (9)
[See all records that cite these PMIDs]

SCV001652802Fulgent Genetics, Fulgent Genetics
criteria provided, single submitter

(ACMG Guidelines, 2015)
Pathogenic
(Jul 21, 2021)
unknownclinical testing

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

SCV004121779Women's Health and Genetics/Laboratory Corporation of America, LabCorp
criteria provided, single submitter

(LabCorp Variant Classification Summary - May 2015)
Pathogenic
(Oct 17, 2023)
germlineclinical testing

PubMed (3)
[See all records that cite these PMIDs]

Citation Link

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedunknownnot providednot providednot providednot providednot providednot providedliterature only
not providedgermlineyesnot providednot providednot providednot providednot providedclinical testing
not providedgermlineunknownnot providednot providednot providednot providednot providedclinical testing
not providedunknownunknownnot providednot providednot providednot providednot providedclinical testing
not providedgermlinenot providednot providednot providednot providednot providednot providedliterature only

Citations

PubMed

Western Nebraska family (family D) with autosomal dominant parkinsonism.

Wszolek ZK, Pfeiffer B, Fulgham JR, Parisi JE, Thompson BM, Uitti RJ, Calne DB, Pfeiffer RF.

Neurology. 1995 Mar;45(3 Pt 1):502-5.

PubMed [citation]
PMID:
7898705

Parkinson's disease-associated mutations in leucine-rich repeat kinase 2 augment kinase activity.

West AB, Moore DJ, Biskup S, Bugayenko A, Smith WW, Ross CA, Dawson VL, Dawson TM.

Proc Natl Acad Sci U S A. 2005 Nov 15;102(46):16842-7. Epub 2005 Nov 3.

PubMed [citation]
PMID:
16269541
PMCID:
PMC1283829
See all PubMed Citations (15)

Details of each submission

From OMIM, SCV000022173.3

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedliterature only PubMed (4)

Description

In affected members of a family with autosomal dominant Parkinson disease (PARK8; 607060) originally reported by Wszolek et al. (1995), Zimprich et al. (2004) identified a heterozygous 4321C-T transition in the LRRK2 gene, resulting in an arg1441-to-cys (R1441C) substitution in the ROC (GTPase) domain. Affected members of another unrelated family also had the R1441C mutation. The mutation was not identified in more than 1,000 control individuals or 300 patients with sporadic PD.

West et al. (2005) determined that the R1441C mutation, which lies within the GTPase domain of LRRK2, did not alter the steady-state level, turnover, or intracellular localization of the LRRK2 protein, but that R1441C appeared to enhance protein kinase activity.

Tong et al. (2009) found that mutant knockin mice with expression of normal levels of the R1441C mutant protein appeared grossly normal and did not show any evidence of dopaminergic degeneration up to 2 years of age. However, knockin mice showed impaired augmentation of locomotor activity in response to amphetamine compared to wildtype, suggesting a defect in drug-induced dopamine release. Adrenal chromaffin cells derived from mutant mice showed a significant reduction in stimulus-induced catecholamine release compared to controls. Mutant mice also showed impaired dopamine D2 receptor (DRD2; 126450)-mediated functions, such as reduced response to the locomotor inhibitory effect of a DRD2 agonist and decreased cellular sensitivity to suppression by DRD2 agonists. Tong et al. (2009) suggested that these changes may represent pathogenic precursors to dopaminergic degeneration.

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

From GeneReviews, SCV000056116.2

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedliterature only PubMed (2)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1unknownnot providednot providednot providedAssert pathogenicitynot providednot providednot providednot provided

From Bioscientia Institut fuer Medizinische Diagnostik GmbH, Sonic Healthcare, SCV000599864.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testingnot provided
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineyesnot providednot providednot providednot providednot providednot providednot provided

From Labcorp Genetics (formerly Invitae), Labcorp, SCV000640130.8

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (9)

Description

This sequence change replaces arginine, which is basic and polar, with cysteine, which is neutral and slightly polar, at codon 1441 of the LRRK2 protein (p.Arg1441Cys). This variant is present in population databases (rs33939927, gnomAD 0.01%). This missense change has been observed in individuals with Parkinson's disease (PMID: 15541309, 21538529, 24565865). It has also been observed to segregate with disease in related individuals. ClinVar contains an entry for this variant (Variation ID: 1938). 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) has been performed at Invitae for this missense variant, however the output from this modeling did not meet the statistical confidence thresholds required to predict the impact of this variant on LRRK2 protein function. Experimental studies have shown that this missense change affects LRRK2 function (PMID: 16750377, 17200152, 21494637, 21658387, 23241745). For these reasons, this variant has been classified as Pathogenic.

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

From Fulgent Genetics, Fulgent Genetics, SCV001652802.2

#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 Women's Health and Genetics/Laboratory Corporation of America, LabCorp, SCV004121779.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (3)

Description

Variant summary: LRRK2 c.4321C>T (p.Arg1441Cys) results in a non-conservative amino acid change located in the Small GTP-binding protein domain (IPR005225) of the encoded protein sequence. Four of five in-silico tools predict a damaging effect of the variant on protein function. The variant allele was found at a frequency of 1.2e-05 in 251116 control chromosomes. c.4321C>T has been reported in the literature in multiple individuals affected with Autosomal Dominant Parkinson Disease (example, Zimprich_2004, DiFonzo_2006). It has also been observed to segregate with disease in related individuals (Zimprich_2004). These data indicate that the variant is very likely to be associated with disease. At least one publication reports experimental evidence evaluating an impact on protein function. Decreased LRRK2 autophosphorylation, increased formation of inclusion bodies, cell death of neurons and neuronal cell lines after expression of this variant have been reported (Greggio_2006). The following publications have been ascertained in the context of this evaluation (PMID: 16633828, 16750377, 15541309). Five submitters have cited clinical-significance assessments for this variant to ClinVar after 2014. All submitters classified the variant as pathogenic. Based on the evidence outlined above, the variant was classified as pathogenic.

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

Last Updated: Nov 24, 2024