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NM_002872.5(RAC2):c.184G>A (p.Glu62Lys) AND Immunodeficiency 73b with defective neutrophil chemotaxis and lymphopenia

Germline classification:
Pathogenic (1 submission)
Last evaluated:
Aug 24, 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:
RCV001254813.2

Allele description [Variation Report for NM_002872.5(RAC2):c.184G>A (p.Glu62Lys)]

NM_002872.5(RAC2):c.184G>A (p.Glu62Lys)

Gene:
RAC2:Rac family small GTPase 2 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
22q13.1
Genomic location:
Preferred name:
NM_002872.5(RAC2):c.184G>A (p.Glu62Lys)
HGVS:
  • NC_000022.11:g.37232842C>T
  • NG_007288.1:g.16424G>A
  • NM_002872.5:c.184G>AMANE SELECT
  • NP_002863.1:p.Glu62Lys
  • LRG_97t1:c.184G>A
  • LRG_97:g.16424G>A
  • NC_000022.10:g.37628882C>T
  • NM_002872.3:c.184G>A
  • NM_002872.4:c.184G>A
Protein change:
E62K; GLU62LYS
Links:
OMIM: 602049.0002; dbSNP: rs1555908409
NCBI 1000 Genomes Browser:
rs1555908409
Molecular consequence:
  • NM_002872.5:c.184G>A - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
Immunodeficiency 73b with defective neutrophil chemotaxis and lymphopenia
Identifiers:
MONDO: MONDO:0033554; MedGen: C5436549; OMIM: 618986

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV001430922OMIM
no assertion criteria provided
Pathogenic
(Aug 24, 2020)
germlineliterature only

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

Smits, B. M., Lelieveld, P. H. C., Ververs, F. A., Turkenburg, M., de Koning, C., van Dijk, M., Leavis, H. L., Boelens, J. J., Lindemans, C. A., Bloem, A. C., van de Corput, L., van Montfrans, J., Nierkens, S., van Gijn, M. E., Geerke, D. P., Waterham, H. R., Koenderman, L., Boes, M. A dominant activating RAC2 variant associated with immunodeficiency and pulmonary disease. (Letter) Clin. Immun. 212: 108248, 2020. Note: Electronic Article.

Summary from all submissions

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

Citations

PubMed

Dominant activating RAC2 mutation with lymphopenia, immunodeficiency, and cytoskeletal defects.

Hsu AP, Donkó A, Arrington ME, Swamydas M, Fink D, Das A, Escobedo O, Bonagura V, Szabolcs P, Steinberg HN, Bergerson J, Skoskiewicz A, Makhija M, Davis J, Foruraghi L, Palmer C, Fuleihan RL, Church JA, Bhandoola A, Lionakis MS, Campbell S, Leto TL, et al.

Blood. 2019 May 2;133(18):1977-1988. doi: 10.1182/blood-2018-11-886028. Epub 2019 Feb 5.

PubMed [citation]
PMID:
30723080
PMCID:
PMC6497516

Details of each submission

From OMIM, SCV001430922.1

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

Description

In 3 unrelated patients with immunodeficiency-73B with defective neutrophil chemotaxis and lymphopenia (IMD73B; 618986), Hsu et al. (2019) identified a de novo heterozygous c.184G-A transition in exon 3 of the RAC2 gene, resulting in a glu62-to-lys (E62K) substitution in the highly conserved Switch II domain. The mutation, which was found by exome sequencing or targeted sequencing of a gene panel, was confirmed by Sanger sequencing in all cases. Patient neutrophils and cells transfected with the mutation had increased production of reactive oxygen species (ROS), both at a basal rate and in response to fMLF. Additional abnormalities included impaired fMLF-induced chemotaxis, increased ruffling, abnormal actin cycling, and large vesicle formation in neutrophils. Further studies suggested that E62K favors the active GTP-bound state and causes impaired GTP hydrolysis compared to wildtype, resulting in prolonged activation of downstream effectors. The mutation resulted in a dominant gain-of-function effect.

In 3 members of a 3-generation family with IMD73B, Smits et al. (2020) identified a heterozygous E62K mutation in the RAC2 gene. In vitro studies of patient neutrophils showed defective migration and reduced bacterial killing. However, there was an increase of GTP-bound RAC2 after fMLF stimulation compared to controls, consistent with a gain-of-function activating effect. T-cell subsets showed increased effector T cells and decreased recent thymic emigrant cells, suggesting disturbances in RAC2 signal-mediated chemotactic function of T cells. The authors suggested that increased GTP-bound RAC2 may impede physiologic actin polymerization.

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

Last Updated: Oct 8, 2024