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NM_007194.4(CHEK2):c.470T>C (p.Ile157Thr) AND Li-Fraumeni syndrome 2

Germline classification:
Pathogenic (1 submission)
Last evaluated:
Nov 1, 2006
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:
RCV000005936.2

Allele description

NM_007194.4(CHEK2):c.470T>C (p.Ile157Thr)

Gene:
CHEK2:checkpoint kinase 2 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
22q12.1
Genomic location:
Preferred name:
NM_007194.4(CHEK2):c.470T>C (p.Ile157Thr)
Other names:
p.I157T:ATT>ACT
HGVS:
  • NC_000022.11:g.28725099A>G
  • NG_008150.1:g.21736T>C
  • NG_008150.2:g.21768T>C
  • NM_001005735.2:c.599T>C
  • NM_001257387.2:c.-308T>C
  • NM_001349956.2:c.444+144T>C
  • NM_007194.4:c.470T>CMANE SELECT
  • NM_145862.2:c.470T>C
  • NP_001005735.1:p.Ile200Thr
  • NP_009125.1:p.Ile157Thr
  • NP_665861.1:p.Ile157Thr
  • LRG_302t1:c.470T>C
  • LRG_302:g.21768T>C
  • LRG_302p1:p.Ile157Thr
  • NC_000022.10:g.29121087A>G
  • NM_001005735.1:c.599T>C
  • NM_001257387.1:c.-308T>C
  • NM_007194.3:c.470T>C
  • O96017:p.Ile157Thr
  • p.I157T
  • p.[Ile157Thr]
Protein change:
I157T; ILE157THR
Links:
UniProtKB: O96017#VAR_008555; OMIM: 604373.0002; dbSNP: rs17879961
NCBI 1000 Genomes Browser:
rs17879961
Molecular consequence:
  • NM_001257387.2:c.-308T>C - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001349956.2:c.444+144T>C - intron variant - [Sequence Ontology: SO:0001627]
  • NM_001005735.2:c.599T>C - missense variant - [Sequence Ontology: SO:0001583]
  • NM_007194.4:c.470T>C - missense variant - [Sequence Ontology: SO:0001583]
  • NM_145862.2:c.470T>C - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
Li-Fraumeni syndrome 2 (LFS2)
Identifiers:
MONDO: MONDO:0012233; MedGen: C1836482; Orphanet: 524; OMIM: 609265

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000026118OMIM
no assertion criteria provided
Pathogenic
(Nov 1, 2006)
germlineliterature only

PubMed (6)
[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

Heterozygous germ line hCHK2 mutations in Li-Fraumeni syndrome.

Bell DW, Varley JM, Szydlo TE, Kang DH, Wahrer DC, Shannon KE, Lubratovich M, Verselis SJ, Isselbacher KJ, Fraumeni JF, Birch JM, Li FP, Garber JE, Haber DA.

Science. 1999 Dec 24;286(5449):2528-31.

PubMed [citation]
PMID:
10617473

Mutations in CHEK2 associated with prostate cancer risk.

Dong X, Wang L, Taniguchi K, Wang X, Cunningham JM, McDonnell SK, Qian C, Marks AF, Slager SL, Peterson BJ, Smith DI, Cheville JC, Blute ML, Jacobsen SJ, Schaid DJ, Tindall DJ, Thibodeau SN, Liu W.

Am J Hum Genet. 2003 Feb;72(2):270-80. Epub 2003 Jan 17.

PubMed [citation]
PMID:
12533788
PMCID:
PMC379222
See all PubMed Citations (6)

Details of each submission

From OMIM, SCV000026118.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedliterature only PubMed (6)

Description

In an individual with Li-Fraumeni syndrome-variant (see LFS2; 609265), Bell et al. (1999) identified a T-to-C transition at nucleotide 470 of the CHK2 gene resulting in an isoleucine-to-threonine substitution at codon 157 (I157T). This nonconservative substitution was within the forkhead homology-association domain of CHK2. The proband (who was a cigarette smoker) had developed 3 primary tumors: breast cancer, melanoma, and lung cancer.

In a study of prostate cancer (176807), Dong et al. (2003) found that the most common mutation of CHK2 was I157T, which was present in 7 of 298 men with familial prostate cancer, 6 men with sporadic prostate cancer, and 5 of 423 unaffected men. Their study indicated that this mutation is relatively common in normal healthy control individuals.

The I157T variant is present in the population of Finland at a frequency of 5.3% (Kilpivaara et al., 2004) and in the population of Poland at a frequency of 4.8% (Cybulski et al., 2004). It is present in comparable frequencies in German and Belorussian populations in which a relationship to cancer has been studied. Kilpivaara et al. (2006) screened the CHEK2 I157T variant in a population-based series of 1,042 Finnish colorectal cancer (114500) patients using restriction fragment length polymorphism. The frequency of I157T was significantly higher in CRC patients (76/972, 7.8%) than in healthy population controls (5.3%), giving an odds ratio (OR) of 1.5. The significant association of I157T with CRC was observed among patients with and without a family history of CRC. A trend toward higher variant frequency was also noted among patients with multiple primary tumors and a family history of any cancer. These observations supported a role for I157T as a susceptibility allele for multiple cancer types.

Cybulski et al. (2006) identified the I157T substitution in 142 (7.6%) of 1,864 Polish men with prostate cancer (176807), in 30 (12%) of 249 Polish men with familial prostate cancer, and in 264 (4.8%) of 5,496 healthy controls. Data analysis yielded an odds ratio of 2.7 for familial prostate cancer in carriers of the mutation. The authors determined that it is a founder mutation.

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

Last Updated: Feb 27, 2021