ClinVar Miner

Submissions for variant NM_000053.4(ATP7B):c.3155C>T (p.Pro1052Leu)

dbSNP: rs778543794
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Total submissions: 4
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Counsyl RCV000671512 SCV000796496 uncertain significance Wilson disease 2017-12-28 criteria provided, single submitter clinical testing
Invitae RCV000671512 SCV000947086 pathogenic Wilson disease 2023-07-26 criteria provided, single submitter clinical testing 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 ATP7B protein function. ClinVar contains an entry for this variant (Variation ID: 555650). This missense change has been observed in individual(s) with Wilson disease (PMID: 10502777, 25089800, 27022412, 29321352, 31059521; Invitae). In at least one individual the data is consistent with being in trans (on the opposite chromosome) from a pathogenic variant. It has also been observed to segregate with disease in related individuals. This variant is present in population databases (rs778543794, gnomAD 0.006%). This sequence change replaces proline, which is neutral and non-polar, with leucine, which is neutral and non-polar, at codon 1052 of the ATP7B protein (p.Pro1052Leu). For these reasons, this variant has been classified as Pathogenic. Experimental studies have shown that this missense change affects ATP7B function (PMID: 22240481).
Genome-Nilou Lab RCV000671512 SCV001977139 likely pathogenic Wilson disease 2021-08-10 criteria provided, single submitter clinical testing
Baylor Genetics RCV000671512 SCV004216445 likely pathogenic Wilson disease 2023-03-28 criteria provided, single submitter clinical testing

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