ClinVar Miner

Submissions for variant NM_000053.4(ATP7B):c.3011A>C (p.Gln1004Pro)

dbSNP: rs587783307
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Total submissions: 3
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Genetic Services Laboratory, University of Chicago RCV000145267 SCV000192337 pathogenic Wilson disease 2013-02-08 criteria provided, single submitter clinical testing
Genome-Nilou Lab RCV000145267 SCV001977285 likely pathogenic Wilson disease 2021-08-10 criteria provided, single submitter clinical testing
Invitae RCV000145267 SCV004296485 uncertain significance Wilson disease 2023-08-10 criteria provided, single submitter clinical testing In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance. This sequence change replaces glutamine, which is neutral and polar, with proline, which is neutral and non-polar, at codon 1004 of the ATP7B protein (p.Gln1004Pro). This variant is not present in population databases (gnomAD no frequency). This missense change has been observed in individual(s) with clinical features of Wilson disease and/or Wilson disease (PMID: 18373411; Invitae). In at least one individual the data is consistent with being in trans (on the opposite chromosome) from a pathogenic variant. ClinVar contains an entry for this variant (Variation ID: 157943). 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.

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