functional investigation of the novel brca1variant(glu1661gly) by computational tools and yeast transcription activation assay

Introduction: mutations in the brca1 gene are major risk factors for breast and ovarian cancers. however, the relationship between some brca1 mutations and cancer risk remains largely unknown. cancer risk predictions could be improved by evaluation of the impairment degree in the brca1 functions due to a specific mutation. this study aimed to assess the functional effect of a novel variant (glu1661gly) in brca1 gene by a combination of in silico tools, structural analysis, and also experimental functional assay based on yeast transcription activation. methods: computational tools including provean, polyphen2, align-gvgd, mutation taster, and also structural analysis were used for prediction of the impact of glu1661gly on protein function. to perform the yeast functional assay, the brca1 c-terminal (brct domain) was cloned into plexa plasmid in-frame with the dna-binding domain of lexa to generate a functional transcription activator. the resulted construct was transformed into egy48/ prb1840 yeast and positive colonies were assayed for β-galactosidase activity. wild-type brca1 and ser1613gly were used as positive controls and met1775arg as negative control. results: the glu1661gly variant was predicted to be neutral by provean, diseasecausing by mutation taster, probably damaging by polyphen2, and intermediate effect by align-gvgd. the yeast functional assay revealed that glu1661gly activity was comparable to wild-type brca1. conclusions: observed discrepancies between in silico tools make it difficult to interpret the results. based on structural analysis, the glu1661gly on α1 helix of the c-terminal domain does not seem to impair function due to α1 helix is far from the brct-brct interface and phosphopeptide-binding site. this variant was also classified as neutral; using yeast functional assay.