Workflow Entry: Protein Mutation Analysis Using the BioExtract Server

This workflow, created using the BioExtract Server, contains a protein query (using the NCBI Protein Database), Blastp, ClustalW, Transeq, Garnier, PepWindowWall, PepInfo, and Octanol. For this workflow, a mutated protein sequence needs to be selected. Once the corresponding non-mutated sequence has been queried, the Blastp tool can be used to find sequences similar to the one queried, and the ClustalW tool can be used to analyze whether the mutation is conserved within species.  The Transeq tool can be used to translate both the mutated and unmutated amino acid sequences (found with the protein query) to nucleotide sequences. These sequences will then be used in the structural analysis tools. The Garnier, PepWindowWall, PepInfo, and Octanol tools can all be used for structural analysis of the sequences. In our study, we analyzed the mutated protein sequence, along with the normal protein sequence and a rabbit template sequence, with these last tools. Although we chose a rabbit template, other sequences can be used for templates. These templates can be found using the FUGUE tool. This workflow was inspired by the journal article “A novel 9-bp insertion detected in steroid 21-hydroxylase gene (CYP21A2): prediction of its structural and functional implications by computational methods” by Dubey, Idicula-Thomas, Anwaruddin, Saravanan, Varma, and Maitra.