Computational protocol: Complementation of Essential Yeast GPI Mannosyltransferase Mutations Suggests a Novel Specificity for Certain Trypanosoma and Plasmodium PigB Proteins

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Protocol publication

[…] The algorithms BLASTP and TBLASTN , were used with default settings to identify putative Smp3p and Gpi10p sequences in various eukaryotic genomes present in GenBank. Searches were performed using the BLAST server at the National Center for Biotechnology Information website (www.ncbi.nlm.nih.gov) with Smp3 and Gpi10 protein sequences from S. cerevisiae and mammals as search queries. In certain cases, SMP3 or GPI10 genes were deemed to be absent from a genome if no hits with an e-value less than 1×10−2 were observed using both BLASTP and TBLASTN and the genomic data searched represented at least 7X genome sequence coverage. All identified genes are listed in . […]

Pipeline specifications

Software tools BLASTP, TBLASTN
Application Amino acid sequence alignment
Organisms Saccharomyces cerevisiae, Plasmodium falciparum, Trypanosoma cruzi, Homo sapiens, Trypanosoma brucei
Chemicals Carbohydrates, Mannose, Glycosylphosphatidylinositols