BLASTP

[…] 2009). the dissimilarity in terms of protein diversity was analyzed and visualized in a distance tree. therefore, to identify homologous proteins shared between the genomes, an all-against-all blastp was performed, after which orthagogue v1.0.3 (ekseth et al. 2014) and mcl 14-137 (van dongen 2000) were used to identify orthologous groups of proteins (ogps), where the ogps included proteins […]

[…] and gene ontology databases. specifically, gene function annotations were based on the protein in the uniprot/swissprot database that had highest homology with the olympia oyster sequence (i.e., top blastp hit). gene targets were selected based on annotations related to gene regulation, immune response, and growth (table 1). corresponding contigs were then selected from the transcriptome using […]

[…] transporters and also set the stage for studies of an unusual mutant that may help elucidate mechanisms of cryptococcal pathogenesis and host response., uxt1 and uxt2 were identified by blastp searches of known nsts against c. neoformans predicted proteins (broad institute; cryptococcus neoformans var. grubii h99 database); the closest related sequence was that of the aspergillus […]

[…] was on the order of 1,000×, and one contig was obtained. potential open reading frames (orfs) were identified with genemarks version 4.17 (6), and the functions of the orfs were predicted using blastp searches against the nonredundant ncbi database. trnascan-se version 1.3.1 (7) was employed to predict trnas., the ys35 genome comprises 93,296 bp of linear double-stranded dna with a g+c […]

[…] proteins to the extracellular cytochromes of d. ferrophilus is5, the protein sequences encoded by dfe_450 and dfe_464 of strain is5 were used as queries for the ncbi nonredundant database using the blastp algorithm. proteins with maximum blast scores of higher than 200 were deemed to be highly identical. amino acid sequences of the identical proteins were collected from the ncbi protein […]