Proteins from Model Organisms
Retrieve the amino acid compositions of one or more proteins from Escherichia coli or Saccharomyces cerevisiae.
character, name of protein
character, name of organism (Eco or Sce)
more.aa retrieves the amino acid composition(s) of the indicated proteins in either Escherichia coli or Saccharomyces cerevisiae.
The value of
organism can be one of Eco or Sce.
The calculation depends on the data files
extdata/protein/Sce.csv.xz, which contain the amino acid compositions of the proteins.
protein argument should be a vector or a list of vectors of one or more Ordered Locus Names (OLN) or Open Reading Frame (ORF) names that are found in these files.
The output data frame contains rows with NA compositions for names that are not matched.
A data frame, or list of data frames, containing the amino acid composition(s) of the specified protein(s) in the format of
extdata describes the sources of compositional data for the proteins. Other examples of usage of
more.aa are shown for
1 2 3 4 5 6 7 8 9
# the first 13 names in UniProt for "aminotransferase ecoli" at.ecoli <- c("BIOA", "ARNB", "SERC", "AAT", "TYRB", "ARGD", "ILVE", "ALAA", "ALAC", "YBDL", "AVTA", "GLMS", "PUUE") # get the amino acid compositions # note that ALAA and ALAC are not matched at.aa <- more.aa(at.ecoli, "Eco") # what are their formulas and oxidation states protein.formula(at.aa) ZC(protein.formula(at.aa))
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