Peptides (version 0.4)

AAcomp: To compute the Amino-acid composition of a protein sequence

Description

Calculate the percentage of Amino acid in a sequence and categorized as: Tiny, Small, Aliphatic, Aromatic, Non Polar, Polar, Charged, Basic and Acid.

Usage

AAcomp(seq)

Arguments

seq

AA sequence string in upper case

Value

• The output is an array with the number and percentage of amino acids of a particular class
• Tiny
  (A+C+G+S+T)
• Small
  (A+B+C+D+G+N+P+S+T+V)
• Aliphatic
  (A+I+L+V)
• Aromatic
  (F+H+W+Y)
• Non-polar
  (A+C+F+G+I+L+M+P+V+W+Y)
• Polar
  (D+E+H+K+N+Q+R+S+T+Z)
• Charged
  (B+D+E+H+K+R+Z)
• Basic
  (H+K+R)
• Acidic
  (B+D+E+Z)

References

Roger G. Harrison "Expression of soluble heterologous proteins via fusion with NusA protein" in inNovations 11, June 2000, p 4 - 7.

Examples

## AA composition of PDB: 1D9J Cecropin Peptide

AAcomp("KWKLFKKIGIGKFLHSAKKFX")

## Output
#          Number Mole\%
# Tiny           4 19.05
# Small          4 19.05
# Aliphatic      5 23.81
# Aromatic       5 23.81
# Non Polar     11 52.38
# Polar          9 42.86
# Charged        8 38.10
# Basic          8 38.10
# Acid           0  0.00