vhseScales: Compute the VHSE-scales of a protein sequence

In Peptides: Calculate Indices and Theoretical Physicochemical Properties of Protein Sequences

Compute the VHSE-scales of a protein sequence

Description

VHSE-scales (principal components score Vectors of Hydrophobic, Steric, and Electronic properties), is derived from principal components analysis (PCA) on independent families of 18 hydrophobic properties, 17 steric properties, and 15 electronic properties, respectively, which are included in total 50 physicochemical variables of 20 coded amino acids.

Usage

vhseScales(seq)

Arguments

seq	An amino-acids sequence

Value

The computed average of VHSE-scales of all the amino acids in the corresponding peptide sequence. Each VSHE-scale represent an amino-acid property as follows:

• VHSE1 and VHSE2: Hydrophobic properties

• VHSE3 and VHSE4: Steric properties

• VHSE5 to VHSE8: Electronic properties

References

Mei, H. U., Liao, Z. H., Zhou, Y., & Li, S. Z. (2005). A new set of amino acid descriptors and its application in peptide QSARs. Peptide Science, 80(6), 775-786.

Examples

vhseScales(seq = "QWGRRCCGWGPGRRYCVRWC")
# [[1]]
#  VHSE1   VHSE2   VHSE3   VHSE4   VHSE5   VHSE6   VHSE7   VHSE8 
#-0.1150  0.0630 -0.0055  0.7955  0.4355  0.2485  0.1740 -0.0960

Peptides documentation built on May 31, 2023, 9:47 p.m.