pepdata: Physicochemical properties and indices from 100 amino acid...

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

Physicochemical properties and indices from 100 amino acid sequences

Description

Physicochemical properties and indices from 100 amino acid sequences (50 antimicrobial and 50 non antimicrobial)

Usage

data(pepdata)

Format

A data frame with 100 observations on the following 23 variables.

sequence

a character vector with the sequences of 100 peptides (50 antimicrobial and 50 non-antimicrobial)

group

Integrer vector with the group code "0" for non antimicrobial and "1" for antimicrobial

length

a numeric vector with the length of the amino acid sequence

mw

a numeric vector with the molecular weight of the amino acid sequence

tinyAA

A numeric vector with the fraction (as percent) of tiny amino acids that make up the sequence

smallAA

A numeric vector with the fraction (as percent) of small amino acids that make up the sequence

aliphaticAA

A numeric vector with the fraction (as percent) of aliphatic amino acids that make up the sequence

aromaticAA

A numeric vector with the fraction (as percent) of aromatic amino acids that make up the sequence

nonpolarAA

A numeric vector with the fraction (as percent) of non-polar amino acids that make up the sequence

polarAA

A numeric vector with the fraction (as percent) of polar amino acids that make up the sequence

chargedAA

A numeric vector with the fraction (as percent) of charged amino acids that make up the sequence

basicAA

A numeric vector with the fraction (as percent) of basic amino acids that make up the sequence

acidicAA

A numeric vector with the fraction (as percent) of acid amino acids that make up the sequence

charge

a numeric vector with the charge of the amino acid sequence

pI

a numeric vector with the isoelectric point of the amino acid sequence

aindex

a numeric vector with the aliphatic index of the amino acid sequence

instaindex

a numeric vector with the instability index of the amino acid sequence

boman

a numeric vector with the potential peptide-interaction index of the amino acid sequence

hydrophobicity

a numeric vector with the hydrophobicity index of the amino acid sequence

hmoment

a numeric vector with the hydrophobic moment of the amino acid sequence

transmembrane

A numeric vector with the fraction of Transmembrane windows of 11 amino acids that make up the sequence

surface

A numeric vector with the fraction of Surface windows of 11 amino acids that make up the sequence

globular

A numeric vector with the fraction of Globular windows of 11 amino acids that make up the sequence

dosorio/Peptides documentation built on Jan. 4, 2024, 2:28 p.m.