Kidera

A data frame of 10 Kidera factors for 20 amino acids.

datasets

Given a protein multiple sequence alignment, it is daunting task to assess the effects of substitutions along sequence length. 'aaSEA' package is intended to help researchers to rapidly analyse property changes caused by single, multiple and correlated amino acid substitutions in proteins. Methods for identification of co-evolving positions from multiple sequence alignment are as described in : Pel<c3><a9> et al., (2017) <doi:10.4172/2379-1764.1000250>.

Raja Reddy D.M

aaSEA

Amino Acid Substitution Effect Analyser

Kidera function

A data frame with 20 rows and ten columns representing 20 amino acids and 10 kidera factors:<dl class="dl-horizontal">
 <dt></dt><dd>Names of amino acids</dd>
 <dt>KF1</dt><dd>Helix/bend preference</dd>
 <dt>KF2</dt><dd>Side-chain size</dd>
 <dt>KF3</dt><dd>Extended structure preference</dd>
 <dt>KF4</dt><dd>Hydrophobicity</dd>
 <dt>KF5</dt><dd>Double-bend preference</dd>
 <dt>KF6</dt><dd>Partial specific volume</dd>
 <dt>KF7</dt><dd>Flat extended preference</dd>
 <dt>KF8</dt><dd>Occurrence in alpha region</dd>
 <dt>KF9</dt><dd>pK-C</dd>
 <dt>KF10</dt><dd>Surrounding hydrophobicity</dd>
 ...
</dl>

Format

A data frame of 10 Kidera factors for 20 amino acids — Kidera

A data frame with 20 rows and ten columns representing 20 amino acids and 10 kidera factors:<dl class='dl-horizontal'>
 <dt></dt><dd>Names of amino acids</dd>
 <dt>KF1</dt><dd>Helix/bend preference</dd>
 <dt>KF2</dt><dd>Side-chain size</dd>
 <dt>KF3</dt><dd>Extended structure preference</dd>
 <dt>KF4</dt><dd>Hydrophobicity</dd>
 <dt>KF5</dt><dd>Double-bend preference</dd>
 <dt>KF6</dt><dd>Partial specific volume</dd>
 <dt>KF7</dt><dd>Flat extended preference</dd>
 <dt>KF8</dt><dd>Occurrence in alpha region</dd>
 <dt>KF9</dt><dd>pK-C</dd>
 <dt>KF10</dt><dd>Surrounding hydrophobicity</dd>
 ...
</dl>

Kidera: A data frame of 10 Kidera factors for 20 amino acids

Description

Usage

Arguments

Format