extractProtCTDC: CTD Descriptors - Composition

In Rcpi: Molecular Informatics Toolkit for Compound-Protein Interaction in Drug Discovery

Description

CTD Descriptors - Composition

Usage

extractProtCTDC(x)

Arguments

x	A character vector, as the input protein sequence.

Details

This function calculates the Composition descriptor of the CTD descriptors (Dim: 21).

Value

A length 21 named vector

Author(s)

Nan Xiao <https://nanx.me>

References

Inna Dubchak, Ilya Muchink, Stephen R. Holbrook and Sung-Hou Kim. Prediction of protein folding class using global description of amino acid sequence. Proceedings of the National Academy of Sciences. USA, 1995, 92, 8700-8704.

Inna Dubchak, Ilya Muchink, Christopher Mayor, Igor Dralyuk and Sung-Hou Kim. Recognition of a Protein Fold in the Context of the SCOP classification. Proteins: Structure, Function and Genetics, 1999, 35, 401-407.

See Also

See extractProtCTDT and extractProtCTDD for the Transition and Distribution descriptors.

Examples

x = readFASTA(system.file('protseq/P00750.fasta', package = 'Rcpi'))[[1]]
extractProtCTDC(x)

Example output

 hydrophobicity.Group1  hydrophobicity.Group2  hydrophobicity.Group3 
            0.29715302             0.40569395             0.29715302 
normwaalsvolume.Group1 normwaalsvolume.Group2 normwaalsvolume.Group3 
            0.45195730             0.29715302             0.25088968 
       polarity.Group1        polarity.Group2        polarity.Group3 
            0.33985765             0.33274021             0.32740214 
 polarizability.Group1  polarizability.Group2  polarizability.Group3 
            0.33096085             0.41814947             0.25088968 
         charge.Group1          charge.Group2          charge.Group3 
            0.11032028             0.79003559             0.09964413 
secondarystruct.Group1 secondarystruct.Group2 secondarystruct.Group3 
            0.38967972             0.29537367             0.31494662 
  solventaccess.Group1   solventaccess.Group2   solventaccess.Group3 
            0.43060498             0.29715302             0.27224199 

Rcpi documentation built on Nov. 8, 2020, 8:23 p.m.