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Table 1 Features of the ProClaT pattern recognition model

From: ProClaT, a new bioinformatics tool for in silico protein reclassification: case study of DraB, a protein coded from the draTGB operon in Azospirillum brasilense

Feature category

Number of features

Function (Matlab or Python)

AA compositiona

 AA compositiona

20

aacount (sequence)

 AA functional propertya

5

codon2aa (sequence)

 Protein length

1

length (sequence)

Scores alignment with consensus region

 Self align with consensus region

1

selfalign (sequence,CSeq)

 Global alignment score with consensus region

2

getIdentity (sequence,CSeq,‘G’)

 Local alignment score with consensus region

2

getIdentity (sequence,CSeq,‘L’)

Protein physico-chemical properties

 pI

1

isoelectric (sequence) (first returned value)

 Charge

1

isoelectric (sequence) (second returned value)

 Nominal mass

1

isotopicdist (sequence)

 Aromaticity

1

ProtParam.ProteinAnalysis (seq).aromaticity() (python)

 Instability

1

ProtParam.ProteinAnalysis (seq).instability_index() (python)

 Hydropathy

1

ProtParam.ProteinAnalysis (seq).gravy() (python)

 Entropy

1

function developed in python

 Energy

1

function developed in python

  1. a AA amino acid