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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