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Table 2 Summary of structure derived encodings

From: Encodings and models for antimicrobial peptide classification for multi-resistant pathogens

Encoding Description Summary Used in Used along with
Quantitative structure-activity relationship (QSAR) describes amino acids sequences by their chemical properties, molecular characteristics and structure Density: o
Information: +
[78,79,80,81,82,83,84,85] z-Descriptors
General Structure protein structure is described by means of their total 3D shape, secondary structure, solvent accessibility, aggregation tendency, contact number, residue depth Density: +
Information: +
[86,87,88, 97]  
Electrostatic Hull wraps superimposed shapes of the proteins sub-structure Density: o
Information: +
[17, 89, 90] Physicochemical Properties
Spheres incorporates structural variations as consequence of sequential rearrangements Density: o
Information: +
[91] Physicochemical Properties
Distance Distribution distribution of euclidean distances between each atom type Density: o:
Information: +
[92]  
Delaunay Triangulation encodes the complete protein shape by finding the optimal edges between representative atoms Density: o
Information: +
[93, 94]  
  1. + (good), o (neutral/no declaration), − (bad) (see Table 1 for further details)