From: A Hybrid Genetic-Neural System for Predicting Protein Secondary Structure
Feature | Conjecture |
---|---|
1 Check whether hydrophobic aminoacids occur in the current window (r = 15) according to a clear periodicity (i.e., one every 3–4 residues) | Alpha helices may sometimes fulfill this pattern |
2 Check whether the current window (r = 13) contains numerous residues in {A,E,L,M} and few residues in {P,G,Y,S} | Alpha helices are often evidenced by {A,E,L,M} residues, whereas {P,G,Y,S} residues account for their absence |
3 Check whether the left side of the current window (r = 13) is mostly hydrophobic and the right part is mostly hydrophilic (and viceversa) | Transmembrane alpha helices may fulfil this feature |
4 Check whether, on the average, the current window (r = 11) is positively charged or not | A positive charge might account for alpha helices or beta sheets |
5 Check whether, on the average, the current window (r = 11) is negatively charged or not | A negative charge might account for alpha helices or beta sheets |
6 Check whether, on the average, the current window (r = 11) is neutral | A neutral charge might account for coils |
7 Check whether the current window (r = 11) mostly contains \small" residues | Small residues might account for alpha helices or beta sheets |
8 Check whether the current window (r = 11) mostly contains polar residues | Polar residues might account for alpha helices or beta sheets |