Providing 'Generate graphics' is enabled, server output consists of two parts; one is a listing of
all residues with the indiviual scores noted (see column heading), the other is a
graphical plot of the values given in the first table. If 'Generate graphics' is
deselected the plot will be omitted.
As described in the paper, the prediction server calculates the NES score from the HMM
and Artificial Neural Network (ANN) scores but all three values are given for each residue. This allows
for manual inspection of possible mispredictions. A wrong prediction is sometimes
obtained because either the HMM or the ANN fails to recognize the NES motif completely.
In that case an experienced user might be able to spot that from the individual scores.
Even though the ANN is trained to specifically recognize the last (most C-terminal)
hydrophobic position of the NES motif, it is often seen that the other hydrophobic
positions give rise to peaks in the ANN score. Again, the experienced user might benefit
from the additional information in the ANN score and be able to rescue a misprediction.
In summary, if the calculated score 'NES score' exceeds the threshold, then that
particular residue is expected to participate in a nuclear export signal. This is denoted
with a 'Yes' in the column 'Predicted'.
Note that non-standard amino acid abbreviations (BJOUXZ) are replaced with alanines.
For further information, please refer to the publication or contact us.