The input data for BCEPS is a protein sequence in
FASTA
format, which can be pasted or uploaded to the server. Input sequences must be in UPPER LETTER and in one-letter amino acid code.
Here the user can select the parameters that the alignment must meet to consider a sequence fragment (target sequence) as a B-cell epitope.
Given the default parameters, here we present an example of an alignment that would result in the prediction of a linear B-cell epitope. Likewise, we show some alignments that would be descated and not considerated as positive hits:
If the option "Only neutralizing" is selected, BepiBlast, will only return B cell epitopes resulting
from hits to neutralizing epitopes. If the option "Map in sequence" is selected, BepiBlast colors the sequence residues into an RGB scale, which enable mapping B cell epitopes in the query
seqeunce.
