FIGURE 1. A schematic of the in silico peptide design strategy.
From the following article:
A linguistic model for the rational design of antimicrobial peptides
Christopher Loose, Kyle Jensen, Isidore Rigoutsos & Gregory Stephanopoulos
Nature 443, 867-869(19 October 2006)
doi:10.1038/nature05233
Grammars are induced from the set of natural AmP sequences using Teiresias. Overlapping grammars are stitched together to create new 20-amino-acid sequences that correspond to the antimicrobial syntax. Designed sequences are scored on the basis of the prevalence of the underlying grammar in natural peptides. After removing designs with six or more consecutive amino acids in common with a natural peptide, a representative set of sequences is selected for experimental validation.