title: Detection of selective antibacterial peptides by the Polarity Profile method.
abstract: Antimicrobial peptides occupy a prominent place in the production of pharmaceuticals, because of their effective contribution to the protection of the immune system against almost all types of pathogens. These peptides are thoroughly studied by computational methods designed to shed light on their main functions. In this paper, we propose a computational approach, named the Polarity Profile method that represents an improvement to the former Polarity Index method. The Polarity Profile method is very effective in detecting the subgroup of antibacterial peptides called selective cationic amphipathic antibacterial peptides (SCAAP) that show high toxicity towards bacterial membranes and exhibit almost zero toxicity towards mammalian cells. Our study was restricted to the peptides listed in the antimicrobial peptides database (APD2) of December 19, 2012. Performance of the Polarity Profile method is demonstrated through a comparison to the former Polarity Index method by using the same sets of peptides. The efficiency of the Polarity Profile method exceeds 85% taking into account the false positive and/or false negative peptides.
authors.affiliation: Facultad de Ciencias de la Salud, Universidad Anáhuac, Huixquilucan Estado de México, México. polanco@unam.mx
authors.forename: Carlos
authors.initials: C
authors.lastname: Polanco
authors.forename: Thomas
authors.initials: T
authors.lastname: Buhse
authors.forename: José Lino
authors.initials: JL
authors.lastname: Samaniego
authors.forename: Jorge Alberto
authors.initials: JA
authors.lastname: Castañón-González
mesh_terms: D000465:Algorithms; D000595:Amino Acid Sequence; D000900:Anti-Bacterial Agents; D023181:Antimicrobial Cationic Peptides / Q000737:chemistry* / Q000494:pharmacology; D001419:Bacteria / Q000187:drug effects; D005658:Fungi / Q000187:drug effects; D010455:Peptides / Q000737:chemistry*; D021281:Quantitative Structure-Activity Relationship; D014780:Viruses / Q000187:drug effects
chemical_list: D000900:Anti-Bacterial Agents; D023181:Antimicrobial Cationic Peptides; D010455:Peptides