Structure-activity relationship of HP(2-20) analog peptide: Enhanced antimicrobial activity by N-terminal random coil region deletion

Hp(2.20) (AKKVFKRLEKLFSKIQNDK) si a 19-aa antimicrobial peptide derived from N-terminus of Helicobacter pylon kibosomal protein L1 (RpL1). In the previous study several analogs with amino acid substitutions were designed to increase or decrease only the net hydrophobicity. In particular, substitutions of Gln(16) and Asp(18) with Trp (Anal 3) for hydrophobic amino acid caused a dramatic increase in antibiotic activity without a hemolytic effect. Hp-A3 is a potent antimicrobial peptide that forms, in hydrophobic medium, an amphipathic structure consisting of an N-terminal random coil region (residues 2-5) and extended C-terminal regular alpha-helical region (residues 6-20). To obtain the short and potent alpha-helical antimicrobial peptide, we synthesized a N-terminal random coil deleted Hp-A3 (A3-NT) and examined their antimicrobial activity and mechanism of action. The resulting 15mer peptide showed increased antibacterial and antifungal activity to 2- and 4 fold, respectively, without hemolysis. Confocal fluoresence microscopy studies showed that A3-NT was accumulated in the plasma membrane. Flow cytometric analysis revealed that A3-NT causes significant morphological alterations of the bacterial surfaces as shown by scanning electron microscopy. Circular dichroism (CD) analysis revealed that A3-NT showed higher alpha-helical contents than the HP-A3 peptide in 50% TFE solution. Therefore, the cell-lytic efficiency of HP-A3, which depended on the alpha-helical content of peptide, correlated linearly with their antimicrobial potency.(c) 2007 Wiley Periodicals, Inc. Biopolymers (PeptSci) 88: 199-207, 2007.