SDS is used to mimic the anionic bacterial membrane [34], and structural studies using this method have provided Selleckchem Epacadostat insight into peptide-membrane interactions. In a previous study, we demonstrated that the ATRA-1 peptide exhibits very strong GDC-0994 in vitro helical properties, while ATRA-2 peptide had poor helical properties [25, 26], probably due to the proline at the 10th position. ATRA-1 was also predicted to present a more cohesive hydrophobic face than ATRA-2 (see below). These characteristics, taken together, may account for the high level of anti-microbial effectiveness displayed by ATRA-1. We hypothesized that compared

to the parental NA-CATH (containing both ATRA-1 and ATRA-2 segments), the NA-CATH:ATRA1-ATRA1 peptide may benefit Histone Methyltransferase inhibitor from greater and more stable helical character when interacting with bacterial membranes and that this may contribute to its increased anti-microbial activity [35]. Figure 4 Circular Dichroism Spectra of NA-CATH and NA-CATH:ATRA1-ATRA1. Pronounced dichroic minima at 222 and 208 nm are traits of helical peptides. While NA-CATH and NA-CATH:ATRA1-ATRA1 do not show significant helical character in 10 mM sodium phosphate, both peptides exhibit helical structure in 60 mM SDS in 10 mM phosphate buffer (pH 7) and in 50% TFE in 10 mM phosphate buffer (pH 7). Under both conditions, NA-CATH:ATRA1-ATRA1 displayed more pronounced

helical character than NA-CATH. B. Helical Wheel projection. Helical wheel Resveratrol projections were made with http://​kael.​org/​helical.​htm (accessed on 12/15/10). The sequences of (a) NA-CATH and (b) NA-CATH:ATRA1-ATRA1 were projected onto the helical backbone. Altered residues are indicated by the arrows. Shaded residues indicate hypdrophobic residues. C. ATRA2 vs ATRA1 motifs in helical wheel projection. To enable easier viewing of contribution of the key differences between the ATRA2

(a) and the ATRA1 (b) motifs to the hydrophobic face of the peptide, each motif is projected alone on the helical wheel in this view. Altered residues are indicated by the arrows. Shaded residues indicate hypdrophobic residues. Neither NA-CATH nor NA-CATH:ATRA1-ATRA1 show well-defined secondary structure in 10 mM sodium phosphate (pH 7) (Figure 4A), as expected. However, both peptides appear to adopt a helical conformation in 50% TFE, with the NA-CATH:ATRA1-ATRA1 spectrum indicating significantly more helical character than is noted for the NA-CATH parental peptide. SDS may more closely approximate the conditions associated with the interaction between CAMPs and bacterial membranes, thus CD spectra were also collected for NA-CATH and NA-CATH:ATRA1-ATRA1 in the presence of 60 mM SDS. Both peptides demonstrated helical character under these conditions, but less than they presented in 50% TFE.