Insights into the structure of the PmrD protein with molecular dynamics simulations.

Resistance to cationic antimicrobial peptide polymyxin B from Gram-negative bacteria is accomplished by two-component systems (TCSs), protein complexes PmrA/PmrB and PhoP/PhoQ. PmrD is the first protein identified to mediate the connectivity between two TCSs. The 3D structure of PmrD has been recently solved by NMR and its unique fold was revealed.

Conformational study of new amphipathic alpha-helical peptide models of apoA-I as potential atheroprotective agents.

Aiming at contributing to the development of potential atheroprotective agents, we report on the concept and design of two peptide models, which mimic the amphipathic helices of apoA-I and incorporate Met into their sequences to validate its role as oxidant scavenger: Ac-ESK(Palm)KELSKSW(10)SEM(13)LKEK(Palm)SKS-NH(2) (model 1 [W(10), M(13)]) and Ac-ESK(Palm)KELSKSM(10)SEW(13)LKEK(Palm)SKS-NH(2) (model 2 [M(10), W(13)]). Hydrophobic residues of both models cover about the half of the surface, while the positively and negatively charged residues constitute two separate clusters on the hydrophilic face. Palmitoyl groups were introduced into the Lys-N(epsilon)H(2) groups at positions 3 and 17 to contribute to the amphipathic character of the peptides and stabilize the nonpolar face of the helix.

Innovative, multifunctional sequential oligopeptide carriers Soc(n)-I and SOC(n)-II: functions-technology-perspectives.

An innovative type of multifunctional helicoid artificial carriers, formed by the repetitive Lys-Aib-Gly (SOC(n)-I) or by the Aib-Lys-Aib-Gly (SOC(n)-II), with structural rigidity and regularity were successfully applied in our laboratory for anchoring antigenic/immunogenic peptides. The carriers, designed to display a predetermined 3D structure, adopt the 3(10) helical conformation, while the attached peptides preserve their original "active" conformation. The constructed conjugates were used as substrates in solid phase immunoassays, as well as for generating potent and specific immune responses.

Sequential oligopeptide carriers, SOCn, as scaffolds for the reconstitution of antigenic proteins: applications in solid phase immunoassays.

A new class of helicoid type sequential oligopeptide carriers (SOC), for anchoring antigenic epitopes, has been modeled from the repetitive Lys-Aib-Gly (SOC(n)-I) and Aib-Lys-Aib-Gly (SOC(n)-II) units aiming to the development of scaffolds with predetermined 3D structures. Conformational analysis showed that the SOC(n) carriers adopt 3(10)-helical structures, while the SOC(n)-conjugates retain their original active conformations and they interact neither to the carriers nor to each other. It is concluded that the helicoid structure of SOC(n) helps the reconstitution and/or mimicking of the native forms of the epitopes so that potent antigens are generated for developing specific, sensitive and reproducible immunoassays.