| Literature DB >> 29163899 |
Runze He1, Ivan Di Bonaventura1, Ricardo Visini1, Bee-Ha Gan1, Yongchun Fu1, Daniel Probst1, Alexandre Lüscher2, Thilo Köhler2, Christian van Delden2, Achim Stocker1, Wenjing Hong1,3, Tamis Darbre1, Jean-Louis Reymond1.
Abstract
Here we report a new family of cyclic antimicrobial peptides (CAMPs) targeting MDR strains of Pseudomonas aeruginosa. These CAMPs are cyclized via a xylene double thioether bridge connecting two cysteines placed at the ends of a linear amphiphilic alternating d,l-sequence composed of lysines and tryptophans. Investigations by transmission electron microscopy (TEM), dynamic light scattering and atomic force microscopy (AFM) suggest that these peptide macrocycles interact with the membrane to form lipid-peptide aggregates. Amphiphilic conformations compatible with membrane disruption are observed in high resolution X-ray crystal structures of fucosylated derivatives in complex with lectin LecB. The potential for optimization is highlighted by N-methylation of backbone amides leading to derivatives with similar antimicrobial activity but lower hemolysis.Entities:
Year: 2017 PMID: 29163899 PMCID: PMC5676089 DOI: 10.1039/c7sc01599b
Source DB: PubMed Journal: Chem Sci ISSN: 2041-6520 Impact factor: 9.825
Scheme 1Synthesis of RH11. Conditions: (a) SPPS: Fmoc deprotection: piperidine/NMP 1 : 4 (v/v), 20 min; amino acid coupling: 3 eq. Fmoc-aa-OH, 3 eq. PyBOP, 5 eq. DIEA in NMP, 2–4 hours; (b) cleavage: TFA/TIS/H2O (95/4/1/); (c) cyclization: KI (20 eq.) DIPEA (5 eq.) α,α′-dichloro-p-xylene (3 eq.) in CH3CN/H2O (1 : 1, v/v), RT, 1–2 hours under Argon.
Activity of CAMPs against Gram-negative (P. aeruginosa PAO1) and Gram-positive (B. subtilis BR151) bacterial strains
| Peptide | Hyd. | Pos. | Linear sequence | MIC | MIC | MHC |
|
| 4 | 5 | Polymyxin B | 0.5 | 16 | >2000 |
|
| 3 | 4 | cWkKkC | >64 | 64 | 1000 |
|
| 4 | 4 | CwWkKkC | 64 | 8 | 125 |
|
| 4 | 5 | cWwKkKkC | 64 | 16 | 500 |
|
| 5 | 5 | CwWwKkKkC | 64 | 4 | 125 |
|
| 5 | 6 | CwWwKkKkKC | >64 | 2 | 1000 |
|
| 6 | 6 | CwWwWkKkKkC | 16 | 2 | 31 |
|
| 6 | 7 | cWwWwKkKkKkC | 32 | 2 | 31 |
|
| 6 | 6 | CwWwWkKkKkC | 16 | 2 | 31 |
|
| 6 | 6 | CwWwWkKkKkC | 16 | 2 | 31 |
|
| 6 | 6 | CwWwWkKkKkC | 64 | 8 | n.d. |
|
| 6 | 6 | CfFfFkKkKkC | 32 | 2 | 500 |
|
| 6 | 6 | ClLlLkKkKkC | >64 | 16 | >2000 |
|
| 6 | 6 | CkKkWwWwKkC | 16 | 1 | 250 |
|
| 6 | 6 | CwWkKkKkWwC | 8 | 1 | 125 |
|
| 6 | 6 | cWwKkKkKwWc | 8 | 1 | n.d. |
|
| 6 | 6 | CwWkKkKkWwC | 8 | 1 | n.d. |
|
| 6 | 6 | CwWkKkKkWwC | 8 | 1 | n.d. |
|
| 6 | 6 | CkWkWkWkWkC | >64 | 16 | 1000 |
|
| 7 | 6 | CWwKkKkKwWwC | 8 | 1 | 125 |
|
| 7 | 6 | cwWkKkKkWwWc | 8 | 1 | n.d. |
|
| 7 | 5 | CwWkKkKwWwC | 32 | 2 | 8 |
|
| 5 | 7 | CwKkKkKkWwC | 64 | 2 | 250 |
|
| 6 | 6 | ClLkKkKkLlC | 64 | 4 | >2000 |
|
| 6 | 6 | CWWKKKKKWWC | 16 | 1 | 250 |
|
| 6 | 6 | CMewWkKkKkWMewC | 16 | 4 | 8 |
|
| 6 | 6 | CwMeWkKkKkWMewC | 16 | 4 | 1000 |
|
| 6 | 6 | CwWMekKkKMekWwC | 16 | 2 | 1000 |
Hyd. = number of hydrophobic residues including cysteines, Pos. = positive charges (from lysine side chains and N-terminus).
Sequences are cyclized with α,α′-dichloro-para-xylene. Upper case letters are used for l-amino acids and lower case letters for d-amino acids, the C-terminal cysteine is carboxamide (CONH2) from Rink amide synthesis.
The MIC (minimal inhibitory concentration) in μg mL–1 was measured by 1/2 serial dilutions in Müller–Hinton (MH) broth in 96 well plates after incubation for 16–18 hours at 37 °C. The MIC values were measured in independent triplicates with at least two experiments giving the same value.
MHC = minimal hemolytic concentration in μg mL–1, measured by 1/2 serial dilutions on human red blood cells (HRBCs) in 96 well plates. The MHC values were measured in duplicates giving the same value. n.d. = not determined.
Cyclized with α,α′-dichloro-meta-xylene.
Cyclized with α,α′-dichloro-ortho-xylene.
Cyclized with disulfide bridge.
Me for N-methylation of the peptide bond.
Fig. 1(A) d,l-Peptides RH6 (red), RH11 (blue) and all l-peptide RH17 (black) (at c = 685 μg mL–1) were incubated in human serum over 24 hours and remaining peptide was quantified by LC/MS. (B) PAO1 membrane integrity was measured by monitoring DNA release using the SYTOX dye and fluorescence spectroscopy. PAO1 cells in minimal salts medium were treated with SYTOX and each of the antibiotics/AMPs (added at time = 0) at a concentration of 4 × MIC. The fluorescence change is shown during 60 min. (C) TEM images showing morphology of PAO1 cells incubated for 60 min without compound (left), or with 10 × MIC polymyxin B (center) and 10 × MIC RH11 (right). (D) Particle size distribution observed by DLS in solutions of 100 μg mL–1 E. coli LPS without or with antibiotic compound at 100 μg mL–1. Each sample was measured in triplicate and the experiments were repeated three times.
Activity on clinical strains of P. aeruginosa and S. aureus
|
|
|
| Polymyxin B | |
| ZEM1.A | 32 | 16–32 | 8–16 | 0.125 |
| ZEM9.A | 8 | 8–16 | 8 | 4 |
| PEJ2.6 | 16–32 | 4–8 | 8–16 | 0.5 |
| PEJ9.1 | >64 | 64 | 32 | 0.5 |
|
| 64 | 16–32 | 32 | >64 |
|
| 32–64 | 16–32 | 32 | >64 |
|
| n.d. | 16 | 16 | 0.125 |
|
| n.d. | 32 | 64 | 0.125 |
|
| n.d. | >64 | >64 | 1 |
MICs were determined by serial two-fold dilutions in Mueller–Hinton (MH) broth in 96 well plates after incubation for 16–18 hours at 37 °C. Experiments were performed in triplicates with at least two independent experiments giving the same value. Resistance profiles in Table S1.† MSSA: methicillin-sensitive S. aureus, MRSA: methicillin-resistant S. aureus.
Fig. 2AFM image of B. subtilis cells on mica surface with or without treatment with CAMP RH11 at 4 × MIC (see methods for details). (A) Control cells without treatment; (B) cells after treatment with RH11, the AFM image shows doughnut-like structures around the bacteria. (C) Focus on doughnut-like structures observed with B. subtilis treated with RH11. (D) zoom image of (C). (E) AFM image of phosphatidylglycerol lipid vesicles treated with RH11. (F) zoom image of phosphatidylglycerol lipid vesicles with RH11.
Fig. 3X-ray crystal structure of fucosylated analogs of RH11 in complex with lectin LecB. (a) Overview of the FdRH11o–LecB complex showing 2 symmetric copies of the LecB tetramer. The protein is shown as ribbons and the cyclic peptides in stick model, each symmetry non-equivalent LecB monomer and its bound ligand are shown in the same color. The orange (FdRH11o-1), green (FdRH11o-2), and blue (FdRH11o-3) monomers reveal a fully resolved bound ligand. (b) Detail of the FdRH11o-1 shown with blue dashed cloud density. (c) Cyclic peptide portion of FdRH11o-1 in stick model with cationic lysine side chains in blue and hydrophobic residues (Trp and the xylene bridge) in ruby, showing one water-bridged hydrogen bond and four backbone H-bonds forming an improper short β-sheet like structure. The chosen cut-off distance for hydrogen bridges is 3.2 Å. (d) Cyclic peptide portion of FdRH11o-2 in stick model with two backbone H-bonds and two water-bridged backbone H-bonds. (e) Cyclic peptide portion of FdRH11o-3 in stick model, with backbone H-bonds connected via four crystallographic water molecules, one backbone H-bond involving the C-terminus, and a backbone-to-lysine side chain H-bond. (f) Cyclic peptide portion of FRH11o in stick model as observed in its LecB complex, with missing side-chains modeled in, showing two backbone H-bonds. (g) Overlay of α-carbon backbone observed in the three occupied sites of the FdRH11o–LecB complex (orange, green and blue) and the single occupied site of FRH11o–LecB complex (magenta). (h) Cyclic peptide in stick model as observed in the FdRH11m–LecB complex, with missing side-chains modeled in, showing one water bridged backbone H-bond and one H-bond between an indole NH and a backbone carbonyl. (i) Ramachandran plot for all l-residue dihedrals in the cyclic peptides. (j) Ramachandran plot for all d-residue dihedrals in the cyclic peptides. In both plots the allowed regions are shown in red and yellow. See also Table S2 and Fig. S6.†