| Literature DB >> 29261111 |
Xavier F Fernandez-Luengo1,2, Juan Camacho3, Jordi Faraudo4.
Abstract
Lipid nanoparticles (Entities:
Keywords: Martini force field; lipid nanoparticles; molecular dynamics; self-assembly; softmatter
Year: 2017 PMID: 29261111 PMCID: PMC5746950 DOI: 10.3390/nano7120461
Source DB: PubMed Journal: Nanomaterials (Basel) ISSN: 2079-4991 Impact factor: 5.076
Figure 1Chemical structures of the amphiphilic molecules considered in this work: (a) tripalmitin lipid and (b) Tween 20 surfactant. We indicate their hydrophobic regions in cyan colour (the remaining regions of the molecules are hydrophilic).
Figure 2Modelling of tripalmitin lipid (left) and Tween 20 surfactant (right). We show the correspondence between the beads of the CG Martini representation with the all-atomic model (in CPK representation). In the all atomic model, hydrogen atoms are shown in white, carbons in black and oxygen atoms in red. In the Martini coarse-grain model, the C beads are shown in cyan, N beads in blue and P beads in red.
Composition of simulations considered in this work (number of tripalmitin lipid molecules, number of Tween 20 surfactant molecules, and number of P water and AF beads). We also indicate the equilibrium value for the side L of the cubic simulation box () and the total simulation time for each case. In all cases, we have a temperature of 310 K and pressure of 1 atm.
| System | N Lipid | N Surfactant | N Water | AF Beads | Sim Time | ||
|---|---|---|---|---|---|---|---|
| S1 | pure lipid NP | 64 | - | 4176 | 462 | 9.2 nm | 1100 ns |
| S2 | pure lipid NP | 216 | - | 28,003 | 3143 | 16.9 nm | 100 ns |
| S3 | pure lipid NP | 392 | - | 60,210 | 6627 | 21.5 nm | 450 ns |
| S4 | surfacted NP | 216 | 3 | 22,268 | 2420 | 15.6 nm | 327.6 ns |
| S5 | surfacted NP | 216 | 221 | 31,826 | 3518 | 17.9 nm | 201.8 ns |
Figure 3Snapshots of simulation S2 of a tripalmitin LNP at different simulation times. The initial configuration for MD simulations (t = 0), generated after energy minimization, is shown in (a) subsequent evolution from MD simulations is shown in the other panels: (b) 30,000 time steps (t = 0.6 ns), (c) 90,000 time steps (t = 1.8 ns); (d) 1.9 × time steps (t = 3.8 ns); (e) 2.9 × time steps (t = 5.8 ns); (f) 3.9 × time steps (t = 7.8 ns). Tripalmitin molecules are displayed in bond representation, with hydrophobic C beads in cyan and hydrophilic N beads in blue. Water is not shown for clarity. A scale corresponding to 1 nm is shown to help the reader. The size of the simulation box (containing the solvent and the lipids) is much larger than the structures shown here and it is not indicated in the snapshots.
Results from simulations of tripalmitin NP at 310 K and 1 atm. N is the number of tripalminitin molecules in the NP, is the radius of gyration (see Equation (1)), is the number of lipid molecules per unit volume of the NP and is the dimensionless asphericity parameter (see Equation (2)). All quantities are averages over equilibrium configurations and all statistical errors are smaller than the last significant figure.
| Simulation | ||||
|---|---|---|---|---|
| S1 | 64 | 2.5 nm | 0.98 nm | |
| S2 | 216 | 3.7 nm | 1.02 nm | |
| S3 | 392 | 4.6 nm | 0.96 nm |
Figure 4Snapshots from simulations S1 (a,d), S2 (b,e) and S3 (c,f) illustrating the different structures of LNPs of different sizes. Snapshots (a–c) show the full LNP and snapshots. Snapshots (d–f) show a cross section of the LNP. All Martini lipid model beads are shown as spheres (hydrophilic N beads are shown in blue and hydrophobic C beads are shown in cyan). We also show water molecules present inside the LNP (P beads in orange and AF beads in yellow). Water molecules outside the LNPs are not shown.
Figure 5Snapshots from simulation S3, showing the exchange of water from inside the LNP to the solvent. Tripalmitin lipid molecules are displayed in bond representation using transparent colours to facilitate visualization of inner water. Water molecules present inside the LNP are shown as spheres (P beads in orange and AF beads in yellow). Water molecules outside the LNPs are not shown. A particular water bead (of P type) is shown in green (see also the arrow) to follow its movement during the simulation. Panels from (a) to (f) correspond to snapshots taken at intervals of 10 ns so the total time from (a) to (f) is 50 ns. In panel (a), the water bead is at the surface of the inner water droplet. In (b), the bead detaches. In panels (c,d), the water bead diffuses inside the lipid core of the LNP and finally it exits from the LNP at (f).
Figure 6Snapshots of simulation S2 at different times to show the motion of tripalmitin lipid molecules in the NP. Tripalmitin molecules are displayed in bond representation, with non polar tails in cyan and polar heads in blue. A particular tripalmitin molecule (a “tracer” molecule) is shown in red in order to follow its motion during the simulation. (a) the tracer is at the surface of the NP in contact with water (631,000 simulation steps, t = 12.62 ns), (b) the tracer has moved towards the core of the NP (4,579,000 simulation steps, t = 91.58 ns), (c) the tracer molecule changes its orientation in the NP core (5,000,000, t = 100 ns) (water molecules are not shown in order to facilitate visualization).
Figure 7Snapshots from simulation S4 at different times to show the motion of Tween 20 molecules from the core of the LNP towards the surface: (a) snapshot obtained after 75,000 time steps (t = 1.5 ns); (b) snapshot obtained after 16,385,000 time steps (t = 327.7 ns). Both surfactant and lipid molecules are shown in bond representation, with Tween 20 molecules emphasized with an orange colour (blue and cyan colours correspond to polar and apolar beads of tripalmitin molecule, as in previous figures). Water molecules are not shown for clarity.
Figure 8Snapshot from simulation S5 illustrating the inhomogeneous distribution of surfactant onto LNP. Tripalmitin lipid molecules are shown in yellow to facilitate discrimination of the lipid core of the LNP. Colours in Tween 20 molecules correspond to the different Martini beads: polar P beads are shown in red, hydrophilic N beads in blue and hydrophobic C in cyan. Each panel (a–c) corresponds to a different orientation of the same configuration. In all panels, surfactant and lipid molecules are shown in bond representation and water molecules are not shown for clarity.