Mesoscopic models of lipid bilayers and bilayers with embedded ...
Mesoscopic models of lipid bilayers and bilayers with embedded ... Mesoscopic models of lipid bilayers and bilayers with embedded ...
92 Interaction of small molecules with bilayers pensated by an opposite change of pressure at the water/headgroups interface (first maximum in figure 6.8). Also the shift in lateral pressure in the bilayer hydrophobic core depends on the bilayer topology and solute characteristics. In the ht (L) t (K) 4 t(L) t and ht7 bilayers, the hydrophilic (and the neutral) dumb-bells have little effect in the bilayer center (z = 0). In the ht (L) 6 t bilayer, because of the decrease in interdigitation, and of packing density, induced by the interface-adsorbed solutes, the effect is a decrease of the local pressure in the bilayer center. To further characterize the changes in the local pressure induced by the solute molecules we define the following quantity ∆π(z) = π db(z) − πo(z) (6.2) where π db(z) is the pressure for a bilayer with dumb-bells and πo(z) is the pressure for the pure bilayer. Since the most common organization of lipid bilayers is the non interdigitated state, we focus on the pressure shift ∆π(z) for the lipid type ht (L) t (K) 4 t(L) t, as shown in figure 6.9. The shift in pressure for the fully flexible bilayer ht7 is very similar to the one shown. Because of symmetry, just half of the pressure profile is represented, with the bilayer center at z = 0. Also, z has been normalized by the hydrophobic thickness of the bilayer. From the figure it can be seen that the hydrophobic dumb-bells shift Figure 6.9: Difference in pressure profiles ∆π(z) (equation 6.2) in a ht (L) t (K) 4 t (L) t bilayer with added different dumb-bells respect to the pure bilayer. Only half of the pressure profile is shown. The bilayer center is at z = 0, and z has been rescaled by the bilayer hydrophobic thickness, Dc. A schematic representation of the lipids is also shown for a better characterization of the position of the peaks of ∆π(z). The first peak in the graphs (at z ≈ −0.6) corresponds to the water/headgroups interface, and the second peak (z ≈ −0.5) to the headgroups/tails interface.
6.3 Results and Discussion 93 the local pressure less than the dumb-bells which adsorb at the headgroup interface. The difference between the amphiphilic and the neutral solutes is due to the smaller concentration of the latter at the interface, because they have partially diffused into the water phase. The molecules adsorbed at the interface decrease the pressure in the water/headgroup region and increase the pressure at the headgroup/tail interface. Also, a decrease in pressure going through the hydrophobic core, in the acyl chain region, is observed, while no change in pressure is present in the bilayer center (z=0). This local redistribution of pressure, and in particular in the headgroup interfacial region, could influence the gating mechanism of integral channel proteins [116], or affect the binding of peripheral membrane proteins [120]. It is interesting to compare our results with other simulation studies reported in literature. For example, using atomistic MD simulations, Klein and co-workers investigated the interaction of anesthetic molecules (halotane) [117, 121] and their non-anesthetic (or non-immobilizer) analogues (hexafluoroethane) [122] with saturated [123] and poly-unsaturated lipid bilayers [119]. They have shown that the anesthetic molecules are preferentially absorbed at the head-group region, increasing the surface area per lipid and inducing structural modifications of the lipid bilayer, while the non-anesthetic molecules are mainly located in the bilayer core, and the lipid bilayer exhibits almost no structural changes compared to the pure lipid. Our model hydrophobic and neutral molecules have the same solubility in oil since they both have the same value of repulsion parameter (a = 25) with the tails. Although the neutral molecules largely diffuse in the water phase, if they remain in the bilayer region they locate predominantly near the headgroups, while the hydrophobic molecules are found mainly in the bilayer hydrophobic core. This is consistent with the findings in [117,119,121,122] for the location of the anesthetic halotane and the non-anesthetic hexafluoroethane in lipid bilayers. Our results indicate that the small molecules that locate preferentially in the bilayer headgroup interfacial region are the most effective in modifying the bilayer properties, and that the partitioning in the bilayer of solutes which have the same size and chemical nature is largely driven by lateral stresses and density differences within the bilayer. Molecules adsorbed in a bilayer have as well a large effect on the distribution of the lateral pressures across the bilayer, this effect being very much dependent on bilayer composition, solute properties, and location of the solutes within the bilayer.
- Page 47 and 48: 4.3 Computational details 41 lipid
- Page 49 and 50: 4.4 Results and discussion 43 ρ(z)
- Page 51 and 52: 4.4 Results and discussion 45 one l
- Page 53 and 54: 4.4 Results and discussion 47 WH HT
- Page 55 and 56: 4.4 Results and discussion 49 Shill
- Page 57 and 58: 4.4 Results and discussion 51 chain
- Page 59 and 60: 4.4 Results and discussion 53 4.4.4
- Page 61: 4.4 Results and discussion 55 headg
- Page 64 and 65: 58 Phase behavior of coarse-grained
- Page 66 and 67: 60 Phase behavior of coarse-grained
- Page 68 and 69: 62 Phase behavior of coarse-grained
- Page 70 and 71: 64 Phase behavior of coarse-grained
- Page 72 and 73: 66 Phase behavior of coarse-grained
- Page 74 and 75: 68 Phase behavior of coarse-grained
- Page 76 and 77: 70 Phase behavior of coarse-grained
- Page 78 and 79: 72 Phase behavior of coarse-grained
- Page 80 and 81: 74 Phase behavior of coarse-grained
- Page 82 and 83: 76 Phase behavior of coarse-grained
- Page 85 and 86: VI Interaction of small molecules w
- Page 87 and 88: 6.2 Computational details 81 For re
- Page 89 and 90: 6.3 Results and Discussion 83 withi
- Page 91 and 92: 6.3 Results and Discussion 85 ρ(z)
- Page 93 and 94: 6.3 Results and Discussion 87 ρ(z)
- Page 95 and 96: 6.3 Results and Discussion 89 S m 0
- Page 97: 6.3 Results and Discussion 91 π(z)
- Page 102 and 103: 96 Mesoscopic model for lipid bilay
- Page 104 and 105: 98 Mesoscopic model for lipid bilay
- Page 106 and 107: 100 Mesoscopic model for lipid bila
- Page 108 and 109: 102 Mesoscopic model for lipid bila
- Page 110 and 111: 104 Mesoscopic model for lipid bila
- Page 112 and 113: 106 Mesoscopic model for lipid bila
- Page 114 and 115: 108 Mesoscopic model for lipid bila
- Page 116 and 117: 110 Mesoscopic model for lipid bila
- Page 118 and 119: 112 Mesoscopic model for lipid bila
- Page 120 and 121: 114 Mesoscopic model for lipid bila
- Page 122 and 123: 116 Mesoscopic model for lipid bila
- Page 125 and 126: References [1] Tanford, C. Science
- Page 127 and 128: 7.4 Conclusion 121 [68] Ono, S.; Ko
- Page 129 and 130: 7.4 Conclusion 123 [139] Lee, A. Bi
- Page 131 and 132: Summary Biological membranes, as th
- Page 133 and 134: agreement we find gives us confiden
- Page 135 and 136: Samenvatting Biologische membranen,
- Page 137 and 138: de lage temperatuur gel fase of Lβ
- Page 139: ied dat het dichtst bij het hydrofo
- Page 143: This thesis is based on the followi
92 Interaction <strong>of</strong> small molecules <strong>with</strong> <strong>bilayers</strong><br />
pensated by an opposite change <strong>of</strong> pressure at the water/headgroups interface (first<br />
maximum in figure 6.8).<br />
Also the shift in lateral pressure in the bilayer hydrophobic core depends on the<br />
bilayer topology <strong>and</strong> solute characteristics. In the ht (L) t (K)<br />
4 t(L) t <strong>and</strong> ht7 <strong>bilayers</strong>, the<br />
hydrophilic (<strong>and</strong> the neutral) dumb-bells have little effect in the bilayer center (z =<br />
0). In the ht (L)<br />
6 t bilayer, because <strong>of</strong> the decrease in interdigitation, <strong>and</strong> <strong>of</strong> packing<br />
density, induced by the interface-adsorbed solutes, the effect is a decrease <strong>of</strong> the local<br />
pressure in the bilayer center.<br />
To further characterize the changes in the local pressure induced by the solute<br />
molecules we define the following quantity<br />
∆π(z) = π db(z) − πo(z) (6.2)<br />
where π db(z) is the pressure for a bilayer <strong>with</strong> dumb-bells <strong>and</strong> πo(z) is the pressure<br />
for the pure bilayer.<br />
Since the most common organization <strong>of</strong> <strong>lipid</strong> <strong>bilayers</strong> is the non interdigitated<br />
state, we focus on the pressure shift ∆π(z) for the <strong>lipid</strong> type ht (L) t (K)<br />
4 t(L) t, as shown in<br />
figure 6.9. The shift in pressure for the fully flexible bilayer ht7 is very similar to the<br />
one shown. Because <strong>of</strong> symmetry, just half <strong>of</strong> the pressure pr<strong>of</strong>ile is represented, <strong>with</strong><br />
the bilayer center at z = 0. Also, z has been normalized by the hydrophobic thickness<br />
<strong>of</strong> the bilayer. From the figure it can be seen that the hydrophobic dumb-bells shift<br />
Figure 6.9: Difference in pressure pr<strong>of</strong>iles ∆π(z) (equation 6.2) in a ht (L) t (K)<br />
4 t (L) t bilayer <strong>with</strong><br />
added different dumb-bells respect to the pure bilayer. Only half <strong>of</strong> the pressure pr<strong>of</strong>ile is<br />
shown. The bilayer center is at z = 0, <strong>and</strong> z has been rescaled by the bilayer hydrophobic thickness,<br />
Dc. A schematic representation <strong>of</strong> the <strong>lipid</strong>s is also shown for a better characterization<br />
<strong>of</strong> the position <strong>of</strong> the peaks <strong>of</strong> ∆π(z). The first peak in the graphs (at z ≈ −0.6) corresponds<br />
to the water/headgroups interface, <strong>and</strong> the second peak (z ≈ −0.5) to the headgroups/tails<br />
interface.