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. 2023 May 31;13(6):926. doi: 10.3390/biom13060926
C beads chain beads
CHAIN Protocol to determine the bilayer midsurface from the C bead density profile
DOPC Dioleoylphosphatidylcholine, a phospholipid
DPPC Dipalmitoylphosphatidylcholine, a phospholipid
ELT Equal leaflet tension
GM1 Monosialotetrahexosylganglioside, a glycolipid
GUV Giant unilamellar vesicle
H beads Headgroup beads
OLT Oppositie leaflet tension
PEG Polyethylene glycol
POPC Palmitoyloleoylphosphatidylcholine, a phospholipid
S beads Solute beads
STED Simulated emission and depletion
SUV Small unilamellar vesicle
VORON Protocol to determine the bilayer midsurface from volume per lipid
W beads water beads
a Molecular area per lipid
a0 Optimal molecular area per lipid
α, β Two coexisting liquid phases α and β as in Figure 34 and Figure 38
A Base area of cuboid simulation box
d Diameter of beads in coarse-grained molecular dynamics simulations
ΔΣ Stress asymmetry between two leaflets of planar bilayer, ΔΣ = Σul − Σll
ΔΣve Stress asymmetry between two leaflets of vesicle bilayer, ΔΣve = Σol − Σil
Ddr Diameter of spherical condensate droplet
kB Boltzmann constant
KA Area compressibility modulus of membrane
κ Bending rigidity of membrane, which provides the basic energy scale
λ Line tension of contact line between membrane and condensate droplet
L Linear dimension of cuboid simulation box
Lz Linear dimension of cuboid simulation box perpendicular to planar bilayer
m Spontaneous (or preferred) curvature of membrane
M Mean curvature of membrane surface
ν Vesicle volume as in Equation (19), not to be confused with volume per lipid, υ
Nil Lipid number in inner leaflet of vesicle bilayer
Nll Lipid number in lower leaflet of planar bilayer
Nol Lipid number in outer leaflet of vesicle bilayer
Nul Lipid number in upper leaflet of planar bilayer
Pcdf Cumulative distribution function for onset of flip-flops
Pexp Exponential distribution function for onset of flip-flops in planar bilayers
PWei Weibull distribution function for onset of flip-flops in vesicle bilayers
ΦS Mole fraction of solute molecules as in Figure 27
q Wavenumber of undulation modes as in Figure 11
r Radial coordinate for spherical nanovesicle
rmax Upper integration limit for integration over radial coordinate r
rmid Radial coordinate for midsurface of spherical nanovesicle
Rco Radius of circular contact line
ρC Density profile of hydrophobic chain (C) beads
Σ Bilayer tension
Σil Inner leaflet tension of nanovesicle
Σll Lower leaflet tension of planar bilayer
Σol Outer leaflet tension of nanovesicle
Σul Upper leaflet tension of planar bilayer
t Time
T Temperature
υ Molecular volume per lipid, not to be confused with the rescaled vesicle volume ν
υ0 Optimal molecular volume per lipid
V Volume of vesicle
Vll Volume of lower leaflet of planar bilayer
Vul Volume of upper leaflet of planar bilayer
Vil Volume of inner leaflet of vesicle bilayer
Vol Volume of outer leaflet of vesicle bilayer
VlW Volume of lower water compartment for planar bilayer
VuW Volume of upper water compartment for planar bilayer
ViW Volume of inner water compartment for vesicle bilayer
VoW Volume of outer water compartment for vesicle bilayer
z Cartesian coordinate perpendicular to planar bilayer
zmid Midplane position for planar bilayer
ξ Solubility of solute molecules in water as in Figure 27