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Force Fields in the GROMACS format. UPDATE (07/04/2022): Archives with itp files for MD with hydrogen
mass repartionning (HMR) are provided (*). Please, cite all the references listed in the README file in
each archive.
a) Surfactants
- Sulfosuccinic acid bis(2-ethylhexyl) ester Sodium salt (AOT)
(
CHARMM27
)*
-
Dodecyl-b-Maltoside (DDM)
(
CHARMM36
)*
(
GLTCAM06
)*
-Dodecyl phosphocholine (DPC)
(
AMBER9SB
)*
(
CHARMM36
)*
(
GROMOS53A6
)
(
GROMOS54A7
)
(
GROMOS_Berger
)
- Dodecyldimethylamine oxide (LDAO)
(
Lipid14/AMBER
)*
- Acidic and charged sophorolipid (18:1)
(
GROMOS53A6
)
(CHARMM36)
- Beta Octyl glucoside (BOG)
(
CHARMM36
)*
(
AMBER/GLYCAM06
)*
- Lauryl dodecyl sulfate (SDS)
(
CHARMM36
)*
- Polyethylene glycol tert-octylphenyl ether (TX100) (here, n=9)
(
CHARMM36
)*
b) Phospholipids
- 1-Palmitoyl-2-oleoylphosphatidylcholine 16:0-18:1 PC (POPC)
(
Lipid14/AMBER
)*
(
CHARMM36
)*
- 1,2-dioleoyl-sn-glycero-3-phosphocholine 18:1 (Δ9-Cis) PC (DOPC)
(
CHARMM36
)*
c) Miscellaneous molecules
- Polycyclic aromatic hydrocarbons (PAH)
(
CGenFF/CHARMM36
)*
2) Atomic coordinates in PDB format
a) Surfactant micelles and reverse micelles
- Equilibrated AOT reverse micelle (W0 = 5, 10 and 15) in isooctane at T=300K and P = 1.015 bar (
file
)
- Equilibrated DOPC reverse micelle in benzene (W0=1, 2, 4, 8, 12 and 16) with 15, 17, 22, 34, 69 et 87 surfactants
and the SPCE water at T=303 K and P = 1.015 bar (
CHARMM36
)
- Equilibrated alpha and beta DDM micelles in TIP3P water at T=298K and P = 1.015 bar
(file
)
- Equilibrated DPC micelle in TIP3P water (15176 water) at T=300 K and P= 1.015 bar with :
- AMBER99SB (
file
)
- CHARMM36 (
file
)
- GROMOS54A7 (
file
)
- GROMOS53-A6 Berger (
file
)
- Equilibrated LDAO micelle with 104 surfactants and 31989 TIP3P water at 298 K and P=1.015 bar (
AMBER/Lipid14
)
- Equilibrated protoned sophorolipid (18:1) micelles with 28, 37, 56, 68 and 80 surfactants in SPC water
at T=303 K and P=1.015 bar (
GROMOS53A6
)
c) Phospholipid membranes
- 1-Palmitoyl-2-oleoylphosphatidylcholine (POPC) 64 lipids/leaflet, T=303K et 1.015 bar, APL=63.2 A2
Dickson et al. lipid14 paper APL=65.6 A2 (semiisotropic NPT) with 0.15 KCL) (
AMBER/lipid14
)
- 1,2-dioleoyl-sn-phosphatidylcholine (DOPC) 64 lipids/leaflet, T= 303K et 1.015 bar, APL = 66.0 A2
exp APL = 67 - 72.5 A2 (anisotropic NPT) (
CHARMM36
)