TY - JOUR
T1 - Incorporation of surface tension into molecular dynamics simulation of an interface
T2 - a fluid phase lipid bilayer membrane
AU - Chiu, S. W.
AU - Clark, M.
AU - Balaji, V.
AU - Subramaniam, S.
AU - Scott, H. L.
AU - Jakobsson, E.
N1 - Funding Information:
We presented the basic idea of using negative lateral pressure to emulate the surface tension, plus early simulations and analysis, at the 1994 Biophysical Society meetings, the 1994 Jerusalem Conference on Bio- chemistry, and the 1994 meeting on numerical algorithms in biomolecular simulations at the University of Kansas. By discussions at meetings we have become aware that a similar algorithm is being developed by R. Pastor and B. Brooks. We also had useful discussions with many other participants at those meetings and individually with S. Simon, J. F. Nagle, M. Bloom, and R. G. Snyder. S. White pointed out to us the definition of the surface tension in terms of the integrated lateral pressure in Eq. 1. C. Zheng kindly shared with us a coordinate file for the repeating subunit of the PC membrane x-ray crystal structure that was used in constructing the initial conformation for the simulations. This work was supported by a grant from the National Science Foundation. Computations were done on machines at the Pittsburgh Supercomputing Center and the National Center for Supercomputing Applications.
PY - 1995
Y1 - 1995
N2 - In this paper we report on the molecular dynamics simulation of a fluid phase hydrated dimyristoylphosphatidylcholine bilayer. The initial configuration of the lipid was the x-ray crystal structure. A distinctive feature of this simulation is that, upon heating the system, the fluid phase emerged from parameters, initial conditions, and boundary conditions determined independently of the collective properties of the fluid phase. The initial conditions did not include chain disorder characteristic of the fluid phase. The partial charges on the lipids were determined by ab initio self-consistent field calculations and required no adjustment to produce a fluid phase. The boundary conditions were constant pressure and temperature. Thus the membrane was not explicitly required to assume an area/phospholipid molecule thought to be characteristic of the fluid phase, as is the case in constant volume simulations. Normal to the membrane plane, the pressure was 1 atmosphere, corresponding to the normal laboratory situation. Parallel to the membrane plane a negative pressure of -100 atmospheres was applied, derived from the measured surface tension of a monolayer at an air-water interface. The measured features of the computed membrane are generally in close agreement with experiment. Our results confirm the concept that, for appropriately matched temperature and surface pressure, a monolayer is a close approximation to one-half of a bilayer. Our results suggest that the surface area per phospholipid molecule for fluid phosphatidylcholine bilayer membranes is smaller than has generally been assumed in computational studies at constant volume. Our results confirm that the basis of the measured dipole potential is primarily water orientations and also suggest the presence of potential barriers for the movement of positive charges across the water-headgroup interfacial region of the phospholipid.
AB - In this paper we report on the molecular dynamics simulation of a fluid phase hydrated dimyristoylphosphatidylcholine bilayer. The initial configuration of the lipid was the x-ray crystal structure. A distinctive feature of this simulation is that, upon heating the system, the fluid phase emerged from parameters, initial conditions, and boundary conditions determined independently of the collective properties of the fluid phase. The initial conditions did not include chain disorder characteristic of the fluid phase. The partial charges on the lipids were determined by ab initio self-consistent field calculations and required no adjustment to produce a fluid phase. The boundary conditions were constant pressure and temperature. Thus the membrane was not explicitly required to assume an area/phospholipid molecule thought to be characteristic of the fluid phase, as is the case in constant volume simulations. Normal to the membrane plane, the pressure was 1 atmosphere, corresponding to the normal laboratory situation. Parallel to the membrane plane a negative pressure of -100 atmospheres was applied, derived from the measured surface tension of a monolayer at an air-water interface. The measured features of the computed membrane are generally in close agreement with experiment. Our results confirm the concept that, for appropriately matched temperature and surface pressure, a monolayer is a close approximation to one-half of a bilayer. Our results suggest that the surface area per phospholipid molecule for fluid phosphatidylcholine bilayer membranes is smaller than has generally been assumed in computational studies at constant volume. Our results confirm that the basis of the measured dipole potential is primarily water orientations and also suggest the presence of potential barriers for the movement of positive charges across the water-headgroup interfacial region of the phospholipid.
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U2 - 10.1016/S0006-3495(95)80005-6
DO - 10.1016/S0006-3495(95)80005-6
M3 - Article
C2 - 8534794
AN - SCOPUS:0029099308
SN - 0006-3495
VL - 69
SP - 1230
EP - 1245
JO - Biophysical journal
JF - Biophysical journal
IS - 4
ER -