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22 NOVEMBER 2000
Greg Hura
Graduate Group in Biophysics, University of California, Berkeley and Life Sciences Division,
Lawrence Berkeley National Laboratory, Berkeley, California 94720
Robert M. Glaeser
Department of Molecular and Cell Biology, University of California, Berkeley and Life Sciences Division,
Lawrence Berkeley National Laboratory, Berkeley, California 94720
Teresa Head-Gordona)
Physical Biosciences & Life Sciences Divisions, Lawrence Berkeley National Laboratory,
Berkeley, California 94720
INTRODUCTION
0021-9606/2000/113(20)/9149/13/$17.00
9149
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9150
Sorenson et al.
probed by x-ray and neutron scattering experiments, addressing what features of g OO(r) should be reproduced by a water
model, and which water models favorably reproduce those
features. The theory section discusses issues surrounding the
extraction of radial distribution functions from the x-ray
scattering of molecular fluids. We evaluate current models of
the molecular from factor for water and propose a modification of the standard approach used for analyzing x-ray scattering, motivated by the desire to include the changes in the
intramolecular electron distribution caused by chemical
bonding effects. In the results, we present a g OO(r) for water
consistent with our recent experimental data gathered at the
ALS, which is different than the g OO(r) reported by other
x-ray and neutron scattering experiments. Most importantly,
we discuss what features of g OO(r) should be reproduced by
a classical or ab initio simulation of water at ambient conditions. In the discussion, we compare g OO(r) generated from
simulations using many nonpolarizable and polarizable empirical force fields for water, as well as recently reported ab
initio simulations, to our experimentally determined g OO(r).
We conclude with a summary of our results and analysis, and
examine how these new results impact current understanding
of the structure of water.
THEORETICAL CONSIDERATIONS
Ne
k1
b e exp iQrk
i j x i x j f i Q f j Q
sin Qr i j
Qr i j
x ix j f i Q f j Q h i j Q ,
i j
where
h i j Q 4
r 2 dr g i j r l
sin Qr
.
Qr
The sums are over the atom types present in the sample, x i is
the atomic fraction of atom type i, f i (Q) is the atomic scattering factor20 for atom type i, is the atomic density, r i j are
the intramolecular distances between atom centers, and
g i j (r) is the radial distribution function describing intermolecular correlations between atom types i and j.
The molecular form factor
F Q 2 f i Q f j Q exp b i j Q 2 /2
ij
sin Qr i j
, 4
Qr i j
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F(Q) 2 for the water monomer in the gas phase, the in-
tramolecular term in Eq. 2 should correspond to the electron distribution around the water monomer in the condensed
phase. From the simple observation that the dipole moment
of water in the gas phase28 is 1.86 D while it is estimated to
increase to 2.63.0 D in the liquid phase,8,29 it is apparent
that the monomer charge distribution changes significantly
upon solvation. Again we can quantify this change with theoretical calculations. The most recent ab initio simulation
studies of water8 report that the electron distribution around a
single water molecule is much changed from the gas phase,
with more charge residing on the oxygen and a more spherical distribution of charge. An attempt has been made to include these types of observations into an analysis of the
x-ray scattering from water.23 While the change in the predicted intramolecular scattering was found to be significant,
it had little effect on the observed intermolecular correlations
because of statistical cancellations.23 In our present work we
have used the most accurately known gas-phase data on the
molecular form factor26 for normalizing and modeling the
observed scattering. We will discuss below ways this approach can be augmented and their consequent effects.
The radial distribution functions
9151
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9152
Sorenson et al.
FIG. 2. F(Q) 2 for water in the gas-phase. Legend: Debye with IAM, Eq.
4 black line; Debye with rescaled atomic scattering factors gray line;
Debye with modified atomic scattering factors, Eq. 5 dot-dash; fourGaussian fit to CI calculation Ref. 26 circles.
This suggests a modification of the atomic scattering factors which rescales them properly at low Q, but retains their
values at large Q. Such a modification is the following:
f Q 1 1 exp Q 2 /2 2 f Q ,
g OO r
i
a i g OO
r ,
il
where the g OO(r) are the basis functions taken from the
i
(r) described by
sources described above. Because the g OO
this equation is a linear superposition of the basis functions,
we can perform the optimization entirely in Q-space, using
i
(Q) and relinear superpositions of the corresponding h OO
sulting in a large savings in computational time.
After an optimal fit has been found from this scheme,
various transforms were used to further optimize the curve
and overcome any possible basis set limitations. Localized
scaling and translation transforms of the form
2
1 e xx 0 f x e xx 1 f x
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a possible problem, depending on how far our basis functions continue in real-space. Fortunately, this only affects the
low-Q region of the predicted scattering curve, and this does
not affect the quality of our fit since our experimental data is
truncated at a relatively high value of Q0.4 1 . The behavior of the pure water scattering curve at smaller angle is
mostly uninteresting and simply describes the lack of significant long-wavelength correlations in liquid water. The Q
0 value of the scattering curve gives the isothermal compressibility of water and enforces a constraint on the total
integral of the RDFs. However this constraint should be enforced only strictly at the r limit of the RDFs,
and can only be used as an approximate constraint at finite
values of r.
The basis set of RDFs used in the present procedure
contained values up to r12.4 , corresponding to simulations of a box of 512 waters; this provides values of predicted scattering up to Q0.25 1 , sufficient for our
present experimental data. With accurate data extending to
lower Q, we would need to repeat our procedure with longer
RDFs.
RESULTS
To apply the fitting procedure discussed above, we selected various trial functions for g OH(r), and extracted the
g OO(r) which best fit the experimental curve with this assumed oxygenhydrogen correlation. In principle, our fitting
procedure could be used to simultaneously fit g OO(r) and
g OH(r) to the curve. However, preliminary investigations indicated that the total scattering curve is too insensitive to the
form of g OH(r), and a relatively wide range of choices for
g OH(r) were consistent within experimental uncertainty and
the quality of our fits.
The g OO(r) resulting from this procedure is shown in
Fig. 3, assuming the experimental g OH(r) determined by
Soper et al. from neutron scattering.5 Also shown in the fig-
9153
FIG. 4. Predicted x-ray scattering for the g OO(r) in Fig. 3 compared with
experiment. Legend: Hura et al., x-ray black line; best fit gray line.
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9154
Sorenson et al.
FIG. 5. h OO(Q) from experiment and simulation. Legend: Narten and Levy
Ref. 3 dot-dash line; Soper, Bruni, and Ricci Ref. 5 gray line; current
work black line; SPC/E Ref. 41 dashed line. The curve for Narten and
Levy is H M(Q) taken from their article Ref. 3; the curve for Soper et al. is
taken from applying a Fourier transform to the g OO(r) given in Ref. 5.
Ironically, given the greater confidence that the scattering experiments should give in regard to defining peak positions accurately, we see that there is still some disagreement
between all of the experiments. We know that the primary
water peak position of the intensity curve in Q-space for our
ALS experiment is shifted to higher angle than older x-ray
experiments, a difference that is significant between the two
experiments based on error bars estimated from our work.18
The meaningful shift to higher angle of the intensity is therefore consistent with a determination of a g OO(r) with shifted
peak positions to smaller r, and is not an artifact of the fitting
procedure. There is a clear trend in the experimental data
over the years toward peaks that are shifted to smaller r in
g OO(r). We conclude that the quantified errors in our ALS
experiment makes a definitive assignment as to the peak position values of g OO(r), and we advocate their reproduction
by water simulations to within 1%.
Our analysis shows that a g OO(r) with a higher and
sharper first peak is always consistent with the present data,
with our best-fit peak height giving a value of 2.8. We find a
lower bound to the height of the first peak to be 2.6, which
gives an acceptable, but clearly nonoptimal fit to our experimental x-ray intensities. The reported x-ray and neutron
studies have reported first peak values of 2.2. Much of the
information determining the exact height and shape of this
peak is present in the scattering at wave vectors above 7.0
1, and x-ray scattering intensities at much higher angle
would be desired to further restrict the peak height.3,31,36
Nonetheless, we are confident that a higher 2.6 and
sharper first peak is correct, and should be a feature captured
by empirical water potentials or ab initio simulations, but
with uncertainty in the peak height value above 2.6.
Proof of this is immediately evident in a comparison of
h OO(Q) obtained from the current experiment, Narten and
Levy,3 and Soper, Bruni, and Ricci5 Fig. 5. The shorter and
broader first peak in g OO(r) reported by the two other experimental groups manifests itself at higher Q as exponen-
r min
r 2 dr g OO r ,
where is the number density of water and r min is the location of the first minimum in g OO(r). Application of this formula to the RDFs in Fig. 3 gives values for N c of 5.1, 5.2,
and 4.7, for Narten and Levy,3,46 Soper, Bruni, and Ricci,5
and the current work, respectively. A coordination number
below five indicates that liquid water preserves much of its
ice-like tetrahedral structuring, but with differences in
hydrogen-bonding patterns that would also now include deformed or bifurcated hydrogen bonds.47 An associated liquid
such as water should be contrasted to the case of atomic
liquids where the coordination number is closer to 12 representing the structure of a fluid dominated by repulsive forces
and packing considerations.48 We see 10% reduction in N c
from our experiment that, together with greater peak heights
and positions shifted to smaller r, suggests liquid water has
more ice-like structure than has been the case based on past
scattering studies.
Since we propose here a modification of the traditional
approach to analyzing x-ray scattering, it was important to
investigate the sensitivity of our modeling to the parameters
and introduced above. Encouragingly, very similar results for the oxygenoxygen radial distribution function
were obtained for a varying range of corresponding to
dipole moments of 2.63.0 D and ranging from 1.9 to 2.5
1. This is explainable in view of the fact that the MASF
prescription, Eq. 5, changes the atomic scattering factors
most in the low-Q region, 2 1 and below, where the
resulting impact on the real-space radial distribution function
is lower.
Above it was argued that oxygenhydrogen correlations
make only a small contribution to the total x-ray scattering
profile, and our fitting procedure has confirmed this to be
true. Various g OH(r)s drawn from simulation6,39,40,41 and
experiment5 provide comparable good fits to the observed
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9155
DISCUSSION
Figure 6 shows a comparison of g OO(r) of the ALS experiment with that of SPC,39 TIP3P,40 SPC/E,41 and TIP4P.40
The first three are three-point charge models while TIP4P is
a four-point charge model. All are empirical nonpolarizable
water force fields. Based on the comparison of the ALS data
in Fig. 6a, we would argue that SPC and TIP3P are poor
descriptions of water structure, especially since tetrahedral
structure as measured by the second and third peaks is
greatly diminished with respect to experiment.
While the poor structural performance of the SPC and
TIP3P water models is appreciated in the simulation community, they are often still used in large size scale or long time
scale simulations of pure water or proteinwater studies due
to the favorable reduced computational cost of simple threepoint models. We note that the robust AMBER protein force
field was parametrized for use with TIP3P.49 While a water
model should be judged on its global properties, our scattering results discourage the use of models such as SPC and
TIP3P. Our recent solution scattering simulations of concentrated N-acetyl-leucine-methylamide in water using AMBER
and SPC showed rather poor quantitative agreement with our
x-ray scattering experiments.50,51 A comparison of the simple
three-point SPC/E model and the four-point TIP4P nonpolarizable model, show that the overall agreement of these models with experiment is quite good.
FIG. 6. Comparison of current experimental g OO(r) black line with simulations using nonpolarizable water models. a TIP3P gray line and SPC
dashed line three-point models do a poor job of reproducing the ALS data.
b TIP4P gray line and SPC/E dashed line, four- and three-point models,
show better agreement with the ALS data.
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9156
Sorenson et al.
ment between simulations and experiments away from ambient conditions or for heterogeneous chemical
systems.45,54,55
Figure 8 shows a comparison of our ALS g OO(r) with
several polarizable water models including a fluctuating
charge version of TIP4P that we call TIP4P-FQ,6 an extension of TIP4P-FQ that introduces an additional coupling between the Lennard-Jones interaction parameters for a pair of
oxygen sites and their partial charges,56 TIP4P-Pol-1, extension of the MCY water model to include flexible bonds and
angles, as well as many-body effects, NCC-vib,57 the polarizable point charge PPC model,58 and a simple polarizable
model developed to reproduce water properties over a wide
range of conditions by Chialvo and Cummings CC.45
The CC model shifts all peaks to larger r, and has a very
large peak as well as overemphasis on the loss of density at
the first minimum.59 While overall its structure does least
well among the polarizable water models, its parametrization
may well reproduce nonambient states better.45 The NCC-vib
model57 also overemphasizes the loss of density at the first
minimum, but is otherwise faithful to the experimentally determined g OO(r). For the TIP4P-FQ model6 and the PPC
model,58 it is evident that the overall agreement is excellent,
although the position of the experimental first peak is not as
well-reproduced as the nonpolarizable TIP5P model. The
TIP4P-pol-1 water model shows improvements in first peak
positions relative to TIP4P-FQ, but overemphasizes loss and
gain of density at the first minimum and second maximum,
respectively. While overall the polarizable models perform
well, these new generation of force fields are not optimal
performers at ambient temperature as are some of their nonpolarizable partners.
FIG. 7. Comparison of current experimental g OO(r) black line with simulations of five-point nonpolarizable water models. a ST2 dashed line and
ST4 gray line; ST4 is a variant of ST2 that was designed to reproduce
accurately the original neutron experimental data from Soper and Phillips
Ref. 4. b Comparison to the newest water model TIP5P gray line that
shows the best agreement compared to all simulations of liquid water examined in this work.
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9157
FIG. 8. Comparison of current experimental g OO(r) black line with simulations using polarizable water models. a The TIP4P-Pol-1 model Ref. 56
gray line and TIP4P-FQ model Ref. 6 dashed line. b The CC model
Ref. 45 dashed line and the PPC model Ref. 58 gray line. c The
NCC-Vib model gray line Ref. 57.
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9158
the time step used was three times smaller than other studies
0.05 fs. Second this calculation used a plane wave cutoff
of the pseudopotential for oxygen of 80 Ry, which is necessary to reliably calculate pressure in water, which was the
purpose of the PBE study.62
The positive aspects of the PBE simulation reported in
Ref. 62 is that it gets peak positions spot on, and the distorted magnitudes and shape of g OO(r) might improve with
longer simulation runs. Currently, however, we suspect that
the system had not reached an equilibrated state in this short
amount of simulation time, and therefore that statistics collected over 2 ps have not given converged results. We think
the reported ambient g OO(r) from this simulation shows residual structure from its history, i.e., the 0.9 g/cc low
density state that is also known to give greater magnitudes in
peak positions that arise from local regions of relatively high
density.68 This was partly confirmed by a more recent ab
initio simulation that was started from the simulation reported in Ref. 62 final temperature and density of 300 K, 1.0
g/cc, heated to 600 K then cooled to T300 K, and at all
stages maintaining a density of 1.0 g/cc. The average ionic
temperature is 294 K. The 6.4 ps simulation results shown in
Fig. 9b show much improvement relative to the original
data reported in Ref. 62, and will be analyzed further in
Ref. 63.
In the case of the ab initio simulations using the
gradient-corrected BLYP functional,61 the originally reported
g OO(r) was derived from a simulation that was based on a 32
water molecule configuration taken from a TIP4P classical
simulation. The system was equilibrated with a thermostat
for approximately 0.5 ps, and then data was collected with
the thermostat off for 5 ps with an average ionic temperature
of 303 K. More recently, an ab initio simulation8 with 64
water molecules reports a new g OO(r) derived from a configuration taken from a body-centered cubic lattice with random orientations, equilibrated with a thermostat for an unreported length of time, and then data was collected with the
thermostat off for 10 ps, giving an average ionic temperature
of 318 K.
The comparison of the 32 water and 64 water molecule
BLYP functional simulations to our ALS data as well as past
experiments,35 is complicated by both finite size effects and
higher temperatures, and it is worthwhile discussing these
well-known effects on structure that can be found in the classical simulation literature.6972 We show in Fig. 10 a simulation with the TIP4P-FQ model for 512 waters at two different temperatures: 298 K and at 318 K Fig. 10a as well
as differences in g OO(r) due to finite size effects by considering 32, 64, and 512 waters at 298 K Fig. 10b. We chose
the polarizable water model since the interaction potential
complexity mimics the electronic distortion seen in an ab
initio simulation, unlike the nonpolarizable water models,
giving us a better idea how temperature and finite size effects
may influence the ab initio results. As we see from Fig.
10a, higher temperatures result in an overall softening of
the structure, with diminishment of the first and second peak,
and a rise in the first minimum. As seen in Fig. 10b the
structural distortions due to finite size effects are significant
for 32 water molecules, but largely disappear for system
Sorenson et al.
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CONCLUSION
9159
TABLE I. g OO(r) of various nonpolarizable and polarizable effective potential models of water, ab initio simulations, and experiments. Data is listed
as r, g OO(r) pairs.
g OO(r)
SPCa
SPCb
TIP3Pc
TIP4Pc
TIP5Pd
TIP4P-FQe
CCf
NCC-vibg
PPCh
TIP4P-Pol-1i
ST2j
ST4k
CPMD 32l
CPMD 64m
LLNL 54n
New LLNLo
Narten
and Levyp
Soper
and Phillipsq
Soper et al.r
ALSs
1st
peak
2.77,
2.75,
2.77,
2.76,
2.73,
2.79,
2.77,
2.74,
2.77,
2.71,
2.83,
2.83,
2.76,
2.78,
2.71,
2.78,
2.84,
2.82
3.07
2.69
2.98
2.87
3.07
3.52
2.89
3.04
3.04
3.20
3.00
2.62
2.35
3.17
2.60
2.18
1st
minimum
3.49,
3.31,
3.53,
3.36,
3.37,
3.32,
3.25,
3.27,
3.38,
3.31,
3.48,
3.43,
3.37,
3.32,
3.36,
3.47,
3.45,
0.91
0.80
0.94
0.82
0.78
0.83
0.73
0.67
0.82
0.75
0.67
0.74
0.64
0.83
0.50
0.69
0.83
2nd
peak
4.53,
4.49,
4.63,
4.40,
4.47,
4.43,
4.60,
4.41,
4.48,
4.37,
4.61,
4.59,
4.31,
4.39,
4.44,
4.52,
4.50,
5.70,
5.65,
5.77,
5.60,
5.60,
5.58,
5.66,
5.61,
5.65,
5.56,
5.71,
5.82,
5.55,
5.47,
5.56,
5.58,
5.55,
0.93
0.90
0.96
0.91
0.89
0.84
0.86
0.84
0.89
0.87
0.86
0.90
0.75
0.84
0.78
0.88
0.87
3rd
peak
6.85,
6.83,
6.81,
6.71,
6.72,
6.73,
6.99,
6.71,
6.81,
6.67,
6.91,
6.89,
6.68,
6.56,
6.69,
6.80,
6.86,
1.04
1.05
1.03
1.05
1.05
1.09
1.06
1.08
1.05
1.06
1.09
1.05
1.24
1.06
1.16
1.12
1.07
2.88, 3.09 3.33, 0.73 4.50, 1.14 5.68, 0.88 6.75, 1.07
2.79, 2.25 3.49, 0.78 4.48, 1.15 5.51, 0.89 6.72, 1.06
2.73, 2.83 3.41, 0.79 4.44, 1.13 5.51, 0.86 6.66, 1.07
Reference 39.
Reference 41.
c
Reference 40.
d
Reference 53.
e
Reference 6.
f
Reference 45.
g
Reference 57.
h
Reference 58.
i
Reference 56.
j
Reference 52.
1.04
1.11
1.00
1.09
1.15
1.17
1.13
1.17
1.10
1.16
1.18
1.10
1.27
1.17
1.37
1.20
1.15
2nd
minimum
Reference 7.
Reference 61.
m
Reference 8.
n
Reference 62.
o
Reference 63.
p
Reference 3.
q
Reference 4.
r
Reference 5.
s
Reference 18.
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9160
Sorenson et al.
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