Hydrophobicity is a phenomenon of great importance in biology, chemistry, and biochemistry. It is defined as the interaction between nonpolar molecules or groups in water and their low solubility. Hydrophobic interactions affect many processes in water, for example, complexation, surfactant aggregation, and coagulation. These interactions play a pivotal role in the formation and stability of proteins or biological membranes. In the present study, we assessed the effect of ionic strength, solute size, and shape on hydrophobic interactions between pairs of nonpolar particles. Pairs of methane, neopentane, adamantane, fullerene, ethane, propane, butane, hexane, octane, and decane were simulated by molecular dynamics in AMBER 16.0 force field. As a solvent, TIP3P and TIP4PEW water models were used. Potential of mean force (PMF) plots of these dimers were determined at four values of ionic strength, 0, 0.04, 0.08, and 0.40 mol/dm3, to observe its impact on hydrophobic interactions. The characteristic shape of PMFs with three extrema (contact minimum, solvent-separated minimum, and desolvation maximum) was observed for most of the compounds for hydrophobic interactions. Ionic strength affected hydrophobic interactions. We observed a tendency to deepen contact minima with an increase in ionic strength value in the case of spherical and spheroidal molecules. Additionally, two-dimensional distribution functions describing water density and average number of hydrogen bonds between water molecules were calculated in both water models for adamantane and hexane. It was observed that the density of water did not significantly change with the increase in ionic strength, but the average number of hydrogen bonds changed. The latter tendency strongly depends on the water model used for simulations.
Hydrophobicity is a phenomenon of great importance in biology, chemistry, and biochemistry. It is defined as the interaction between nonpolar molecules or groups in water and their low solubility. Hydrophobic interactions affect many processes in water, for example, complexation, surfactant aggregation, and coagulation. These interactions play a pivotal role in the formation and stability of proteins or biological membranes. In the present study, we assessed the effect of ionic strength, solute size, and shape on hydrophobic interactions between pairs of nonpolar particles. Pairs of methane, neopentane, adamantane, fullerene, ethane, propane, butane, hexane, octane, and decane were simulated by molecular dynamics in AMBER 16.0 force field. As a solvent, TIP3P and TIP4PEW water models were used. Potential of mean force (PMF) plots of these dimers were determined at four values of ionic strength, 0, 0.04, 0.08, and 0.40 mol/dm3, to observe its impact on hydrophobic interactions. The characteristic shape of PMFs with three extrema (contact minimum, solvent-separated minimum, and desolvation maximum) was observed for most of the compounds for hydrophobic interactions. Ionic strength affected hydrophobic interactions. We observed a tendency to deepen contact minima with an increase in ionic strength value in the case of spherical and spheroidal molecules. Additionally, two-dimensional distribution functions describing water density and average number of hydrogen bonds between water molecules were calculated in both water models for adamantane and hexane. It was observed that the density of water did not significantly change with the increase in ionic strength, but the average number of hydrogen bonds changed. The latter tendency strongly depends on the water model used for simulations.
Hydrophobicity is a
property of considerable importance in biology,
chemistry, and biochemistry. It is defined as low affinity for water
or even the avoidance of water by certain molecules or substances.
Hydrophobic interactions refer to water-mediated interactions of hydrophobic
particles in an aqueous environment, and these interactions are involved
in many processes in an aqueous solution, particularly complexation,
surfactant aggregation, and coagulation.[1,2] Hydrophobic
interactions also play a crucial role in the formation and stability
of proteins, biological membranes, and micelles. Hydrophobic effects
have a significant effect on molecular recognition, detergency, and
formation of gas clathrates.[1,3−5] It is hypothesized that hydrophobic interactions play a pivotal
role in the initiation of protein-folding process.[6−8] It is assumed
that one of the initial steps of this process occurs in the protein
fragment with the greatest number of nonpolar residues and that hydrophobic
interactions lead to protein folding.[6−8]When hydrophobic
interactions occur, van der Waals interactions
take place between nonpolar compounds and some specific changes in
water structure. Once the molecules come closer to each other, the
number of water particles in contact with them decreases. Moreover,
these structural changes significantly contribute to free energy.[1] Hydrophobic interactions are categorized as solvent-induced
interactions.[3,5,9] In
this context, hydrophobicity could be characterized by the free energy
of association or alternatively by changes in the free energy as a
function of the distance between a pair of nonpolar molecules in an
aqueous solution.[1,3]Experimental techniques
such as X-ray or neutron scattering and
other measurements provide some thermodynamic data for determining
hydrophobicity.[10−16] Experimental methods, however, encounter difficulties because of
low solubility of nonpolar substances in water, except for a homologous
series of compounds with nonpolar tails and polar heads.[1] Because of these issues, hydrophobic interactions
cannot be measured directly. Hence, computational methods are widely
used to study this property.[2,3]The size and shape
of interacting particles and temperature have
a significant effect on hydrophobicity. Around room temperature, the
entropy contribution prevails in hydrophobic effects for small molecules,
but for larger ones, the enthalpic term is dominant. The solubility
of small nonpolar particles in water decreases with increasing temperature
and increases with the decline in temperature. Moreover, the entropy
term is less significant than the energetic one at higher temperatures.[2,17−19] Extensive research has been conducted on the relationship
between hydrophobicity and temperature as well as between hydrophobicity
and the size of nonpolar particles. The hydrophobic effect is greater
for large molecules than for small ones because of the greater number
of interaction centers.[20,21] Previous studies have
shown that not all particles should be treated as a macroscopic or
a classical small hydrophobic object. For example, neopentane is too
small to be treated as macroscopic, while fullerene and adamantane
are too large to be considered as classical small objects but too
small to be considered as macroscopic.[2,3]The solubility
of nonpolar molecules is determined by the balance
of two factors: the excluded volume entropy change because of cavity
formation in water and the direct solute–solvent van der Waals
interactions. The first factor depends only on the solute size and
leads to low solubility of nonpolar particles in water. However, solubility
is also determined by the strength of the direct solute–solvent
van der Waals interactions and induced dipole interactions. Some calculations
were also conducted in vacuo, and it was confirmed that the potential
of mean force (PMF) plot for nonpolar particles has a characteristic
shape for Lennard–Jones-like interactions.[2,3,22]It has been found that the solvent
contribution to the PMF changes
from negative for small molecules, through nearly zero for isobutane
or neopentane, to positive for large molecules. The structure of water
in the vicinity of nonpolar dimers was also analyzed. Weak ordered
structure of the first hydration shell was observed. Hydrogen bonds
involving the water molecules near the solute particles were smaller
but stronger than those for bulk water.[2,3] Other studies
were focused on temperature-dependent hydrophobic interactions. It
was argued that these interactions could be entropy- or energy-driven.
According to these studies, the hydrophobic interactions are entropy-driven
for fullerene, while they are energy-driven for neopentane or adamantane.[5]Generally, most of the studies on hydrophobicity
are focused on
PMFs for two nonpolar molecules in water,[23−27] their relationship with temperature[10,18,20,21,28−30] and pressure,[31−34] determination of thermodynamical properties of nonpolar particles,[35−37] and influence of cosolvents on hydrophobic interactions.[38]It was concluded that the presence of
NaCl precipitates methane
because of unfavorable solute–solvent change of entropy.[39] Furthermore, fluctuations in the density of
water molecules around the solute were intensively studied.[40]There are only few studies on the influence
of the ionic strength
of the solution or on the salt effects on hydrophobic interactions.[41−44] It is well known that the solubility of nonpolar particles decreases
in the presence of salts.[45] The following
two types of ions are thought to exist: the “kosmotropes”
and the “chaotropes.” The kosmotropes enhance the hydrophobic
effect by tightening the structure of water around the ions. Conversely,
the chaotropes weaken this effect by disordering the structure of
water around the ions. Because of these contrasting effects, the kosmotropes
probably stabilize proteins and the chaotropes destabilize them. Two
factors determine which ions belong to these groups, namely, the ionic
charge and size.[46−51] For example, according to this theory, sodium chloride is a weak
kosmotrope.[52] As affirmed later, this explanation
was only an approximation. It should be noted that ions can have specific
interactions with solutes.[53] The increasing
magnitude of hydrophobic attraction between the methane molecules
in the presence of salts and their decreased solubility was confirmed.
Other studies have also focused on salt effects on methane solutions
in water.[41,43,51,54] For methane dimers, the contribution of salts to
the solvation free energy was enthalpic at low temperatures but became
entropic at temperatures higher than 390 K.[51] In the presence of salts, the structure of water around the solute
molecules was less ordered than that in pure water. It was found that
although H-bonds are almost identical in water with salts, there is
a large amount of broken H-bonds in the hydration shell of methane.
An increase in free energy of the solution was also observed.[41,42]The development of the theory of hydrophobicity has a long
history.
Initially, it was postulated that water molecules around a nonpolar
molecule displace into an “iceberg,” and this theory
was then further elaborated.[55] It was then
noted that the role of water molecules in attraction between nonpolar
molecules is greater than direct van der Waals interactions between
those particles. The existing models, which explained hydrophobic
interactions based on entropic or enthalpic effects, consider charge
fluctuations or dipole interactions. It is argued that short-range
attraction is the only force between small hydrophobic surfaces and
that multibody interactions are also important for large hydrophobic
surfaces.[40,56,57] There are
many models on the relationship between solute size and its shape
and hydrophobic effects. Solute size and shape affect, for example,
entropy, Gibbs hydration free energy, enthalpy, and finally, depth
of the PMF.[3] It was found that PMF for
large particles is less deep because of stronger solute–water
interactions. Furthermore, it was confirmed that transfer of small
solutes into water required large positive heat capacity, while no
such large changes in heat capacity or entropy were required for transfer
of large solutes.[17] A broader discussion
on models was included in studies that focused on the relationships
between hydrophobic theories.[1,3,57,58] Zangi et al. investigated the
influence of different salts on hydrophobic interactions. They found
that high-charge density ions strengthen the hydrophobic interactions
between hydrophobic surfaces and low-charge density ions weaken these
interactions.[59] In the present work, we
focused only on the influence of sodium chloride, as an example of
a simple salt, on hydrophobic interactions of nearly spherical and
spheroidal particle dimers. Studies relevant to salt effect on macromolecular
collapse such as protein folding or polymer collapse can be found
in the literature.[60] The purpose of our
study was to determine how the presence of the ions that are present
at physiological conditions influences hydrophobic association. The
ions that are predominant in body fluids are the chloride cations
(approx. 142 mmol/dm3) and sodium anions (approx. 103 mmol/dm3). Next in abundance is the hydroxycarbonate anion with the
content of 27 mmol/dm3, followed by K+ with
5 mmol/dm3 content, while the other ions have 2.5 mmol/dm3 or less content.[61] In view of
this, restricting the study to NaCl solutions seems to be a reasonable
choice. To the best of our knowledge, such type of studies present
in this work have never been done before.Taken together, hydrophobic
interactions and the presence of salts
can significantly affect protein stability. This is especially important
in protein structure predictions. Considering the influence of ionic
strength on hydrophobicity can help in developing theoretical methods
for protein structure predictions and for studying protein-folding
processes, particularly, using the coarse-grained models.In
the present paper, we assess how the ionic strength, size, and
shape of nonpolar molecules together affect hydrophobic interactions.
The dimers of methane, neopentane, adamantane, fullerene, ethane,
propane, butane, hexane, octane, and decane were simulated by umbrella
sampling molecular dynamics (MD) in water under different conditions
and ionic strength values. The PMFs of these dimers were determined,
analyzed, and discussed.
Methods
Series of umbrella sampling
MD simulations were performed by sampling
of the configurational space (necessary in the umbrella sampling method).
Simulations were then performed for the hydrophobic dimers of methane,
neopentane, adamantane, fullerene C60, ethane, propane,
butane, hexane, octane, and decane molecules. Each dimer was immersed
in a periodic TIP3P[62] and for comparison
in TIP4PEW[63] water boxes with sides around
60 and 59 Å, respectively. MD simulations were performed in two
steps. The same procedures were used for both solvent models. First,
each system was equilibrated under the NPT conditions
(constant number of particles, constant pressure, and constant temperature)
at T = 298 K and p = 1 atm for 500
ps. In the second step, the last configuration obtained in the first
step was used as the starting point to conduct NVT ensemble simulations (constant number of particles, constant volume,
and constant temperature) at T = 298 K for 5000 ps.
The integration time step was 2 fs. For all nonbonded interactions,
a 10 Å cutoff was used, and the electrostatic energy was estimated
by the particle-mesh Ewald summation.[64] For all dimers, a series of 11 windows (15 windows for fullerene)
of 5 ns simulation per window was run. Every window had a different
harmonic restraint potential (eq ) enforced on the distance (ξ) between two atoms (one
from each molecule in dimer) that are closest to the center of the
mass of each of the particlewhere k is the force constant
(k = 2 kcal/mol/Å2) and d0 is the equilibrium distance for each pair (equals to
4.0, 5.0, 6.0, ..., 14.0 Å for all dimers for windows 1–11
and to 18 Å for fullerene for windows 1–15). The snapshots
from MD simulations were saved every 0.2 ps. A total of 25,000 configurations
were generated for each window.The simulations were performed
with the homodimer of nonpolar molecules
and 7022 water molecules. Simulations with ions were also included
and consisted of (1) dimer, 7012 water molecules, 5 Na+, and 5 Cl– ions; (2) dimer, 7002 water molecules,
10 Na+, and 10 Cl– ions; and (3) dimer,
6922 water molecules, 50 Na+, and 50 Cl– ions. This enabled us to study the influence of ionic strength on
hydrophobic interactions. The ionic strength values were equal to
0.04, 0.08, and 0.40 mol/dm3.In our calculations,
we assumed the charges on the atoms of solute
molecules needed for AMBER 16.0[65] as zero.
The AMBER atom types used in MD simulations were CT (denotes sp3 aliphatic carbon atom) for all carbonatoms and HC (denotes
hydrogen atom attached to the aliphatic carbon atom) for all hydrogen
atoms.To determine the PMF, the results from each window were
processed
using the weighted histogram analysis method (WHAM).[66,67] One-dimensional histograms (dependent only on the distance between
the geometric centers of interacting particles) were plotted; thus,
the histograms were averaged over all possible orientations. The calculated
PMFs should tend to become 0 with increasing distance (after subtracting
the constant factor accounting for the hydrophobic hydration free
energy of the isolated solute molecule). The PMF baseline value was
computed as the average of the PMF distance past 12 Å for neopentane,
methane, and adamantane, past 11 Å for ethane, propane, butane,
hexane, octane, and decane, and past 16 Å for fullerene.Additionally, a sample plot was prepared to show the dependence
of the PMF on the number of configurations collected from each window
for adamantane dimer at the ionic strength of 0 mol/dm3. Figure shows that
when the number of configurations increases, convergence is gained.
The plots overlap in both TIP3P (Figure a) and TIP4PEW (Figure b) water models.
Figure 1
Overlap PMF of adamantane
at ionic strength 0 mol/dm3 for 6250 (25%), 12,500 (50%),
18,750 (75%), and 25,000 (100%) configurations
in (a) TIP3P and (b) TIP4PEW water models.
Overlap PMF of adamantane
at ionic strength 0 mol/dm3 for 6250 (25%), 12,500 (50%),
18,750 (75%), and 25,000 (100%) configurations
in (a) TIP3P and (b) TIP4PEW water models.We also assayed water structure in the proximity of solute molecules.
For PMF calculations, only cartesian coordinates of the solute were
stored in our MD simulations. Therefore, to determine the density
and number of hydrogen bonds of water molecules near the solutes,
additional 5 ns simulations were performed for adamantane and hexane
in both TIP3P and TIP4PEW water models (cartesian coordinates of all
atoms were stored every 0.2 ps this time). To keep monomers at distances
of contact minima and solvent-separated minima, harmonic restraints
were enforced. The positions of contact minima and solvent-separated
minima were as follows: for adamantane, 6.6, 10.0 Å at IS = 0
mol/dm3 and 6.6, 10.1 Å at IS = 0.40 mol/dm3 in the TIP3P water model and 6.7, 9.8 Å at IS = 0 mol/dm3 and 6.7, 9.7 Å at IS = 0.40 mol/dm3 in the
TIP4PEW model; for hexane, 4.8, 7.8 Å at IS = 0 mol/dm3 and 4.7, 7.7 Å at IS = 0.40 mol/dm3 in the TIP3P
water model and 4.9, 7.9 Å in the TIP4PEW model for both ionic
strength values. All distributions were expressed in cylindrical coordinates h (passing through the line connecting the centers of the
solute molecules) and r (perpendicular to axis h) and were averaged over the azimuthal angle. We computed
the distribution over all points of the two-dimensional grid in h and r of water molecule density and the average
number of hydrogen bonds between water particles (based on oxygen–oxygen
distance not greater than 3.5 Å and H–O···O
angle smaller than 30°). Two-dimensional maps for all distributions
were prepared with 0.2 Å grid. Technical details can be found
elsewhere.[2,3,68]
Results and Discussion
PMF
Figure shows the
results of calculations of the PMF at different
ionic strength values for adamantane dimer in the TIP3P (a) and TIP4PEW
(b) water models and for hexane dimer in the TIP3P (c) and TIP4PEW
(d) water models using the umbrella sampling/WHAM method. PMF plots
for methane, neopentane, fullerene, ethane, propane, butane, octane,
and decane dimers are included in the Supporting Information (Figures S1–S8).
Figure 2
PMFs at different ionic
strength values for adamantane dimer in
(a) TIP3P and (b) TIP4PEW water models and for hexane dimer in (c)
TIP3P and (d) TIP4PEW water models.
PMFs at different ionic
strength values for adamantane dimer in
(a) TIP3P and (b) TIP4PEW water models and for hexane dimer in (c)
TIP3P and (d) TIP4PEW water models.For most of the compounds, PMF plots exhibited characteristic shapes
with two minima and one maximum. The first minimum, the deepest one,
is referred to as the contact minimum (CM). It occurs at approximately
3.9, 5.8, 6.6, 10.0, 4.5, 5.0, 5.1, 4.8, 4.9, and 4.7 Å corresponding
to methane, neopentane, adamantane, fullerene, ethane, propane, butane,
hexane, octane, and decane, respectively, in the TIP3P water model.
In the TIP4PEW model, the situation is similar, and the positions
of minima are the same or slightly shifted by approximately 0.1–0.2
Å. In both solvent models, the position of CM changes slightly
when the ionic strength varies. The deepest CM for nearly spherical
particles is observed for fullerene with a depth of around −3.5
to −3.94 kcal/mol depending on the ionic strength value in
the TIP3P model and −2.84 to −4.93 kcal/mol in the TIP4PEW
model (Figure S3). For ethane, propane,
and butane, the depth of CM in the TIP3P model is similar and is around
−0.7 to −1.0 kcal/mol depending on the ionic strength
value (Figures S4–S6), and for longer
hydrocarbons, that is, hexane, octane, and decane, the average depth
of CM is −1.1, −1.5, and −1.8 kcal/mol, respectively
(Figures c,f, S7 and S8). In TIP4PEW, CM is shallower than
that in TIP3P (under the same ionic strength conditions) for each
spherical (methane, neopentane, adamantane, and fullerene) and spheroidal
(ethane, propane, butane, hexane, octane, and decane) compound.The second minimum corresponds to distances at which one water
molecule enters the space between two interacting particles and is
called solvent-separated minimum (SSM). In the TIP3P model, SSMs occur
at distances of 7.3, 9.2, 10.0, 13.6, 7.8, 8.7, and 9.2 Å for
methane, neopentane, adamantane, fullerene, ethane, propane, and butane,
respectively. These positions differ maximally by 0.3 Å depending
on the ionic strength value. For hexane, octane, and decane, it is
difficult to define SSM precisely (Figures c,d, S7 and S8). In the TIP4PEW water model, the positions of SSMs differ from
those in TIP3P by around 0.1–0.3 Å. Interestingly, for
fullerene, it is difficult to define the position of SSM in the TIP4PEW
model compared to that in the TIP3P model. In the PMF of butane in
the TIP4PEW model, SSM can be defined at IS = 0, 0.04 and 0.08 mol/dm3. In contrast, there are difficulties to precisely define
SSM at IS = 0.40 mol/dm3. For hexane, octane, and decane,
the situation is the same as that in the TIP3P water model, that is,
SSMs could not be defined.The third characteristic feature
of the PMF plot is the maximum
located between CM and SSM. It corresponds to desolvation maximum.
This maximum is observed for most of the investigated dimers and occurs
in the TIP3P model at distances of 5.8, 7.9, 8.7, 12.0, 6.4, 6.9,
and 7.6 Å for methane, neopentane, adamantane, fullerene, ethane,
propane, and butane, respectively. As noted earlier, the maximum positions
differ according to the ionic strength value. For hexane, octane,
and decane, the situation is similar to that observed for SSM, that
is, it is difficult to define the maximum. As observed for CM and
SSM, the position of desolvation maximum in TIP4PEW differs slightly
from that in TIP3P. CM, SSM, and desolvation maximum are shifted to
longer distances when the size of nearly spherical particles increases,
and the depths of these extrema become deeper. This finding has also
been confirmed in previous studies.[2,3,5] In the PMF plots of spherical particles (methane,
neopentane, adamantane, and fullerene), the influence of ionic strength
was observed. When sodium and chloride ions are present in water,
CM depths increase in every case. The situation is the same in the
TIP4PEW water model for smaller particles (methane and neopentane),
but for fullerene and adamantane, the PMF plots are more indented
[Figure in TIP3P
(a) and TIP4PEW (b) water models, respectively]. Figure a,b shows the dependence of
CM depth on the number of carbon atoms in models of spherical particles
at different ionic strength values. The findings confirmed a tendency
to deepen CM in the presence of salts in solution in the TIP3P water
model. It was concluded that with the increase in ionic strength,
there is greater tendency of hydrophobic interactions between those
dimers than the existence of two isolated monomers. This implies that
hydrophobic interactions are stronger. The situation is slightly different
in the TIP4PEW model. The slope of correlation decreases for nearly
spherical particles. However, this correlation is grounded mostly
on the difference between fullerene and the remaining particles. The
slope of correlation increases (in absolute value) with the increase
in the ionic strength value after excluding fullerene from the statistics,
with the exception of IS = 0.04 M (Figure S9). It is worth noting that fullerene is much larger in size than
the remaining studied compounds. It was also previously proven that
fullerene cannot be treated as a classical hydrophobic particle.[2]
Figure 3
Dependence of depth of contact minima (with standard deviations
as error bars) in PMF at different values of ionic strength on the
number of carbon atoms in spherical molecules in (a) TIP3P and (b)
TIP4PEW water models and for spheroidal molecules in (c) TIP3P and
(d) TIP4PEW water models.
Dependence of depth of contact minima (with standard deviations
as error bars) in PMF at different values of ionic strength on the
number of carbon atoms in spherical molecules in (a) TIP3P and (b)
TIP4PEW water models and for spheroidal molecules in (c) TIP3P and
(d) TIP4PEW water models.The depth of SSM mostly increases when salts are present in solution,
especially at the highest value of ionic strength. Generally, the
heights of desolvation maxima become lower when the ionic strength
values increase. The only exception is fullerene, where changes of
desolvation maxima are within error bars. However, as we mentioned
before, fullerene is a much bigger particle than the remaining compounds
considered in this work and cannot be treated as a classical hydrophobic
one. Desolvation energy barriers could be defined as heights of desolvation
maxima (counting from baseline y = 0). It was observed
that the barrier decreases when salts are present in solution (Figure a) (again with exception
of fullerene). The largest decline is observed when the ionic strength
value is greater than the physiological one and is equal to 0.40 mol/dm3. The second approach to desolvation energy barrier assumed
that this barrier is calculated as the difference between the CM depth
and the height of desolvation maximum. In our case, this analysis
showed that for smaller molecules, such as methane, adamantane, and
neopentane, changes in barrier were not so significant as those for
fullerene (Figure c). It was observed that barriers differed slightly or were comparable
at different ionic strength values for methane and adamantane. For
neopentane, the barrier was higher with the increase in ionic strength.
However, for fullerene, the barrier first increases, and at IS = 0.40
mol/dm3, it decreases to a value lower than that at IS
= 0 mol/dm3; this further confirms that fullerene cannot
be treated as a classical hydrophobic molecule.[2]
Figure 4
Dependence of desolvation energy barrier (with standard deviations
as error bars) calculated as a height of desolvation maximum (counting
from baseline y = 0) on the number of carbon atoms
in spherical molecules in (a) TIP3P and (b) TIP4PEW water models and
calculated as difference between the CM depth and the height of desolvation
maximum on the number of carbon atoms in spherical molecules in (c)
TIP3P and (d) TIP4PEW water models.
Dependence of desolvation energy barrier (with standard deviations
as error bars) calculated as a height of desolvation maximum (counting
from baseline y = 0) on the number of carbon atoms
in spherical molecules in (a) TIP3P and (b) TIP4PEW water models and
calculated as difference between the CM depth and the height of desolvation
maximum on the number of carbon atoms in spherical molecules in (c)
TIP3P and (d) TIP4PEW water models.In the TIP4PEW water model, the desolvation energy barrier, counting
from baseline y = 0, increases with the increase
in ionic strength (Figure b), but the barrier defined as the difference between the
CM depth and the desolvation maximum height decreases (Figure d).For spheroidal-shaped
compounds (ethane, propane, butane, hexane,
octane, and decane), the PMF plots are slightly deformed. CM is well
observed, but SSM and desolvation maxima are not so broad. They become
more unclear with the increase in the length of carbon chain, regardless
of the ionic strength of solution in both water models. This is presumably
caused by the computational assumption, that is, PMFs were averaged
over all orientations. However, such assumption does not affect the
results for nonpolar particles.[69]Higher ionic strength values and changes in the length of carbon
chain of interacting particles result mostly in deeper CM (Figure c,d). This shows
stronger hydrophobic interactions in the presence of salts, which
is consistent with nearly spherical molecules. The situation is opposite
only for ethane and octane. Changes at IS = 0.08 mol/dm3 are unpredictable and differ from those observed at other ionic
strength values. The situation is similar for the TIP4PEW model, wherein
the slope of correlation increases with the increase in ionic strength
(from 0.092 at IS = 0 mol/dm3 to 0.159 at IS = 0.40 mol/dm3).Figure for the relationship between the desolvation
barrier and
the number of carbon atoms for spheroidal molecules cannot be created
because PMF plots were deformed for longer hydrocarbons, as mentioned
earlier.It is worth noting that in the PMF plots from the TIP4PEW
water
model, we noted the presence of the second maximum after SSM. It is
visible in the PMF plots of methane, neopentane, adamantane, ethane,
propane, and butane.
Distribution of Water Molecule Density and
Hydrogen Bonds
Two-dimensional distribution functions describing
water density
and average number of hydrogen bonds between water molecules were
calculated.Figures S10–S13 show the two-dimensional maps of the normalized distribution function
of water density around adamantane (represents spherical particles)
and hexane (represents spheroidal particles) dimers at two selected
distances between the center of molecules (for adamantane, 6.6, 10.0
Å at IS = 0 mol/dm3 and 6.6, 10.1 Å at IS = 0.40
mol/dm3 in the TIP3P water model and 6.7, 9.8 Å at
IS = 0 mol/dm3 and 6.7, 9.7 Å at IS = 0.40 mol/dm3 in the TIP4PEW model; for hexane, 4.8, 7.8 Å at IS =
0 mol/dm3 and 4.7, 7.7 Å at IS = 0.40 mol/dm3 in the TIP3P water model and 4.9, 7.9 Å in the TIP4PEW model
for both ionic strength values) which correspond to the positions
of CM and SSM. SSM for hexane dimer was imposed by adding 3 Å
to the CM distance [because of the size (diameter) of water particle
entering the space between dimer plus some additional space]. The
first solvation sphere for adamantane has lower density than that
for bulk water at both ionic strengths, 0 and 0.40 mol/dm3, in the TIP3P water model. There is quite a large space in contact
with the solute particles in which the density of water is lower than
0.5. A similar situation was observed in the water density map for
hexane (Figures S12 and S13). In the TIP4PEW
model (Figures S11 and S13), large differences
compared to the TIP3P model (Figures S10 and S12) cannot be observed. On the basis of these maps (Figures S10–S13), it can be concluded that solutes
experienced water-mediated repulsive interactions, which was confirmed
in the studies of Ben-Amotz.[70]Figures –8 show the
cylindrical distribution of the average number of hydrogen bonds between
water molecules around adamantane (Figures and 6) and hexane
(Figures and 8) dimers. In the TIP3P model (Figures and 7), the average
number of H-bonds between water molecules in the solvation sphere
of adamantane dimer is lower than that in bulk water. Moreover, the
number of broken hydrogen bonds in the space between solute molecules
is much greater than that in bulk water. This is particularly visible
in the map corresponding to the CM of adamantane. At IS = 0.40 mol/dm3, some differences were observed. The number of H-bonds is
also slightly lower than that in bulk water at longer distances from
solute molecules. It was also observed that for maps corresponding
to SSM, the number of H-bonds in the space between solute particles
is lower than that in bulk water at broader space than at IS = 0 mol/dm3. For the hexane dimer, similar relationships as those for
adamantane are observed at both IS = 0 and 0.40 mol/dm3. However, more broken H-bonds in the space between dimers are observed
in the hexane dimer than in the adamantane dimer. This is due to the
spherical shape of adamantane and the spheroidal shape of hexane.
Figure 5
Distribution
of average number of hydrogen bonds between water
molecules in the vicinity of adamantane dimer at IS = 0 mol/dm3 at distances between solute particles of (a) 6.6 Å (CM)
and (b) 10.0 Å (SSM) and at IS = 0.40 mol/dm3 at distances
between solute particles (c) 6.6 Å (CM) and (d) 10.1 Å (SSM)
in TIP3P water model. The color scale is shown above the maps, and
the average number of H-bonds for bulk water is displayed as white.
Figure 8
Distribution of average number of hydrogen bonds between
water
molecules in the vicinity of hexane dimer at IS = 0 mol/dm3 at distances between solute particles of (a) 4.9 Å (CM) and
(b) 7.9 Å (SSM) and at IS = 0.40 mol/dm3 at distances
between solute particles of (c) 4.9 Å (CM) and (d) 7.9 Å
(SSM) in TIP4PEW water model. The color scale is shown above the maps,
and the average number of H-bonds for bulk water is displayed as white.
Figure 6
Distribution of average number of hydrogen bonds between
water
molecules in the vicinity of adamantane dimer at IS = 0 mol/dm3 at distances between solute particles of (a) 6.7 Å (CM)
and (b) 9.8 Å (SSM) and at IS = 0.40 mol/dm3 at distances
between solute particles of (c) 6.7 Å (CM) and (d) 9.7 Å
(SSM) in TIP4PEW water model. The color scale is shown above the maps,
and the average number of H-bonds for bulk water is displayed as white.
Figure 7
Distribution of average number of hydrogen bonds between
water
molecules in the vicinity of hexane dimer at IS = 0 mol/dm3 at distances between solute particles of (a) 4.8 Å (CM) and
(b) 7.8 Å (SSM) and at IS = 0.40 mol/dm3 at distances
between solute particles of (c) 4.7 Å (CM) and (d) 7.7 Å
(SSM) in TIP3P water model. The color scale is shown above the maps,
and the average number of H-bonds for bulk water is displayed as white.
Distribution
of average number of hydrogen bonds between water
molecules in the vicinity of adamantane dimer at IS = 0 mol/dm3 at distances between solute particles of (a) 6.6 Å (CM)
and (b) 10.0 Å (SSM) and at IS = 0.40 mol/dm3 at distances
between solute particles (c) 6.6 Å (CM) and (d) 10.1 Å (SSM)
in TIP3P water model. The color scale is shown above the maps, and
the average number of H-bonds for bulk water is displayed as white.Distribution of average number of hydrogen bonds between
water
molecules in the vicinity of adamantane dimer at IS = 0 mol/dm3 at distances between solute particles of (a) 6.7 Å (CM)
and (b) 9.8 Å (SSM) and at IS = 0.40 mol/dm3 at distances
between solute particles of (c) 6.7 Å (CM) and (d) 9.7 Å
(SSM) in TIP4PEW water model. The color scale is shown above the maps,
and the average number of H-bonds for bulk water is displayed as white.Distribution of average number of hydrogen bonds between
water
molecules in the vicinity of hexane dimer at IS = 0 mol/dm3 at distances between solute particles of (a) 4.8 Å (CM) and
(b) 7.8 Å (SSM) and at IS = 0.40 mol/dm3 at distances
between solute particles of (c) 4.7 Å (CM) and (d) 7.7 Å
(SSM) in TIP3P water model. The color scale is shown above the maps,
and the average number of H-bonds for bulk water is displayed as white.Distribution of average number of hydrogen bonds between
water
molecules in the vicinity of hexane dimer at IS = 0 mol/dm3 at distances between solute particles of (a) 4.9 Å (CM) and
(b) 7.9 Å (SSM) and at IS = 0.40 mol/dm3 at distances
between solute particles of (c) 4.9 Å (CM) and (d) 7.9 Å
(SSM) in TIP4PEW water model. The color scale is shown above the maps,
and the average number of H-bonds for bulk water is displayed as white.The situation is quite different in the TIP4PEW
water model (Figures and 8). In the vicinity of solutes, the number
of hydrogen bonds
between water molecules is still lower than that in bulk water, but
it increases with the distance from the vicinity. This relationship
was observed for both adamantane and hexane at IS = 0 mol/dm3. At IS = 0.40 mol/dm3, the number of H-bonds around solute
molecules does not change, but at longer distances from solute particles,
there are more broken hydrogen bonds than that observed at lower ionic
strength values. Moreover, the structure of water (particles further
from solute) at IS = 0.40 mol/dm3 changes as the distance
between dimers increases. More H-bonds appear at the distance corresponding
to SSM.
Conclusions
PMF plots of 10 homodimers
of nonpolar particles, namely, methane,
neopentane, adamantane, fullerene, ethane, propane, butane, hexane,
octane, and decane, in two water models (TIP3P and TIP4PEW) were determined.
Most of the PMF plots showed a characteristic shape for hydrophobic
interactions with CM, SSM, and desolvation maxima. PMF plots were
deformed for longer hydrocarbons.It was observed that when
the ionic strength increases, the slope
of correlation between the CM depth and the number of carbon atoms
also increases, although with some exceptions. The same tendency was
observed for spherical and spheroidal particles. Furthermore, it was
confirmed that for larger particles, CM becomes deeper and their positions
are shifted toward longer distances.Both the salting-out effect
and constants (so-called Setschenow
constants)[71] determine the correlation
between the presence of salts in aqueous solution, solubility and
properties of organic compounds. Organic compounds such as organic
acids, aromatic and alkane hydrocarbons, and their chloro-derivative
are less soluble in electrolyte solutions then in pure water. This
phenomenon is correlated with molar volumes of organic compounds and
is greater for high concentration. The salting-out constants obtained
for sea water (natural and synthetic) and the solution of NaCl point
out similar salting-out properties (at the same concentration level).
Moreover, based on these results, the sea water salting-out factor,
described by the function of organic compounds molar volume, was suggested.
The reduction of organic solute solubility is equal to 1.36.[71,72] The same general tendency is observed for our group of compounds:
increasing the depth of CM according to the increase of ionic strength
values.Comparison between two water models, TIP3P and TIP4PEW,
shows that
the TIP3P model mostly enables calculations with higher or similar
correlation coefficient R2 to the TIP4PEW
model. According to the literature, the TIP4PEW water model (which
is more advanced than TIP3P) is more precise in predicting properties
of bulk water but less accurate in projecting hydration energies of
small particles than TIP3P.[73−75] Our results showed that the hydration
properties of water were sensitive to the choice of water model. The
choice of solvent model has a greater effect on the unfolded state
than on the folded state of peptides,[76] which is crucial in such studies. Experimental data could be helpful
in deciding which model is more reliable for hydrophobic interactions;
however, such data are currently unavailable. In our opinion (based
on the obtained results), the TIP3P model seems to be more suitable
for such type of studies.On the basis of two-dimensional distribution
functions describing
water density and average number of hydrogen bonds between water molecules,
it was observed that the increase in ionic strength does not change
the water density but changes the average number of H-bonds.
Authors: Hans W Horn; William C Swope; Jed W Pitera; Jeffry D Madura; Thomas J Dick; Greg L Hura; Teresa Head-Gordon Journal: J Chem Phys Date: 2004-05-22 Impact factor: 3.488
Authors: Halil I Okur; Jana Hladílková; Kelvin B Rembert; Younhee Cho; Jan Heyda; Joachim Dzubiella; Paul S Cremer; Pavel Jungwirth Journal: J Phys Chem B Date: 2017-02-08 Impact factor: 2.991
Authors: Mariusz Makowski; Emil Sobolewski; Cezary Czaplewski; Stanisław Ołdziej; Adam Liwo; Harold A Scheraga Journal: J Phys Chem B Date: 2008-08-14 Impact factor: 2.991