Todd R Zeitler1, Jeffery A Greathouse1, Julian D Gale2, Randall T Cygan1. 1. Sandia National Laboratories, Albuquerque, New Mexico 87185-0754, United States. 2. Nanochemistry Research Institute, Department of Chemistry, Curtin University , P.O. Box U1987, Perth, Western Australia 6845, Australia.
Abstract
We introduce a nonbonded three-body harmonic potential energy term for Mg-O-H interactions for improved edge surface stability in molecular simulations. The new potential term is compatible with the Clayff force field and is applied here to brucite, a layered magnesium hydroxide mineral. Comparisons of normal mode frequencies from classical and density functional theory calculations are used to verify a suitable spring constant (k parameter) for the Mg-O-H bending motion. Vibrational analysis of hydroxyl librations at two brucite surfaces indicates that surface Mg-O-H modes are shifted to frequencies lower than the corresponding bulk modes. A comparison of DFT and classical normal modes validates this new potential term. The methodology for parameter development can be applied to other clay mineral components (e.g., Al, Si) to improve the modeling of edge surface stability, resulting in expanded applicability to clay mineral applications.
We introduce a nonbonded three-body harmonic potential energy term for Mg-O-H interactions for improved edge surface stability in molecular simulations. The new potential term is compatible with the Clayff force field and is applied here to brucite, a layered magnesium hydroxide mineral. Comparisons of normal mode frequencies from classical and density functional theory calculations are used to verify a suitable spring constant (k parameter) for the Mg-O-H bending motion. Vibrational analysis of hydroxyl librations at two brucite surfaces indicates that surface Mg-O-H modes are shifted to frequencies lower than the corresponding bulk modes. A comparison of DFT and classical normal modes validates this new potential term. The methodology for parameter development can be applied to other clay mineral components (e.g., Al, Si) to improve the modeling of edge surface stability, resulting in expanded applicability to clay mineral applications.
Clays and clay minerals
are of noted interest in a variety of applied
fields, including environmental remediation,[1] high-level waste disposal,[2,3] and molecular sieve
catalysis,[4] because of their unique chemical
and physical properties. However, interactions of clay minerals with
the environment are complex and not fully understood on a molecular
level. The ultrafine grain size of clay minerals, typically less than
2 μm, limits the use of many conventional analytical methods
for their characterization. Additionally, the layered nature of clay
minerals typically creates stacking disorder, and numerous compositional
site substitutions and vacancies lead to challenges in structural
analysis. In recent years, molecular simulations have provided a supplemental
approach to more traditional methods for characterizing clay minerals
and evaluating associated geochemical processes.[5−12] A number of atomic-scale models have been proposed that have shown
excellent agreement with published experimental results.[7,13,14]Molecular models of minerals
are developed to replicate bulk structural
and physical properties, typically ignoring surface properties. Fortunately,
the basal (001) surfaces of many clay minerals are accurately described
and stable using the force field parameters derived from only bulk
behavior.[13,15] However, other clay mineral surfaces (“edge
surfaces”) are not typically stable using these classical-based
models; often nonsensical frayed mineral edges develop when the edge
surface is simulated in contact with an aqueous environment. In some
flexible models, where all atoms are allowed full translational motion,
surface hydroxyl groups may migrate away from the surface. One solution
to the problem of edge surface instability is adding constraints to
atoms on the immediate edge, bonding or tethering these atoms in order
to establish a stable surface.[16−18] Unfortunately, these unphysical
modifications do not accurately capture the dynamical properties of
clay edges.The goal of the current investigation is to develop
a new capability
for edge hydroxyl parametrization based on the Clayff force field,[13] resulting in improved structural integrity of
mineral edge structures while maintaining the flexibility of Clayff.
Specifically, we have examined the (11̅0) edge surface of Mg(OH)2 (brucite) to develop a suitable Mg–O–H three-body
potential energy term. This term will prevent instances of hydroxyl
group distortion and edge surface disruption, particularly for molecular
simulations involving clay edges in contact with an aqueous solution.
Additionally, the vibrational behavior of surface (and bulk) hydroxyl
groups is more accurately described. Brucite was chosen because of
its simple layer structure in which all surface hydroxyl groups have
identical local environments and orientations with respect to the
basal plane.Originally, Clayff was developed for classical
simulations of hydrated
mineral systems and is based on a parametrization involving structural,
spectroscopic, and density functional theory (DFT) data.[13] Clayff is considered a nonbonded force field
as most of the system energy is accounted for by Lennard-Jones and
electrostatic terms, while only a small part of the potential energy
is included in bonded terms; the O–H bond is the only explicit
bond used in Clayff applications. The lack of metal–oxygen
bonded terms in Clayff reduces the number of adjustable parameters,
yet the increased number of electrostatic and Lennard-Jones interactions
in a nonbonded force field is still manageable for simulation of large
model systems. Indeed, the capability of modeling large-scale and
more complex clay systems, often involving over 100,000 atoms, has
been demonstrated.[10,19−22]In order to preserve the
flexibility of Clayff, while introducing
a new term that can tether hydroxyl groups to metal atoms without
introducing unnecessary bonded terms, we have introduced a nonbonded
three-body term for Mg–O–H bending interactions. There
are no explicit bonds between Mg and O atoms, such that the Lennard-Jones
and electrostatic energies originally parametrized for Mg–O
are preserved. We have chosen a simple harmonic functional form Ebend = k(θ – θ0)2, where k is a spring constant
and θ0 is the equilibrium angle, with parameters
fit to structural and vibrational properties of brucite models derived
by DFT calculations. We note that this three-body term does not absolutely
prevent hydroxyl groups from leaving the surface during a molecular
dynamics (MD) simulation, but significant nonbonded attraction would
be required to overcome the harmonic Mg–O–H energy term
for such an event to occur. Our simulations of brucite surfaces in
an aqueous environment indicate that no hydroxyl groups leave the
surface. Surface hydroxyl groups unrealistically detach from the surface
when the three-body term is excluded.This new term is compatible
with the previous Clayff energy terms
and is applicable to all Mg–O–H interactions (within
a prescribed cutoff distance) in the brucite structure. In the original
parametrization of Clayff,[13] a nonstandard
nonbonded three-body term was used; however, it was found to be impractical
in many large-scale simulations because of difficulties in its implementation.
A nonbonded three-body term was recently developed for Mg–O–H
interactions on the (11̅0) hydrotalcite (Mg6Al2(OH)16CO3·4H2O) surface;
however, this implementation required parametrization of several other
Clayff terms for application to the specific hydrotalcite structure.[23] In this study, we also replace the O–H
bonded interaction with a recently developed Morse potential.[24] The Morse potential provides a description of
the O–H bond stretch interaction that is more accurate than
a harmonic function that describes an equivalent potential energy
response with either bond compression or bond extension.
Methods
The brucite model is based on the published crystal structure for
Mg(OH)2.[25] Brucite is comprised
of two-dimensional layers of single sheets of hydroxylated edge-sharing
Mg–O octahedra (Figure 1). Models of
brucite surfaces were derived from the bulk structure using the Materials
Studio software (Accelrys Inc.). The basal surface was created by
cleaving between layers along the (001) plane. The edge surface was
created by cleaving along the (11̅0) plane such that two equivalent
surfaces were formed, where each surface magnesium atom was identically
coordinated to five oxygen atoms. Bulk models were constructed from
2 × 2 × 2 (6.43 × 6.43 × 9.63 Å3, 40 atoms) and 7 × 8 × 5 (22.59 × 22.36 × 23.47
Å3, 1400 atoms) supercells for DFT calculations and
classical simulations, respectively. Corresponding models for the
(001) basal surface consisted of 2 × 2 × 2 (6.43 ×
6.43 × 29.63 Å3, 40 atoms, 35.81 Å2 surface area for each surface) and 7 × 8 × 2 (22.59 ×
22.36 × 50.00 Å3, 560 atoms, 505.11 Å2 surface area) supercells, while those for the edge surface
consisted of 3 × 4 × 2 (9.65 × 30.232 × 9.63 Å3, 120 atoms, 92.93 Å2 surface area) and 7
× 5 × 7 (22.55 × 23.01 × 60.00 Å3, 1435 atoms, 518.88 Å2 surface area) supercells.
Structures for MD simulations were orthogonalized to facilitate analysis.
Each surface model consisted of a single slab of brucite with a vacuum
gap of 20 Å and two surfaces that were allowed to completely
relax. Larger vacuum gaps were tested for the DFT structures, but
only small changes in frequencies were seen.
Figure 1
Brucite (Mg(OH)2) structures: (A) bulk (ac plane) and (B) (11̅0)
edge surface (Mg, O, and H atoms are
represented by green, red, and white spheres, respectively).
The DMol3 code[26] was used
for localized numerical orbital DFT calculations of periodic cells.
Cell parameters and atomic positions were optimized using the GGA/PW91
functional[27] with polarization functions
on heavy atoms using the double numerical plus d-functions (DND) basis
set (comparable in size to Gaussian 6-31G*). Evaluation of the mass-weighted
Hessian matrix, followed by normal mode analysis, was performed for
the final optimized structures at 0 K to yield harmonic frequencies
and the vibrational density of states. Structures were optimized with
a 2 × 10–5 Ha energy tolerance for convergence.
Table 1 shows that the cell parameters obtained
from DFT optimization are in reasonably good agreement with experiment[25] and similar DFT methods.[28] As expected, our DFT results show a small systematic overestimation
of the experimental cell parameters (2.3% and 1.0% for a and c, respectively), as would be anticipated for
a generalized gradient approximation (GGA) exchange-correlation functional.[29] The good comparison between DFT and experiment
suggests that our DFT method is sufficient for our main purpose: providing
accurate structural and vibrational results for both Mg–O bond
lengths and Mg–O–H angles. Although empirical dispersion
corrections to our DFT method would affect nonbonded interactions
(e.g., layer–layer), such a correction is unlikely to strongly
affect Mg–O–H bending modes or O–H stretch modes
relevant to this work. A recent comparison of vibrational frequencies
of the benzene monomer using the B3LYP and dispersion-corrected B3LYP-D
methods showed almost no difference in monomer bend or stretch modes
when dispersion corrections were included.[30] Similar DFT methods have been used to study structure and vibrations
of similar surfaces and clusters with edge or surface hydroxyl groups,
including silica,[31] iron oxyhydroxides,
and magnesium oxide.[32,33]
Table 1
Comparison of Brucite Cell Lengths
(Angstroms), Angles (Degrees), and Volumes (Cubic Angstroms) between
Calculated and Experimental Resultsa
exptl
DFT
CLAYFF
NB3Bb
a
3.142
3.215
3.229
3.237
b
3.142
3.215
3.229
3.237
c
4.766
4.815
4.696
4.680
α
90.0
90.0
90.0
90.0
β
90.0
90.0
90.0
90.0
γ
120.0
120.0
120.0
120.0
V
40.75
43.10
42.40
42.46
Cell length parameters were calculated
for 2 × 2 × 2 supercells then scaled to a single unit cell
for direct comparison with experimental values.
NB3B refers to Clayff with the additional
three-body Mg–O–H term.
DFT normal modes were visualized
within the Materials Studio graphical
interface. Modes were divided into three categories (bulk, surface,
and mixed) based on the observed motion of the atoms.Brucite (Mg(OH)2) structures: (A) bulk (ac plane) and (B) (11̅0)
edge surface (Mg, O, and H atoms are
represented by green, red, and white spheres, respectively).In order to accurately determine
parameters for the nonbonded three-body
potential, the GULP software[34] was used
to optimize parameter fits to the results of the DFT calculations.
While GULP has been previously used to perform fits to potential energy
surfaces,[35] this has usually been carried
out by fitting to a series of energies and/or forces for different
structures. Although the inclusion of vibrational frequencies in least-squares
fits was also in principle possible, this required the mode number
to be specified at the outset and made no allowance for the possibility
that the order of the frequencies might change during the fit. In
the present work we have extended the capability of the fitting algorithm
by including the vibrational frequencies as observables with normal
mode projection. Here the eigenvectors from the DFT phonon calculations
were used to determine the corresponding vibration from the force
field that has the maximum overlap with the mode of interest. In this
manner it was possible to ensure that the correct vibrational modes
that correspond to the Mg–O–H angle bend were properly
fitted. During the least-squares refinement of the three-body force
constant, both the structure and the vibrational modes were used as
observables to determine the value that would yield the best compromise
between reproducing the DFT structures and vibrational properties.
Specifically, relaxed fitting[36] was used
in which the displacements of the structure on relaxation are used
to define the sum of squares during refinement. This approach has
the advantage that the vibrational modes were always computed for
a valid harmonic minimum, as opposed to computing the Hessian for
the initial unoptimized structure.GULP was also used to optimize
bulk cell parameters (Table 1) and atomic positions
using the original Clayff
parametrization (including the trioctahedral version of the Morse
O–H term[24]), as well as the updated
parameter set, which adds the new three-body term that will hereafter
be referred to as NB3B. Not surprisingly, cell parameters are largely
unaffected by the short-range three-body term. The classically derived a-cell parameters are slightly greater than DFT values,
while c-cell parameters are somewhat greater for
the DFT case because of lack of dispersion correction in the DMol3 calculations. Normal mode analysis was performed on the resulting
structures for comparison with DFT-derived frequencies with the GDIS
code.[37] GDIS allows for visualization of
eigenvectors for each normal mode. These vibrational modes were classified
as bulk (Figure 2A), surface (Figure 2B), or mixed (significant presence of bulk and surface
eigenvectors).
Figure 2
Top view of (11̅0) edge surface simulation; edge surfaces
are at top and bottom of figure. The normal mode with frequency 718
cm–1 (A) shows primarily “bulk” eigenvectors
and the mode with frequency 720 cm–1 (B) shows primarily
surface eigenvectors. Black arrows indicate the relative magnitude
and directions of the eigenvectors. Mg, O, and H atoms are represented
by green, red, and white spheres, respectively.
Cell length parameters were calculated
for 2 × 2 × 2 supercells then scaled to a single unit cell
for direct comparison with experimental values.NB3B refers to Clayff with the additional
three-body Mg–O–H term.Top view of (11̅0) edge surface simulation; edge surfaces
are at top and bottom of figure. The normal mode with frequency 718
cm–1 (A) shows primarily “bulk” eigenvectors
and the mode with frequency 720 cm–1 (B) shows primarily
surface eigenvectors. Black arrows indicate the relative magnitude
and directions of the eigenvectors. Mg, O, and H atoms are represented
by green, red, and white spheres, respectively.The LAMMPS code[38] was used to
perform
all classical molecular dynamics (MD) simulations. Simulations were
performed for 1.2 ns in the NPT ensemble at 298 K
followed by 540 ps in the NVT ensemble (N, V, T, and P refer
to the number of atoms, volume, temperature, and pressure, respectively).
While a shorter simulation time would have been sufficient to investigate
dry surfaces such as these, the simulation time was extended to monitor
the stability of surface hydroxyl groups. In order to incorporate
a three-body nonbonded term, a new pair_style interaction
(NB3B, or nonbond three-body) was derived for implementation within
LAMMPS. The three-body term was used for all Mg–O–H
interactions, provided that the Mg–O separation was no greater
than 2.8 Å and the O–H separation was no greater than
1.2 Å. Separation cutoffs were determined from the minimum in
the corresponding radial distribution functions calculated from an
MD simulation of bulk brucite. It should be noted that while the three-body
potential is classified as being of nonbonded type, the functional
form is discontinuous at the cutoff boundary; therefore, this model
is formally not applicable to dissociation of surface hydroxyl groups.
Simulations with and without the three-body Mg–O–H term
are labeled NB3B and Clayff, respectively.Classical power spectra
were calculated from the velocity autocorrelation
function[39] using the TINKER code[40] over the final 40 ps of an MD run (10 000
configurations). A simulation time of 40 ps has been shown to be sufficiently
long to obtain vibrational data, particularly given that molecular
vibrations have periods much less than 1 ps.[39] Power spectra were used to compare Mg–O–H vibrational
modes with and without the new angle-bending potential. All force
field parameters are given in Table 2.
Table 2
Force Field Parameters
Used in the
Classical Simulationsa
element
atom type
q (e)
σ (Å)
ε (kcal mol–1)
Mg
mgh
1.0500
5.2643
9.030 × 10–7
O
oh
–0.9500
3.1655
0.1554
H
ho
0.4250
0.0000
0.0000
σ = (σσ)1/2 and ε =
(εε)1/2 represent the van der Waals radius and energy
well depth for the atomic pair. r is the interatomic
distance. D0 is the depth of the bond
potential well. α is related to the width of the bond potential
energy curve. r0 is the equilibrium bond
distance. k is the angle bend force constant. θ0 is the equilibrium angle.
Ref (13). A potential
cutoff of 10 Å was used.
Ref (23).
The DMol3 code was also used to perform ab initio MD
(AIMD) calculations in the NVT ensemble for the same
three structures used in the DFT optimizations above. The same GGA/PW91
functional and DND basis set were used. The systems were initially
equilibrated for 7.5 ps (0.5 fs time step) at 298 K, and data were
collected over an additional 2.5 ps production run. The Mg–O–H
bond angle distributions from the final 2.5 ps of the equilibration
runs were nearly identical to the distributions from the respective
productions runs, indicating that equilibration had been reached.
Bond angle information for Mg–O–H was compared to the
MD-derived distribution of angles for validation of the optimized
θ0-parameter.σ = (σσ)1/2 and ε =
(εε)1/2 represent the van der Waals radius and energy
well depth for the atomic pair. r is the interatomic
distance. D0 is the depth of the bond
potential well. α is related to the width of the bond potential
energy curve. r0 is the equilibrium bond
distance. k is the angle bend force constant. θ0 is the equilibrium angle.Ref (13). A potential
cutoff of 10 Å was used.Ref (23).
Results and Discussion
Equilibrium Mg–O–H
Angle (θ0)
For bulk brucite, the experimental
Mg–O–H angle is
120.2° as determined from neutron diffraction experiments.[25] The bond angle distribution for the DFT energy-optimized
(0 K) structure of a 2 × 2 × 2 simulation cell of bulk brucite
(Figure 3A, top) is relatively narrow (as expected
for a 0 K minimized structure) with a mean angle of approximately
119°. The small deviations from perfect symmetry are a consequence
of numerical factors during the DFT optimization, rather than being
due to any physically significant distortion mechanism. Yu and Schmidt[23] derived an Mg–O–H term for a specific
hydrotalcite edge structure that uses a θ0 value
of 132°. This value was determined solely for (11̅0) edge
surfaces. The new three-body term presented here is designed to be
applied to all Mg–O–H interactions (within specified
cutoffs), including those in the bulk, as well as basal and edge surfaces.
The bulk Mg–O–H angles are therefore assumed to dominate
the overall distribution, even for surface models.
Figure 3
Comparison
of Mg–O–H bond angle distributions for
brucite from static DFT and classical optimization (panels A and B)
and MD and AIMD simulation at 298 K (panels C and D). Angle distributions
are shown with (NB3B) and without (Clayff) a nonbonded three-body
term for the Mg–O–H interaction. Surface angles (panels
B and D) are distinguished from bulk angles (panels A and C).
Figure 3(A,B) shows the equilibrium Mg–O–H
angles calculated for the bulk and surface structures from DFT and
classical geometry optimizations. Distributions are shown for simulations
applying (1) only previous Clayff parameters, including a Morse potential
for O–H bond stretch, and (2) the new three-body term in addition
to previous Clayff parameters (noted as NB3B). To implement the three-body
term, a value of 120° was assumed for θ0 (from
the DFT-derived distribution) and a value of 6.35 kcal mol–1 rad–2 was taken for k (from the Mg–O–H term used by Yu and Schmidt[23]). The choice of the force constant value will
be discussed below. Surface angles (Figure 3B) are distinguished from internal (bulk) angles (Figure 3A). For the bulk structures, Clayff and NB3B force
fields yield an equilibrium angle of 123°, slightly greater than
the DFT angle of 119°. For both surfaces, angles determined using
NB3B are in better agreement with DFT than those using Clayff, which
exhibits a greater range of values.For the (001) basal surface
model (Figure 3A, middle), the bulk angles
calculated from NB3B and DFT are nearly
at their respective bulk values, while Clayff shows widely varying
angles (94°, 116°, 150°). For the (11̅0) edge
surface model (Figure 3A, bottom), NB3B and
DFT have a similar narrow distribution of angles (121°–124°
for NB3B, 115°–121° for DFT) while Clayff values
extend well beyond this range (99°–160°). For this
model, there is a clear difference between angles for OH groups at
the center of the cell and those just below the surface, which are
influenced by the relaxation of the surface, so only those angles
associated with OH groups at the center of the slab are included in
the edge surface bulk angles. Trends in calculated Mg–O–H
angles at the surfaces (Figure 3B) are similar
to trends observed with bulk angles. NB3B and DFT show narrow angle
distributions, while the Clayff distribution is much broader (101°–159°).
The new three-body term greatly improves the treatment of Mg–O–H
angles at both basal surfaces and edges.Angle distributions
from MD simulations (298 K) of larger simulation
cells are plotted in Figure 3(C,D). While thermal
effects and larger system sizes result in a more continuous distribution
of angles, the same trends seen in the static calculations are reproduced.
The bulk angle distributions from Clayff are relatively wide, extending
from about 70° to 170°. The three-body term implemented
in NB3B has the effect of narrowing the distributions to about 95°–150°
and makes them more symmetric. The NB3B results have angle distributions
with maxima at about 120°, which reflects the choice of 120°
for the θ0-parameter. The AIMD results are in good
agreement with the NB3B results, with ranges of nearly the same width
and distributions shifted ∼5–10° lower in the AIMD
cases.Mg–O distances were calculated for nearest neighbors
in
each optimized structure, comparing surface and bulk hydroxyl groups.
Clayff and NB3B consistently overestimate the Mg–O distance
(2.22–2.23 Å) relative to DFT (2.12–2.13 Å)
for bulk Mg–O pairs or at the basal surface. This same trend
was also seen for Mg–O distances at inner edges of sepiolite
and palygorskite.[41] However, NB3B correctly
predicts the decrease in Mg–O distance at the (11̅0)
edge surface (2.17 Å), as observed in DFT (2.04 Å).Comparison
of Mg–O–H bond angle distributions for
brucite from static DFT and classical optimization (panels A and B)
and MD and AIMD simulation at 298 K (panels C and D). Angle distributions
are shown with (NB3B) and without (Clayff) a nonbonded three-body
term for the Mg–O–H interaction. Surface angles (panels
B and D) are distinguished from bulk angles (panels A and C).
Mg–O–H Angle
Bend Force Constant (k)
The originally published
Mg–O–H three-body
term in Clayff used a k-parameter of 30.0 kcal mol rad–2 for all metal–O-H surface hydroxyl interactions.[13] However, it was noted that the implementation
of the three-body term was problematic, and it was suggested as an
optional feature for surface simulations.[13] On the basis of the Mg–O–H parameters developed by
Yu and Schmidt[23] for the (11̅0) hydrotalcite
edge, we initially implemented a k-parameter of 6.35
kcal mol rad–2. This value was determined
by comparing the classical and DFT phonon spectra of the brucite surface.
One distinct difference between the Yu and Schmidt model and that
of this study is that modified atomic charges were required for all
species in the Yu and Schmidt model for hydrotalcite. In contrast,
we have kept the charge scheme defined in the original Clayff.To validate the three-body potential in combination with the original
Clayff parameters, the magnitude of the force constant was refined
by fitting against the DFT structural and vibrational results, as
previously described. Depending on whether bulk brucite or the (001)
surface was used as the basis of the fit, the force constants obtained
were 5.08 kcal mol–1 rad–2 and 5.81 kcal mol–1 rad–2, respectively. For the case of bulk brucite, a comparison of the
high-frequency Mg–O–H angle-bending mode is as follows:
the value obtained directly from DFT is 968.6 cm–1, while the original and fitted force field values are 1023 and 1001
cm–1, respectively. Although this suggests that
the force constant should be lowered further, it is necessary to recall
that the fit is a compromise between multiple vibrational modes and
the need to describe the structure correctly. Overall, we can conclude
that the fitted values are largely consistent with the force constant
from Yu and Schmidt of 6.35 kcal mol–1 rad–2, suggesting that this is a reasonable choice given
that the DFT results will also have systematic errors relative to
experiment.Normal modes obtained following DFT optimization
were used as a
baseline for comparison with GULP-derived classical normal modes using
Clayff and NB3B (Figure 4). Modes below a frequency
of ≈400 cm–1 represent motion of Mg and O
atoms and were not categorized or plotted. Mode frequencies between
400 and 1200 cm–1 correspond to Mg–O–H
librational modes, while O–H stretch modes have frequencies
of approximately 3600 cm–1. Our DFT frequencies
are in good agreement with previous DFT normal mode calculations of
bulk brucite using a single unit cell (5 atoms).[42]
Figure 4
Comparison
of DFT-derived normal mode frequencies for bulk (top),
basal surface (001) (middle), and edge (11̅0) surface (bottom)
of brucite. DFT modes are shown in green, Clayff modes in red, and
NB3B modes in blue.
Both Clayff and NB3B produce similar bulk bending
modes in good
agreement with DFT (Figure 4, top). However,
DFT surface models are much better represented by NB3B than by Clayff.
The highest-frequency Mg–O–H mode at the basal surface
(Figure 4, middle) is 592 cm–1 for Clayff, compared to 704 cm–1 for NB3B and
687 cm–1 for DFT. Likewise, the highest frequency
at the (11̅0) surface (Figure 4, bottom)
in the lower range is 489 cm–1 for Clayff, compared
to 735 cm–1 for NB3B and 752 cm–1 for DFT. For reference, frequencies from vibrational spectroscopy
of brucite samples show hydroxyl bend modes up to 725 cm–1.[43,44] The improvement of surface mode frequency
agreement for NB3B is another indication that inclusion of the new
three-body term is an improvement in the overall model.Comparison
of DFT-derived normal mode frequencies for bulk (top),
basal surface (001) (middle), and edge (11̅0) surface (bottom)
of brucite. DFT modes are shown in green, Clayff modes in red, and
NB3B modes in blue.The effects of the three-body
term are also seen by comparing MD
power spectra. MD simulations were performed for larger 7 × 5
× 7 supercells of bulk brucite as well as the basal (001) and
edge (11̅0) surfaces. Power spectra shown in Figure 5 were decomposed into “bulk” and “surface”
contributions based on the disposition of the H atoms. Further refinement
of the power spectra by specific hydroxyl groups in the model is not
possible because the spectra are obtained from a time average of atomic
velocities for specific atom types. As with the normal mode analysis,
a distinct shift to lower frequencies is seen for the surface librational
modes compared to the bulk modes, whether the three-body term was
used or not. For basal surface modes (Figure 5B), dominant peaks in the NB3B power spectrum at ≈475 and
≈700 cm–1 coincide with DFT normal modes
(Mg–O–H stretch) between 415–465 cm–1 and 685 cm–1 (Figure 4).
The Clayff spectrum shows poor agreement with the DFT surface modes,
with only one broad peak at ≈560 cm–1. Within
the Mg–O–H librational regime at the (11̅0) edge
surface (Figure 5C), the surface power spectrum
using Clayff is diminished around 600 cm–1 (red
dashed line), while the surface power spectrum for NB3B (blue dashed
line) shows well-defined peaks in the 600–750 cm–1 region, in agreement with DFT modes near 750 cm–1 (Figure 4).
Figure 5
Hydrogen vibrational power spectra from
classical MD simulation
for (A) bulk brucite, (B) the (001) basal surface, and (C) the (11̅0)
edge surface.
Hydrogen vibrational power spectra from
classical MD simulation
for (A) bulk brucite, (B) the (001) basal surface, and (C) the (11̅0)
edge surface.A similar comparison
is made for the librational motion of bulk
Mg–O–H groups in the surface models. Slight differences
in frequencies for bulk modes in the three model systems are likely
due to the influence of the vacuum interface in the surface models.
DFT bulk normal modes for Mg–O–H interactions extend
to 1013 cm–1. The bulk power spectrum using Clayff
(Figure 5A) begins to fall off at about 900
cm–1 (a slight underestimation of the DFT normal
modes), while the NB3B spectrum identifies a vibrational response
up to ≈1100 cm–1 (a slight overestimation).
When a nonbonded three-body interaction potential is included, there
is significant improvement in the agreement of the MD power spectrum
with the DFT normal modes. Additional tests were performed with other k-parameter values, but these always resulted in worse agreement
with DFT; for the (11̅0) edge, the correspondence of MD power
spectra peaks at ≈625 and ≈740 cm–1 with observed normal modes (Figure 4) is
particularly convincing. The value of 6.35 kcal mol rad–2 derived by Yu and Schmidt[23] was therefore maintained for additional calculations.The
O–H bond stretch region for brucite is known to exist
up to ≈3700 cm–1.[45,46] In the original implementation of Clayff, a harmonic bond was used
to describe the O–H stretch, but a Morse potential has been
recently introduced.[24] Here, the Morse
potential was used for the O–H bond stretch in both Clayff
and NB3B, and their resulting power spectra are shown in Figure 6. For both surfaces, the surface O–H bond
stretch frequency is higher than the bulk (internal) frequency, which
may be attributed to hydrogen bonding between layers in the bulk that
results in weaker hydroxyl bonds. For O–H vibrations in the
bulk or at the surfaces, the NB3B power spectrum shows a shift toward
higher frequencies than the Clayff peaks, in better agreement with
the corresponding DFT modes (Figure 4).
Figure 6
Hydrogen vibrational
power spectra from classical MD simulation
for (A) bulk brucite, (B) the (001) basal surface, and (C) the (11̅0)
edge surface. Spectra for both the bulklike and surface regions are
shown separately in panels B and C.
Hydrogen vibrational
power spectra from classical MD simulation
for (A) bulk brucite, (B) the (001) basal surface, and (C) the (11̅0)
edge surface. Spectra for both the bulklike and surface regions are
shown separately in panels B and C.
Conclusion
We have introduced a nonbonded three-body
harmonic term in classical
molecular simulations for describing Mg–O–H dynamics
while avoiding the tendency of bonded hydroxyl groups to “dissociate”
from the surface. Although validated for hydroxyl behavior in bulk
brucite and at two surfaces, this methodology can be applied to similar
bulk or surface models of layered minerals using the Clayff force
field. Detailed comparisons of surface vibrational modes using DFT
normal modes as a reference reveal that the addition of an Mg–O–H
bending term substantially improves the ability of Clayff to describe
librational motion at hydroxylated surfaces. The new Mg–O–H
term was also applied to bulk brucite. In this case, the Mg–O–H
librational modes predicted by Clayff already show decent agreement
with DFT, so a substantial improvement in Clayff was not realized.
Direct fitting of the vibrational modes obtained from DFT for the
new Mg–O–H term supports the k-value
proposed previously[23] for modeling hydrotalcite
and establishes a “proof-of-concept” procedure that
can be applied to other metal–O-H interactions of interest
for layered mineral simulations, especially those involving clay edges
and other interfacial interactions associated with environmental processes.
Authors: Nathan W Ockwig; Jeffery A Greathouse; Justin S Durkin; Randall T Cygan; Luke L Daemen; Tina M Nenoff Journal: J Am Chem Soc Date: 2009-06-17 Impact factor: 15.419