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1 \chapter{\label{chap:electrostatics}ELECTROSTATIC INTERACTION CORRECTION
2 TECHNIQUES}
3
4 In molecular simulations, proper accumulation of the electrostatic
5 interactions is essential and is one of the most
6 computationally-demanding tasks. The common molecular mechanics force
7 fields represent atomic sites with full or partial charges protected
8 by Lennard-Jones (short range) interactions. This means that nearly
9 every pair interaction involves a calculation of charge-charge forces.
10 Coupled with relatively long-ranged $r^{-1}$ decay, the monopole
11 interactions quickly become the most expensive part of molecular
12 simulations. Historically, the electrostatic pair interaction would
13 not have decayed appreciably within the typical box lengths that could
14 be feasibly simulated. In the larger systems that are more typical of
15 modern simulations, large cutoffs should be used to incorporate
16 electrostatics correctly.
17
18 There have been many efforts to address the proper and practical
19 handling of electrostatic interactions, and these have resulted in a
20 variety of techniques.\cite{Roux99,Sagui99,Tobias01} These are
21 typically classified as implicit methods (i.e., continuum dielectrics,
22 static dipolar fields),\cite{Born20,Grossfield00} explicit methods
23 (i.e., Ewald summations, interaction shifting or
24 truncation),\cite{Ewald21,Steinbach94} or a mixture of the two (i.e.,
25 reaction field type methods, fast multipole
26 methods).\cite{Onsager36,Rokhlin85} The explicit or mixed methods are
27 often preferred because they physically incorporate solvent molecules
28 in the system of interest, but these methods are sometimes difficult
29 to utilize because of their high computational cost.\cite{Roux99} In
30 addition to the computational cost, there have been some questions
31 regarding possible artifacts caused by the inherent periodicity of the
32 explicit Ewald summation.\cite{Tobias01}
33
34 In this chapter, we focus on a new set of pairwise methods devised by
35 Wolf {\it et al.},\cite{Wolf99} which we further extend. These
36 methods along with a few other mixed methods (i.e. reaction field) are
37 compared with the smooth particle mesh Ewald
38 sum,\cite{Onsager36,Essmann99} which is our reference method for
39 handling long-range electrostatic interactions. The new methods for
40 handling electrostatics have the potential to scale linearly with
41 increasing system size since they involve only a simple modification
42 to the direct pairwise sum. They also lack the added periodicity of
43 the Ewald sum, so they can be used for systems which are non-periodic
44 or which have one- or two-dimensional periodicity. Below, these
45 methods are evaluated using a variety of model systems to
46 establish their usability in molecular simulations.
47
48 \section{The Ewald Sum}
49
50 The complete accumulation of the electrostatic interactions in a system with
51 periodic boundary conditions (PBC) requires the consideration of the
52 effect of all charges within a (cubic) simulation box as well as those
53 in the periodic replicas,
54 \begin{equation}
55 V_\textrm{elec} = \frac{1}{2} {\sum_{\mathbf{n}}}^\prime
56 \left[ \sum_{i=1}^N\sum_{j=1}^N \phi
57 \left( \mathbf{r}_{ij} + L\mathbf{n},\bm{\Omega}_i,\bm{\Omega}_j\right)
58 \right],
59 \label{eq:PBCSum}
60 \end{equation}
61 where the sum over $\mathbf{n}$ is a sum over all periodic box
62 replicas with integer coordinates $\mathbf{n} = (l,m,n)$, and the
63 prime indicates $i = j$ are neglected for $\mathbf{n} =
64 0$.\cite{deLeeuw80} Within the sum, $N$ is the number of electrostatic
65 particles, $\mathbf{r}_{ij}$ is $\mathbf{r}_j - \mathbf{r}_i$, $L$ is
66 the cell length, $\bm{\Omega}_{i,j}$ are the Euler angles for $i$ and
67 $j$, and $\phi$ is the solution to Poisson's equation
68 ($\phi(\mathbf{r}_{ij}) = q_i q_j |\mathbf{r}_{ij}|^{-1}$ for
69 charge-charge interactions). In the case of monopole electrostatics,
70 equation (\ref{eq:PBCSum}) is conditionally convergent and is divergent for
71 non-neutral systems.
72
73 The electrostatic summation problem was originally studied by Ewald
74 for the case of an infinite crystal.\cite{Ewald21}. The approach he
75 took was to convert this conditionally convergent sum into two
76 absolutely convergent summations: a short-ranged real-space summation
77 and a long-ranged reciprocal-space summation,
78 \begin{equation}
79 \begin{split}
80 V_\textrm{elec} = \frac{1}{2}&
81 \sum_{i=1}^N\sum_{j=1}^N \Biggr[ q_i q_j\Biggr( {\sum_{\mathbf{n}}}^\prime
82 \frac{\textrm{erfc}\left( \alpha|\mathbf{r}_{ij}+\mathbf{n}|\right)}
83 {|\mathbf{r}_{ij}+\mathbf{n}|} \\
84 &+ \frac{1}{\pi L^3}\sum_{\mathbf{k}\ne 0}\frac{4\pi^2}{|\mathbf{k}|^2}
85 \exp{\left(-\frac{\pi^2|\mathbf{k}|^2}{\alpha^2}\right)
86 \cos\left(\mathbf{k}\cdot\mathbf{r}_{ij}\right)}\Biggr)\Biggr] \\
87 &- \frac{\alpha}{\pi^{1/2}}\sum_{i=1}^N q_i^2
88 + \frac{2\pi}{(2\epsilon_\textrm{S}+1)L^3}
89 \left|\sum_{i=1}^N q_i\mathbf{r}_i\right|^2,
90 \end{split}
91 \label{eq:EwaldSum}
92 \end{equation}
93 where $\alpha$ is the damping or convergence parameter with units of
94 \AA$^{-1}$, $\mathbf{k}$ are the reciprocal vectors and are equal to
95 $2\pi\mathbf{n}/L^2$, and $\epsilon_\textrm{S}$ is the dielectric
96 constant of the surrounding medium. The final two terms of
97 equation (\ref{eq:EwaldSum}) are a particle-self term and a dipolar term
98 for interacting with a surrounding dielectric.\cite{Allen87} This
99 dipolar term was neglected in early applications in molecular
100 simulations,\cite{Brush66,Woodcock71} until it was introduced by de
101 Leeuw {\it et al.} to address situations where the unit cell has a
102 dipole moment which is magnified through replication of the periodic
103 images.\cite{deLeeuw80,Smith81} If this term is taken to be zero, the
104 system is said to be using conducting (or ``tin-foil'') boundary
105 conditions, $\epsilon_{\rm S} = \infty$. Figure
106 \ref{fig:ewaldTime} shows how the Ewald sum has been applied over
107 time. Initially, due to the small system sizes that could be
108 simulated feasibly, the entire simulation box was replicated to
109 convergence. In more modern simulations, the systems have grown large
110 enough that a real-space cutoff could potentially give convergent
111 behavior. Indeed, it has been observed that with the choice of a
112 small $\alpha$, the reciprocal-space portion of the Ewald sum can be
113 rapidly convergent and small relative to the real-space
114 portion.\cite{Karasawa89,Kolafa92}
115
116 \begin{figure}
117 \includegraphics[width=\linewidth]{./figures/ewaldProgression.pdf}
118 \caption{The change in the need for the Ewald sum with
119 increasing computational power. A:~Initially, only small systems
120 could be studied, and the Ewald sum replicated the simulation box to
121 convergence. B:~Now, radial cutoff methods should be able to reach
122 convergence for the larger systems of charges that are common today.}
123 \label{fig:ewaldTime}
124 \end{figure}
125
126 The original Ewald summation is an $\mathscr{O}(N^2)$ algorithm. The
127 convergence parameter $(\alpha)$ plays an important role in balancing
128 the computational cost between the direct and reciprocal-space
129 portions of the summation. The choice of this value allows one to
130 select whether the real-space or reciprocal space portion of the
131 summation is an $\mathscr{O}(N^2)$ calculation (with the other being
132 $\mathscr{O}(N)$).\cite{Sagui99} With the appropriate choice of
133 $\alpha$ and thoughtful algorithm development, this cost can be
134 reduced to $\mathscr{O}(N^{3/2})$.\cite{Perram88} The typical route
135 taken to reduce the cost of the Ewald summation even further is to set
136 $\alpha$ such that the real-space interactions decay rapidly, allowing
137 for a short spherical cutoff. Then the reciprocal space summation is
138 optimized. These optimizations usually involve utilization of the
139 fast Fourier transform (FFT),\cite{Hockney81} leading to the
140 particle-particle particle-mesh (P3M) and particle mesh Ewald (PME)
141 methods.\cite{Shimada93,Luty94,Luty95,Darden93,Essmann95} In these
142 methods, the cost of the reciprocal-space portion of the Ewald
143 summation is reduced from $\mathscr{O}(N^2)$ down to $\mathscr{O}(N
144 \log N)$.
145
146 These developments and optimizations have made the use of the Ewald
147 summation routine in simulations with periodic boundary
148 conditions. However, in certain systems, such as vapor-liquid
149 interfaces and membranes, the intrinsic three-dimensional periodicity
150 can prove problematic. The Ewald sum has been reformulated to handle
151 2-D systems,\cite{Parry75,Parry76,Heyes77,deLeeuw79,Rhee89} but these
152 methods are computationally expensive.\cite{Spohr97,Yeh99} More
153 recently, there have been several successful efforts toward reducing
154 the computational cost of 2-D lattice
155 summations,\cite{Yeh99,Kawata01,Arnold02,deJoannis02,Brodka04}
156 bringing them more in line with the cost of the full 3-D summation.
157
158 Several studies have recognized that the inherent periodicity in the
159 Ewald sum can also have an effect on three-dimensional
160 systems.\cite{Roberts94,Roberts95,Luty96,Hunenberger99a,Hunenberger99b,Weber00}
161 Solvated proteins are essentially kept at high concentration due to
162 the periodicity of the electrostatic summation method. In these
163 systems, the more compact folded states of a protein can be
164 artificially stabilized by the periodic replicas introduced by the
165 Ewald summation.\cite{Weber00} Thus, care must be taken when
166 considering the use of the Ewald summation where the assumed
167 periodicity would introduce spurious effects in the system dynamics.
168
169
170 \section{The Wolf and Zahn Methods}
171
172 In a recent paper by Wolf \textit{et al.}, a procedure was outlined
173 for the accurate accumulation of electrostatic interactions in an
174 efficient pairwise fashion. This procedure lacks the inherent
175 periodicity of the Ewald summation.\cite{Wolf99} Wolf \textit{et al.}
176 observed that the electrostatic interaction is effectively
177 short-ranged in condensed phase systems and that neutralization of the
178 charge contained within the cutoff radius is crucial for potential
179 stability. They devised a pairwise summation method that ensures
180 charge neutrality and gives results similar to those obtained with the
181 Ewald summation. The resulting shifted Coulomb potential includes
182 image-charges subtracted out through placement on the cutoff sphere
183 and a distance-dependent damping function (identical to that seen in
184 the real-space portion of the Ewald sum) to aid convergence
185 \begin{equation}
186 V_{\textrm{Wolf}}(r_{ij})= \frac{q_i q_j \textrm{erfc}(\alpha r_{ij})}{r_{ij}}
187 - \lim_{r_{ij}\rightarrow R_\textrm{c}}
188 \left\{\frac{q_iq_j \textrm{erfc}(\alpha r_{ij})}{r_{ij}}\right\}.
189 \label{eq:WolfPot}
190 \end{equation}
191 Equation (\ref{eq:WolfPot}) is essentially the common form of a shifted
192 potential. However, neutralizing the charge contained within each
193 cutoff sphere requires the placement of a self-image charge on the
194 surface of the cutoff sphere. This additional self-term in the total
195 potential enabled Wolf {\it et al.} to obtain excellent estimates of
196 Madelung energies for many crystals.
197
198 In order to use their charge-neutralized potential in molecular
199 dynamics simulations, Wolf \textit{et al.} suggested taking the
200 derivative of this potential prior to evaluation of the limit. This
201 procedure gives an expression for the forces,
202 \begin{equation}
203 \begin{split}
204 F_{\textrm{Wolf}}(r_{ij}) = q_i q_j \Biggr\{&
205 \Biggr[\frac{\textrm{erfc}\left(\alpha r_{ij}\right)}{r^2_{ij}}
206 + \frac{2\alpha}{\pi^{1/2}}\frac{\exp{\left(-\alpha^2r_{ij}^2\right)}}{r_{ij}}
207 \Biggr]\\
208 &-\Biggr[
209 \frac{\textrm{erfc}\left(\alpha R_{\textrm{c}}\right)}{R_{\textrm{c}}^2}
210 + \frac{2\alpha}{\pi^{1/2}}
211 \frac{\exp{\left(-\alpha^2R_{\textrm{c}}^2\right)}}{R_{\textrm{c}}}
212 \Biggr]\Biggr\},
213 \end{split}
214 \label{eq:WolfForces}
215 \end{equation}
216 that incorporates both image charges and damping of the electrostatic
217 interaction.
218
219 More recently, Zahn \textit{et al.} investigated these potential and
220 force expressions for use in simulations involving water.\cite{Zahn02}
221 In their work, they pointed out that the forces and derivative of
222 the potential are not commensurate. Attempts to use both
223 equations (\ref{eq:WolfPot}) and (\ref{eq:WolfForces}) together will lead
224 to poor energy conservation. They correctly observed that taking the
225 limit shown in equation (\ref{eq:WolfPot}) {\it after} calculating the
226 derivatives gives forces for a different potential energy function
227 than the one shown in equation (\ref{eq:WolfPot}).
228
229 Zahn \textit{et al.} introduced a modified form of this summation
230 method as a way to use the technique in Molecular Dynamics
231 simulations. They proposed a new damped Coulomb potential,
232 \begin{equation}
233 \begin{split}
234 V_{\textrm{Zahn}}(r_{ij}) = q_iq_j\Biggr\{&
235 \frac{\mathrm{erfc}\left(\alpha r_{ij}\right)}{r_{ij}} \\
236 &- \left[\frac{\mathrm{erfc}\left(\alpha R_\mathrm{c}\right)}{R_\mathrm{c}^2}
237 + \frac{2\alpha}{\pi^{1/2}}
238 \frac{\exp\left(-\alpha^2R_\mathrm{c}^2\right)}{R_\mathrm{c}}
239 \right]\left(r_{ij}-R_\mathrm{c}\right)\Biggr\},
240 \end{split}
241 \label{eq:ZahnPot}
242 \end{equation}
243 and showed that this potential does fairly well at capturing the
244 structural and dynamic properties of water compared the same
245 properties obtained using the Ewald sum.
246
247 \section{Simple Forms for Pairwise Electrostatics}\label{sec:PairwiseDerivation}
248
249 The potentials proposed by Wolf \textit{et al.} and Zahn \textit{et
250 al.} are constructed using two different (and separable) computational
251 tricks:
252
253 \begin{enumerate}[itemsep=0pt]
254 \item shifting through the use of image charges, and
255 \item damping the electrostatic interaction.
256 \end{enumerate}
257 Wolf \textit{et al.} treated the development of their summation method
258 as a progressive application of these techniques,\cite{Wolf99} while
259 Zahn \textit{et al.} founded their damped Coulomb modification
260 (Eq. (\ref{eq:ZahnPot})) on the post-limit forces
261 (Eq. (\ref{eq:WolfForces})) which were derived using both techniques.
262 It is possible, however, to separate these tricks and study their
263 effects independently.
264
265 Starting with the original observation that the effective range of the
266 electrostatic interaction in condensed phases is considerably less
267 than $r^{-1}$, either the cutoff sphere neutralization or the
268 distance-dependent damping technique could be used as a foundation for
269 a new pairwise summation method. Wolf \textit{et al.} made the
270 observation that charge neutralization within the cutoff sphere plays
271 a significant role in energy convergence; therefore we will begin our
272 analysis with the various shifted forms that maintain this charge
273 neutralization. We can evaluate the methods of Wolf {\it et al.} and
274 Zahn {\it et al.} by considering the standard shifted potential,
275 \begin{equation}
276 V_\textrm{SP}(r) = \begin{cases}
277 v(r)-v_\textrm{c} &\quad r\leqslant R_\textrm{c} \\ 0 &\quad r >
278 R_\textrm{c}
279 \end{cases},
280 \label{eq:shiftingPotForm}
281 \end{equation}
282 and shifted force,
283 \begin{equation}
284 V_\textrm{SF}(r) = \begin{cases}
285 v(r) - v_\textrm{c}
286 - \left(\frac{d v(r)}{d r}\right)_{r=R_\textrm{c}}(r-R_\textrm{c})
287 &\quad r\leqslant R_\textrm{c} \\ 0 &\quad r > R_\textrm{c}
288 \end{cases},
289 \label{eq:shiftingForm}
290 \end{equation}
291 functions where $v(r)$ is the unshifted form of the potential, and
292 $v_c$ is $v(R_\textrm{c})$. The Shifted Force ({\sc sf}) form ensures
293 that both the potential and the forces goes to zero at the cutoff
294 radius, while the Shifted Potential ({\sc sp}) form only ensures the
295 potential is smooth at the cutoff radius
296 ($R_\textrm{c}$).\cite{Allen87}
297
298 The forces associated with the shifted potential are simply the forces
299 of the unshifted potential itself (when inside the cutoff sphere),
300 \begin{equation}
301 F_{\textrm{SP}} = -\left( \frac{d v(r)}{dr} \right),
302 \end{equation}
303 and are zero outside. Inside the cutoff sphere, the forces associated
304 with the shifted force form can be written,
305 \begin{equation}
306 F_{\textrm{SF}} = -\left( \frac{d v(r)}{dr} \right) + \left(\frac{d
307 v(r)}{dr} \right)_{r=R_\textrm{c}}.
308 \end{equation}
309
310 If the potential, $v(r)$, is taken to be the normal Coulomb potential,
311 \begin{equation}
312 v(r) = \frac{q_i q_j}{r},
313 \label{eq:Coulomb}
314 \end{equation}
315 then the Shifted Potential ({\sc sp}) forms will give Wolf {\it et
316 al.}'s undamped prescription:
317 \begin{equation}
318 V_\textrm{SP}(r) =
319 q_iq_j\left(\frac{1}{r}-\frac{1}{R_\textrm{c}}\right) \quad
320 r\leqslant R_\textrm{c},
321 \label{eq:SPPot}
322 \end{equation}
323 with associated forces,
324 \begin{equation}
325 F_\textrm{SP}(r) = q_iq_j\left(\frac{1}{r^2}\right)
326 \quad r\leqslant R_\textrm{c}.
327 \label{eq:SPForces}
328 \end{equation}
329 These forces are identical to the forces of the standard Coulomb
330 interaction, and cutting these off at $R_c$ was addressed by Wolf
331 \textit{et al.} as undesirable. They pointed out that the effect of
332 the image charges is neglected in the forces when this form is
333 used,\cite{Wolf99} thereby eliminating any benefit from the method in
334 molecular dynamics. Additionally, there is a discontinuity in the
335 forces at the cutoff radius which results in energy drift during MD
336 simulations.
337
338 The shifted force ({\sc sf}) form using the normal Coulomb potential
339 will give,
340 \begin{equation}
341 V_\textrm{SF}(r) = q_iq_j\left[\frac{1}{r}-\frac{1}{R_\textrm{c}}
342 + \left(\frac{1}{R_\textrm{c}^2}\right)(r-R_\textrm{c})\right]
343 \quad r\leqslant R_\textrm{c}.
344 \label{eq:SFPot}
345 \end{equation}
346 with associated forces,
347 \begin{equation}
348 F_\textrm{SF}(r) = q_iq_j\left(\frac{1}{r^2}-\frac{1}{R_\textrm{c}^2}\right)
349 \quad r\leqslant R_\textrm{c}.
350 \label{eq:SFForces}
351 \end{equation}
352 This formulation has the benefits that there are no discontinuities at
353 the cutoff radius, while the neutralizing image charges are present in
354 both the energy and force expressions. It would be simple to add the
355 self-neutralizing term back when computing the total energy of the
356 system, thereby maintaining the agreement with the Madelung energies.
357 A side effect of this treatment is the alteration in the shape of the
358 potential that comes from the derivative term. Thus, a degree of
359 clarity about agreement with the empirical potential is lost in order
360 to gain functionality in dynamics simulations.
361
362 Wolf \textit{et al.} originally discussed the energetics of the
363 shifted Coulomb potential (Eq. \ref{eq:SPPot}) and found that it was
364 insufficient for accurate determination of the energy with reasonable
365 cutoff distances. The calculated Madelung energies fluctuated around
366 the expected value as the cutoff radius was increased, but the
367 oscillations converged toward the correct value.\cite{Wolf99} A
368 damping function was incorporated to accelerate the convergence; and
369 though alternative forms for the damping function could be
370 used,\cite{Jones56,Heyes81} the complimentary error function was
371 chosen to mirror the effective screening used in the Ewald summation.
372 Incorporating this error function damping into the simple Coulomb
373 potential,
374 \begin{equation}
375 v(r) = \frac{\mathrm{erfc}\left(\alpha r\right)}{r},
376 \label{eq:dampCoulomb}
377 \end{equation}
378 the shifted potential (Eq. (\ref{eq:SPPot})) becomes
379 \begin{equation}
380 V_{\textrm{DSP}}(r) = q_iq_j\left(\frac{\textrm{erfc}\left(\alpha r\right)}{r}
381 - \frac{\textrm{erfc}\left(\alpha R_\textrm{c}\right)}{R_\textrm{c}}\right)
382 \quad r\leqslant R_\textrm{c},
383 \label{eq:DSPPot}
384 \end{equation}
385 with associated forces,
386 \begin{equation}
387 F_{\textrm{DSP}}(r) = q_iq_j
388 \left(\frac{\textrm{erfc}\left(\alpha r\right)}{r^2}
389 + \frac{2\alpha}{\pi^{1/2}}\frac{\exp{\left(-\alpha^2r^2\right)}}{r}\right)
390 \quad r\leqslant R_\textrm{c}.
391 \label{eq:DSPForces}
392 \end{equation}
393 Again, this damped shifted potential suffers from a
394 force-discontinuity at the cutoff radius, and the image charges play
395 no role in the forces. To remedy these concerns, one may derive a
396 {\sc sf} variant by including the derivative term in
397 equation (\ref{eq:shiftingForm}),
398 \begin{equation}
399 \begin{split}
400 V_\mathrm{DSF}(r) = q_iq_j\Biggr{[}&
401 \frac{\mathrm{erfc}\left(\alpha r\right)}{r}
402 - \frac{\mathrm{erfc}\left(\alpha R_\mathrm{c}\right)}{R_\mathrm{c}} \\
403 &+ \left(\frac{\mathrm{erfc}\left(\alpha R_\mathrm{c}\right)}{R_\mathrm{c}^2}
404 + \frac{2\alpha}{\pi^{1/2}}
405 \frac{\exp\left(-\alpha^2R_\mathrm{c}^2\right)}{R_\mathrm{c}}
406 \right)\left(r-R_\mathrm{c}\right)\ \Biggr{]}
407 \quad r\leqslant R_\textrm{c}.
408 \label{eq:DSFPot}
409 \end{split}
410 \end{equation}
411 The derivative of the above potential will lead to the following forces,
412 \begin{equation}
413 \begin{split}
414 F_\mathrm{DSF}(r) = q_iq_j\Biggr{[}&
415 \left(\frac{\textrm{erfc}\left(\alpha r\right)}{r^2}
416 + \frac{2\alpha}{\pi^{1/2}}\frac{\exp{\left(-\alpha^2r^2\right)}}{r}\right) \\
417 &- \left(\frac{\textrm{erfc}\left(\alpha R_{\textrm{c}}\right)}
418 {R_{\textrm{c}}^2}
419 + \frac{2\alpha}{\pi^{1/2}}
420 \frac{\exp{\left(-\alpha^2R_{\textrm{c}}^2\right)}}{R_{\textrm{c}}}
421 \right)\Biggr{]}
422 \quad r\leqslant R_\textrm{c}.
423 \label{eq:DSFForces}
424 \end{split}
425 \end{equation}
426 If the damping parameter $(\alpha)$ is set to zero, the undamped case,
427 equations (\ref{eq:SPPot} through \ref{eq:SFForces}) are correctly
428 recovered from equations (\ref{eq:DSPPot} through \ref{eq:DSFForces}).
429
430 This new {\sc sf} potential is similar to equation \ref{eq:ZahnPot}
431 derived by Zahn \textit{et al.}; however, there are two important
432 differences.\cite{Zahn02} First, the $v_\textrm{c}$ term from equation
433 (\ref{eq:shiftingForm}) is equal to equation (\ref{eq:dampCoulomb})
434 with $r$ replaced by $R_\textrm{c}$. This term is {\it not} present
435 in the Zahn potential, resulting in a potential discontinuity as
436 particles cross $R_\textrm{c}$. Second, the sign of the derivative
437 portion is different. The missing $v_\textrm{c}$ term would not
438 affect molecular dynamics simulations (although the computed energy
439 would be expected to have sudden jumps as particle distances crossed
440 $R_c$). The sign problem is a potential source of errors, however.
441 In fact, it introduces a discontinuity in the forces at the cutoff,
442 because the force function is shifted in the wrong direction and
443 doesn't cross zero at $R_\textrm{c}$.
444
445 Equations (\ref{eq:DSFPot}) and (\ref{eq:DSFForces}) result in an
446 electrostatic summation method in which the potential and forces are
447 continuous at the cutoff radius and which incorporates the damping
448 function proposed by Wolf \textit{et al.}\cite{Wolf99} In the rest of
449 this paper, we will evaluate exactly how good these methods ({\sc sp},
450 {\sc sf}, damping) are at reproducing the correct electrostatic
451 summation performed by the Ewald sum.
452
453
454 \section{Evaluating Pairwise Summation Techniques}
455
456 In classical molecular mechanics simulations, there are two primary
457 techniques utilized to obtain information about the system of
458 interest: Monte Carlo (MC) and Molecular Dynamics (MD). Both of these
459 techniques utilize pairwise summations of interactions between
460 particle sites, but they use these summations in different ways.
461
462 In MC, the potential energy difference between configurations dictates
463 the progression of MC sampling. Going back to the origins of this
464 method, the acceptance criterion for the canonical ensemble laid out
465 by Metropolis \textit{et al.} states that a subsequent configuration
466 is accepted if $\Delta E < 0$ or if $\xi < \exp(-\Delta E/kT)$, where
467 $\xi$ is a random number between 0 and 1.\cite{Metropolis53}
468 Maintaining the correct $\Delta E$ when using an alternate method for
469 handling the long-range electrostatics will ensure proper sampling
470 from the ensemble.
471
472 In MD, the derivative of the potential governs how the system will
473 progress in time. Consequently, the force and torque vectors on each
474 body in the system dictate how the system evolves. If the magnitude
475 and direction of these vectors are similar when using alternate
476 electrostatic summation techniques, the dynamics in the short term
477 will be indistinguishable. Because error in MD calculations is
478 cumulative, one should expect greater deviation at longer times,
479 although methods which have large differences in the force and torque
480 vectors will diverge from each other more rapidly.
481
482 \subsection{Monte Carlo and the Energy Gap}\label{sec:MCMethods}
483
484 The pairwise summation techniques (outlined in section
485 \ref{sec:ESMethods}) were evaluated for use in MC simulations by
486 studying the energy differences between conformations. We took the
487 {\sc spme}-computed energy difference between two conformations to be the
488 correct behavior. An ideal performance by an alternative method would
489 reproduce these energy differences exactly (even if the absolute
490 energies calculated by the methods are different). Since none of the
491 methods provide exact energy differences, we used linear least squares
492 regressions of energy gap data to evaluate how closely the methods
493 mimicked the Ewald energy gaps. Unitary results for both the
494 correlation (slope) and correlation coefficient for these regressions
495 indicate perfect agreement between the alternative method and {\sc spme}.
496 Sample correlation plots for two alternate methods are shown in
497 Fig. \ref{fig:linearFit}.
498
499 \begin{figure}
500 \centering
501 \includegraphics[width = \linewidth]{./figures/dualLinear.pdf}
502 \caption{Example least squares regressions of the configuration energy
503 differences for SPC/E water systems. The upper plot shows a data set
504 with a poor correlation coefficient ($R^2$), while the lower plot
505 shows a data set with a good correlation coefficient.}
506 \label{fig:linearFit}
507 \end{figure}
508
509 Each of the seven system types (detailed in section \ref{sec:RepSims})
510 were represented using 500 independent configurations. Thus, each of
511 the alternative (non-Ewald) electrostatic summation methods was
512 evaluated using an accumulated 873,250 configurational energy
513 differences.
514
515 Results and discussion for the individual analysis of each of the
516 system types appear in sections \ref{sec:IndividualResults}, while the
517 cumulative results over all the investigated systems appear below in
518 sections \ref{sec:EnergyResults}.
519
520 \subsection{Molecular Dynamics and the Force and Torque
521 Vectors}\label{sec:MDMethods} We evaluated the pairwise methods
522 (outlined in section \ref{sec:ESMethods}) for use in MD simulations by
523 comparing the force and torque vectors with those obtained using the
524 reference Ewald summation ({\sc spme}). Both the magnitude and the
525 direction of these vectors on each of the bodies in the system were
526 analyzed. For the magnitude of these vectors, linear least squares
527 regression analyses were performed as described previously for
528 comparing $\Delta E$ values. Instead of a single energy difference
529 between two system configurations, we compared the magnitudes of the
530 forces (and torques) on each molecule in each configuration. For a
531 system of 1000 water molecules and 40 ions, there are 1040 force
532 vectors and 1000 torque vectors. With 500 configurations, this
533 results in 520,000 force and 500,000 torque vector comparisons.
534 Additionally, data from seven different system types was aggregated
535 before the comparison was made.
536
537 The {\it directionality} of the force and torque vectors was
538 investigated through measurement of the angle ($\theta$) formed
539 between those computed from the particular method and those from {\sc spme},
540 \begin{equation}
541 \theta_f = \cos^{-1} \left(\hat{F}_\textrm{SPME}
542 \cdot \hat{F}_\textrm{M}\right),
543 \end{equation}
544 where $\hat{F}_\textrm{M}$ is the unit vector pointing along the force
545 vector computed using method M. Each of these $\theta$ values was
546 accumulated in a distribution function and weighted by the area on the
547 unit sphere. Since this distribution is a measure of angular error
548 between two different electrostatic summation methods, there is no
549 {\it a priori} reason for the profile to adhere to any specific
550 shape. Thus, gaussian fits were used to measure the width of the
551 resulting distributions. The variance ($\sigma^2$) was extracted from
552 each of these fits and was used to compare distribution widths.
553 Values of $\sigma^2$ near zero indicate vector directions
554 indistinguishable from those calculated when using the reference
555 method ({\sc spme}).
556
557 \subsection{Short-time Dynamics}
558
559 The effects of the alternative electrostatic summation methods on the
560 short-time dynamics of charged systems were evaluated by considering a
561 NaCl crystal at a temperature of 1000 K. A subset of the best
562 performing pairwise methods was used in this comparison. The NaCl
563 crystal was chosen to avoid possible complications from the treatment
564 of orientational motion in molecular systems. All systems were
565 started with the same initial positions and velocities. Simulations
566 were performed under the microcanonical ensemble, and velocity
567 autocorrelation functions (Eq. \ref{eq:vCorr}) were computed for each
568 of the trajectories,
569 \begin{equation}
570 C_v(t) = \frac{\langle v(0)\cdot v(t)\rangle}{\langle v^2\rangle}.
571 \label{eq:vCorr}
572 \end{equation}
573 Velocity autocorrelation functions require detailed short time data,
574 thus velocity information was saved every 2fs over 10ps
575 trajectories. Because the NaCl crystal is composed of two different
576 atom types, the average of the two resulting velocity autocorrelation
577 functions was used for comparisons.
578
579 \subsection{Long-Time and Collective Motion}\label{sec:LongTimeMethods}
580
581 The effects of the same subset of alternative electrostatic methods on
582 the {\it long-time} dynamics of charged systems were evaluated using
583 the same model system (NaCl crystals at 1000K). The power spectrum
584 ($I(\omega)$) was obtained via Fourier transform of the velocity
585 autocorrelation function,
586 \begin{equation} I(\omega) =
587 \frac{1}{2\pi}\int^{\infty}_{-\infty}C_v(t)e^{-i\omega t}dt,
588 \label{eq:powerSpec}
589 \end{equation}
590 where the frequency, $\omega=0,\ 1,\ ...,\ N-1$. Again, because the
591 NaCl crystal is composed of two different atom types, the average of
592 the two resulting power spectra was used for comparisons. Simulations
593 were performed under the microcanonical ensemble, and velocity
594 information was saved every 5fs over 100ps trajectories.
595
596 \subsection{Representative Simulations}\label{sec:RepSims}
597 A variety of representative molecular simulations were analyzed to
598 determine the relative effectiveness of the pairwise summation
599 techniques in reproducing the energetics and dynamics exhibited by
600 {\sc spme}. We wanted to span the space of typical molecular
601 simulations (i.e. from liquids of neutral molecules to ionic
602 crystals), so the systems studied were:
603
604 \begin{enumerate}[itemsep=0pt]
605 \item liquid water (SPC/E),\cite{Berendsen87}
606 \item crystalline water (Ice I$_\textrm{c}$ crystals of SPC/E),
607 \item NaCl crystals,
608 \item NaCl melts,
609 \item a low ionic strength solution of NaCl in water (0.11 M),
610 \item a high ionic strength solution of NaCl in water (1.1 M), and
611 \item a 6\AA\ radius sphere of Argon in water.
612 \end{enumerate}
613
614 By utilizing the pairwise techniques (outlined in section
615 \ref{sec:ESMethods}) in systems composed entirely of neutral groups,
616 charged particles, and mixtures of the two, we hope to discern under
617 which conditions it will be possible to use one of the alternative
618 summation methodologies instead of the Ewald sum.
619
620 For the solid and liquid water configurations, configurations were
621 taken at regular intervals from high temperature trajectories of 1000
622 SPC/E water molecules. Each configuration was equilibrated
623 independently at a lower temperature (300K for the liquid, 200K for
624 the crystal). The solid and liquid NaCl systems consisted of 500
625 $\textrm{Na}^{+}$ and 500 $\textrm{Cl}^{-}$ ions. Configurations for
626 these systems were selected and equilibrated in the same manner as the
627 water systems. In order to introduce measurable fluctuations in the
628 configuration energy differences, the crystalline simulations were
629 equilibrated at 1000K, near the $T_\textrm{m}$ for NaCl. The liquid
630 NaCl configurations needed to represent a fully disordered array of
631 point charges, so the high temperature of 7000K was selected for
632 equilibration. The ionic solutions were made by solvating 4 (or 40)
633 ions in a periodic box containing 1000 SPC/E water molecules. Ion and
634 water positions were then randomly swapped, and the resulting
635 configurations were again equilibrated individually. Finally, for the
636 Argon / Water ``charge void'' systems, the identities of all the SPC/E
637 waters within 6\AA\ of the center of the equilibrated water
638 configurations were converted to argon.
639
640 These procedures guaranteed us a set of representative configurations
641 from chemically-relevant systems sampled from appropriate
642 ensembles. Force field parameters for the ions and Argon were taken
643 from the force field utilized by {\sc oopse}.\cite{Meineke05}
644
645 \subsection{Comparison of Summation Methods}\label{sec:ESMethods}
646 We compared the following alternative summation methods with results
647 from the reference method ({\sc spme}):
648
649 \begin{enumerate}[itemsep=0pt]
650 \item {\sc sp} with damping parameters ($\alpha$) of 0.0, 0.1, 0.2,
651 and 0.3\AA$^{-1}$,
652 \item {\sc sf} with damping parameters ($\alpha$) of 0.0, 0.1, 0.2,
653 and 0.3\AA$^{-1}$,
654 \item reaction field with an infinite dielectric constant, and
655 \item an unmodified cutoff.
656 \end{enumerate}
657
658 Group-based cutoffs with a fifth-order polynomial switching function
659 were utilized for the reaction field simulations. Additionally, we
660 investigated the use of these cutoffs with the {\sc sp}, {\sc sf}, and pure
661 cutoff. The {\sc spme} electrostatics were performed using the {\sc tinker}
662 implementation of {\sc spme},\cite{Ponder87} while all other calculations
663 were performed using the {\sc oopse} molecular mechanics
664 package.\cite{Meineke05} All other portions of the energy calculation
665 (i.e. Lennard-Jones interactions) were handled in exactly the same
666 manner across all systems and configurations.
667
668 The alternative methods were also evaluated with three different
669 cutoff radii (9, 12, and 15\AA). As noted previously, the
670 convergence parameter ($\alpha$) plays a role in the balance of the
671 real-space and reciprocal-space portions of the Ewald calculation.
672 Typical molecular mechanics packages set this to a value dependent on
673 the cutoff radius and a tolerance (typically less than $1 \times
674 10^{-4}$ kcal/mol). Smaller tolerances are typically associated with
675 increasing accuracy at the expense of computational time spent on the
676 reciprocal-space portion of the summation.\cite{Perram88,Essmann95}
677 The default {\sc tinker} tolerance of $1 \times 10^{-8}$ kcal/mol was used
678 in all {\sc spme} calculations, resulting in Ewald coefficients of 0.4200,
679 0.3119, and 0.2476\AA$^{-1}$ for cutoff radii of 9, 12, and 15\AA\
680 respectively.
681
682 \section{Configuration Energy Difference Results}\label{sec:EnergyResults}
683 In order to evaluate the performance of the pairwise electrostatic
684 summation methods for Monte Carlo (MC) simulations, the energy
685 differences between configurations were compared to the values
686 obtained when using {\sc spme}. The results for the combined
687 regression analysis of all of the systems are shown in figure
688 \ref{fig:delE}.
689
690 \begin{figure}
691 \centering
692 \includegraphics[width=4.75in]{./figures/delEplot.pdf}
693 \caption{Statistical analysis of the quality of configurational energy
694 differences for a given electrostatic method compared with the
695 reference Ewald sum. Results with a value equal to 1 (dashed line)
696 indicate $\Delta E$ values indistinguishable from those obtained using
697 {\sc spme}. Different values of the cutoff radius are indicated with
698 different symbols (9\AA\ = circles, 12\AA\ = squares, and 15\AA\ =
699 inverted triangles).}
700 \label{fig:delE}
701 \end{figure}
702
703 The most striking feature of this plot is how well the Shifted Force
704 ({\sc sf}) and Shifted Potential ({\sc sp}) methods capture the energy
705 differences. For the undamped {\sc sf} method, and the
706 moderately-damped {\sc sp} methods, the results are nearly
707 indistinguishable from the Ewald results. The other common methods do
708 significantly less well.
709
710 The unmodified cutoff method is essentially unusable. This is not
711 surprising since hard cutoffs give large energy fluctuations as atoms
712 or molecules move in and out of the cutoff
713 radius.\cite{Rahman71,Adams79} These fluctuations can be alleviated to
714 some degree by using group based cutoffs with a switching
715 function.\cite{Adams79,Steinbach94,Leach01} However, we do not see
716 significant improvement using the group-switched cutoff because the
717 salt and salt solution systems contain non-neutral groups. Section
718 \ref{sec:IndividualResults} includes results for systems comprised entirely
719 of neutral groups.
720
721 For the {\sc sp} method, inclusion of electrostatic damping improves
722 the agreement with Ewald, and using an $\alpha$ of 0.2\AA $^{-1}$
723 shows an excellent correlation and quality of fit with the {\sc spme}
724 results, particularly with a cutoff radius greater than 12
725 \AA . Use of a larger damping parameter is more helpful for the
726 shortest cutoff shown, but it has a detrimental effect on simulations
727 with larger cutoffs.
728
729 In the {\sc sf} sets, increasing damping results in progressively {\it
730 worse} correlation with Ewald. Overall, the undamped case is the best
731 performing set, as the correlation and quality of fits are
732 consistently superior regardless of the cutoff distance. The undamped
733 case is also less computationally demanding (because no evaluation of
734 the complementary error function is required).
735
736 The reaction field results illustrates some of that method's
737 limitations, primarily that it was developed for use in homogeneous
738 systems; although it does provide results that are an improvement over
739 those from an unmodified cutoff.
740
741 \section{Magnitude of the Force and Torque Vector Results}\label{sec:FTMagResults}
742
743 Evaluation of pairwise methods for use in Molecular Dynamics
744 simulations requires consideration of effects on the forces and
745 torques. Figures \ref{fig:frcMag} and \ref{fig:trqMag} show the
746 regression results for the force and torque vector magnitudes,
747 respectively. The data in these figures was generated from an
748 accumulation of the statistics from all of the system types.
749
750 \begin{figure}
751 \centering
752 \includegraphics[width=4.75in]{./figures/frcMagplot.pdf}
753 \caption{Statistical analysis of the quality of the force vector
754 magnitudes for a given electrostatic method compared with the
755 reference Ewald sum. Results with a value equal to 1 (dashed line)
756 indicate force magnitude values indistinguishable from those obtained
757 using {\sc spme}. Different values of the cutoff radius are indicated with
758 different symbols (9\AA\ = circles, 12\AA\ = squares, and 15\AA\ =
759 inverted triangles).}
760 \label{fig:frcMag}
761 \end{figure}
762
763 Again, it is striking how well the Shifted Potential and Shifted Force
764 methods are doing at reproducing the {\sc spme} forces. The undamped and
765 weakly-damped {\sc sf} method gives the best agreement with Ewald.
766 This is perhaps expected because this method explicitly incorporates a
767 smooth transition in the forces at the cutoff radius as well as the
768 neutralizing image charges.
769
770 Figure \ref{fig:frcMag}, for the most part, parallels the results seen
771 in the previous $\Delta E$ section. The unmodified cutoff results are
772 poor, but using group based cutoffs and a switching function provides
773 an improvement much more significant than what was seen with $\Delta
774 E$.
775
776 With moderate damping and a large enough cutoff radius, the {\sc sp}
777 method is generating usable forces. Further increases in damping,
778 while beneficial for simulations with a cutoff radius of 9\AA\ , is
779 detrimental to simulations with larger cutoff radii.
780
781 The reaction field results are surprisingly good, considering the poor
782 quality of the fits for the $\Delta E$ results. There is still a
783 considerable degree of scatter in the data, but the forces correlate
784 well with the Ewald forces in general. We note that the reaction
785 field calculations do not include the pure NaCl systems, so these
786 results are partly biased towards conditions in which the method
787 performs more favorably.
788
789 \begin{figure}
790 \centering
791 \includegraphics[width=4.75in]{./figures/trqMagplot.pdf}
792 \caption{Statistical analysis of the quality of the torque vector
793 magnitudes for a given electrostatic method compared with the
794 reference Ewald sum. Results with a value equal to 1 (dashed line)
795 indicate torque magnitude values indistinguishable from those obtained
796 using {\sc spme}. Different values of the cutoff radius are indicated with
797 different symbols (9\AA\ = circles, 12\AA\ = squares, and 15\AA\ =
798 inverted triangles).}
799 \label{fig:trqMag}
800 \end{figure}
801
802 Molecular torques were only available from the systems which contained
803 rigid molecules (i.e. the systems containing water). The data in
804 fig. \ref{fig:trqMag} is taken from this smaller sampling pool.
805
806 Torques appear to be much more sensitive to charges at a longer
807 distance. The striking feature in comparing the new electrostatic
808 methods with {\sc spme} is how much the agreement improves with increasing
809 cutoff radius. Again, the weakly damped and undamped {\sc sf} method
810 appears to be reproducing the {\sc spme} torques most accurately.
811
812 Water molecules are dipolar, and the reaction field method reproduces
813 the effect of the surrounding polarized medium on each of the
814 molecular bodies. Therefore it is not surprising that reaction field
815 performs best of all of the methods on molecular torques.
816
817 \section{Directionality of the Force and Torque Vector Results}\label{sec:FTDirResults}
818
819 It is clearly important that a new electrostatic method can reproduce
820 the magnitudes of the force and torque vectors obtained via the Ewald
821 sum. However, the {\it directionality} of these vectors will also be
822 vital in calculating dynamical quantities accurately. Force and
823 torque directionalities were investigated by measuring the angles
824 formed between these vectors and the same vectors calculated using
825 {\sc spme}. The results (Fig. \ref{fig:frcTrqAng}) are compared through the
826 variance ($\sigma^2$) of the Gaussian fits of the angle error
827 distributions of the combined set over all system types.
828
829 \begin{figure}
830 \centering
831 \includegraphics[width=4.75in]{./figures/frcTrqAngplot.pdf}
832 \caption{Statistical analysis of the width of the angular distribution
833 that the force and torque vectors from a given electrostatic method
834 make with their counterparts obtained using the reference Ewald sum.
835 Results with a variance ($\sigma^2$) equal to zero (dashed line)
836 indicate force and torque directions indistinguishable from those
837 obtained using {\sc spme}. Different values of the cutoff radius are
838 indicated with different symbols (9\AA\ = circles, 12\AA\ = squares,
839 and 15\AA\ = inverted triangles).}
840 \label{fig:frcTrqAng}
841 \end{figure}
842
843 Both the force and torque $\sigma^2$ results from the analysis of the
844 total accumulated system data are tabulated in figure
845 \ref{fig:frcTrqAng}. Here it is clear that the Shifted Potential ({\sc
846 sp}) method would be essentially unusable for molecular dynamics
847 unless the damping function is added. The Shifted Force ({\sc sf})
848 method, however, is generating force and torque vectors which are
849 within a few degrees of the Ewald results even with weak (or no)
850 damping.
851
852 All of the sets (aside from the over-damped case) show the improvement
853 afforded by choosing a larger cutoff radius. Increasing the cutoff
854 from 9 to 12\AA\ typically results in a halving of the width of the
855 distribution, with a similar improvement when going from 12 to 15
856 \AA .
857
858 The undamped {\sc sf}, group-based cutoff, and reaction field methods
859 all do equivalently well at capturing the direction of both the force
860 and torque vectors. Using the electrostatic damping improves the
861 angular behavior significantly for the {\sc sp} and moderately for the
862 {\sc sf} methods. Over-damping is detrimental to both methods. Again
863 it is important to recognize that the force vectors cover all
864 particles in all seven systems, while torque vectors are only
865 available for neutral molecular groups. Damping is more beneficial to
866 charged bodies, and this observation is investigated further in
867 section \ref{sec:IndividualResults}.
868
869 Although not discussed previously, group based cutoffs can be applied
870 to both the {\sc sp} and {\sc sf} methods. The group-based cutoffs
871 will reintroduce small discontinuities at the cutoff radius, but the
872 effects of these can be minimized by utilizing a switching function.
873 Though there are no significant benefits or drawbacks observed in
874 $\Delta E$ and the force and torque magnitudes when doing this, there
875 is a measurable improvement in the directionality of the forces and
876 torques. Table \ref{tab:groupAngle} shows the angular variances
877 obtained both without (N) and with (Y) group based cutoffs and a
878 switching function. Note that the $\alpha$ values have units of
879 \AA$^{-1}$ and the variance values have units of degrees$^2$. The
880 {\sc sp} (with an $\alpha$ of 0.2\AA$^{-1}$ or smaller) shows much
881 narrower angular distributions when using group-based cutoffs. The
882 {\sc sf} method likewise shows improvement in the undamped and lightly
883 damped cases.
884
885 \begin{table}
886 \caption{STATISTICAL ANALYSIS OF THE ANGULAR DISTRIBUTIONS ($\sigma^2$)
887 THAT THE FORCE ({\it upper}) AND TORQUE ({\it lower}) VECTORS FROM A
888 GIVEN ELECTROSTATIC METHOD MAKE WITH THEIR COUNTERPARTS OBTAINED USING
889 THE REFERENCE EWALD SUMMATION}
890
891 \footnotesize
892 \begin{center}
893 \begin{tabular}{@{} ccrrrrrrrr @{}}
894 \toprule
895 \toprule
896 & &\multicolumn{4}{c}{Shifted Potential} & \multicolumn{4}{c}{Shifted
897 Force} \\
898 \cmidrule(lr){3-6} \cmidrule(l){7-10} $R_\textrm{c}$ & Groups &
899 $\alpha = 0$ & $\alpha = 0.1$ & $\alpha = 0.2$ & $\alpha = 0.3$ &
900 $\alpha = 0$ & $\alpha = 0.1$ & $\alpha = 0.2$ & $\alpha = 0.3$\\
901
902 \midrule
903
904 9\AA & N & 29.545 & 12.003 & 5.489 & 0.610 & 2.323 & 2.321 & 0.429 & 0.603 \\
905 & \textbf{Y} & \textbf{2.486} & \textbf{2.160} & \textbf{0.667} & \textbf{0.608} & \textbf{1.768} & \textbf{1.766} & \textbf{0.676} & \textbf{0.609} \\
906 12\AA & N & 19.381 & 3.097 & 0.190 & 0.608 & 0.920 & 0.736 & 0.133 & 0.612 \\
907 & \textbf{Y} & \textbf{0.515} & \textbf{0.288} & \textbf{0.127} & \textbf{0.586} & \textbf{0.308} & \textbf{0.249} & \textbf{0.127} & \textbf{0.586} \\
908 15\AA & N & 12.700 & 1.196 & 0.123 & 0.601 & 0.339 & 0.160 & 0.123 & 0.601 \\
909 & \textbf{Y} & \textbf{0.228} & \textbf{0.099} & \textbf{0.121} & \textbf{0.598} & \textbf{0.144} & \textbf{0.090} & \textbf{0.121} & \textbf{0.598} \\
910
911 \midrule
912
913 9\AA & N & 262.716 & 116.585 & 5.234 & 5.103 & 2.392 & 2.350 & 1.770 & 5.122 \\
914 & \textbf{Y} & \textbf{2.115} & \textbf{1.914} & \textbf{1.878} & \textbf{5.142} & \textbf{2.076} & \textbf{2.039} & \textbf{1.972} & \textbf{5.146} \\
915 12\AA & N & 129.576 & 25.560 & 1.369 & 5.080 & 0.913 & 0.790 & 1.362 & 5.124 \\
916 & \textbf{Y} & \textbf{0.810} & \textbf{0.685} & \textbf{1.352} & \textbf{5.082} & \textbf{0.765} & \textbf{0.714} & \textbf{1.360} & \textbf{5.082} \\
917 15\AA & N & 87.275 & 4.473 & 1.271 & 5.000 & 0.372 & 0.312 & 1.271 & 5.000 \\
918 & \textbf{Y} & \textbf{0.282} & \textbf{0.294} & \textbf{1.272} & \textbf{4.999} & \textbf{0.324} & \textbf{0.318} & \textbf{1.272} & \textbf{4.999} \\
919
920 \bottomrule
921 \end{tabular}
922 \end{center}
923 \label{tab:groupAngle}
924 \end{table}
925
926 One additional trend in table \ref{tab:groupAngle} is that the
927 $\sigma^2$ values for both {\sc sp} and {\sc sf} converge as $\alpha$
928 increases, something that is more obvious with group-based cutoffs.
929 The complimentary error function inserted into the potential weakens
930 the electrostatic interaction as the value of $\alpha$ is increased.
931 However, at larger values of $\alpha$, it is possible to over-damp the
932 electrostatic interaction and to remove it completely. Kast
933 \textit{et al.} developed a method for choosing appropriate $\alpha$
934 values for these types of electrostatic summation methods by fitting
935 to $g(r)$ data, and their methods indicate optimal values of 0.34,
936 0.25, and 0.16\AA$^{-1}$ for cutoff values of 9, 12, and 15\AA\
937 respectively.\cite{Kast03} These appear to be reasonable choices to
938 obtain proper MC behavior (Fig. \ref{fig:delE}); however, based on
939 these findings, choices this high would introduce error in the
940 molecular torques, particularly for the shorter cutoffs. Based on our
941 observations, empirical damping up to 0.2\AA$^{-1}$ is beneficial,
942 but damping may be unnecessary when using the {\sc sf} method.
943
944 \section{Individual System Analysis Results}\label{sec:IndividualResults}
945
946 The combined results of the previous sections show how the pairwise
947 methods compare to the Ewald summation in the general sense over all
948 of the system types. It is also useful to consider each of the
949 studied systems in an individual fashion, so that we can identify
950 conditions that are particularly difficult for a selected pairwise
951 method to address. This allows us to further establish the limitations
952 of these pairwise techniques. Below, the energy difference, force
953 vector, and torque vector analyses are presented on an individual
954 system basis.
955
956 \subsection{SPC/E Water Results}\label{sec:WaterResults}
957
958 The first system considered was liquid water at 300K using the SPC/E
959 model of water.\cite{Berendsen87} The results for the energy gap
960 comparisons and the force and torque vector magnitude comparisons are
961 shown in table \ref{tab:spce}. The force and torque vector
962 directionality results are displayed separately in table
963 \ref{tab:spceAng}, where the effect of group-based cutoffs and
964 switching functions on the {\sc sp} and {\sc sf} potentials are also
965 investigated. In all of the individual results table, the method
966 abbreviations are as follows:
967
968 \begin{itemize}[itemsep=0pt]
969 \item PC = Pure Cutoff,
970 \item SP = Shifted Potential,
971 \item SF = Shifted Force,
972 \item GSC = Group Switched Cutoff,
973 \item RF = Reaction Field (where $\varepsilon \approx\infty$),
974 \item GSSP = Group Switched Shifted Potential, and
975 \item GSSF = Group Switched Shifted Force.
976 \end{itemize}
977
978 \begin{table}[htbp]
979 \centering
980 \caption{REGRESSION RESULTS OF THE LIQUID WATER SYSTEM FOR THE
981 $\Delta E$ VALUES ({\it upper}), FORCE VECTOR MAGNITUDES ({\it middle})
982 AND TORQUE VECTOR MAGNITUDES ({\it lower})}
983
984 \footnotesize
985 \begin{tabular}{@{} ccrrrrrr @{}}
986 \toprule
987 \toprule
988 & & \multicolumn{2}{c}{9\AA} & \multicolumn{2}{c}{12\AA} & \multicolumn{2}{c}{15\AA}\\
989 \cmidrule(lr){3-4}
990 \cmidrule(lr){5-6}
991 \cmidrule(l){7-8}
992 Method & $\alpha$ & slope & $R^2$ & slope & $R^2$ & slope & $R^2$ \\
993 \midrule
994 PC & & 3.046 & 0.002 & -3.018 & 0.002 & 4.719 & 0.005 \\
995 SP & 0.0 & 1.035 & 0.218 & 0.908 & 0.313 & 1.037 & 0.470 \\
996 & 0.1 & 1.021 & 0.387 & 0.965 & 0.752 & 1.006 & 0.947 \\
997 & 0.2 & 0.997 & 0.962 & 1.001 & 0.994 & 0.994 & 0.996 \\
998 & 0.3 & 0.984 & 0.980 & 0.997 & 0.985 & 0.982 & 0.987 \\
999 SF & 0.0 & 0.977 & 0.974 & 0.996 & 0.992 & 0.991 & 0.997 \\
1000 & 0.1 & 0.983 & 0.974 & 1.001 & 0.994 & 0.996 & 0.998 \\
1001 & 0.2 & 0.992 & 0.989 & 1.001 & 0.995 & 0.994 & 0.996 \\
1002 & 0.3 & 0.984 & 0.980 & 0.996 & 0.985 & 0.982 & 0.987 \\
1003 GSC & & 0.918 & 0.862 & 0.852 & 0.756 & 0.801 & 0.700 \\
1004 RF & & 0.971 & 0.958 & 0.975 & 0.987 & 0.959 & 0.983 \\
1005 \midrule
1006 PC & & -1.647 & 0.000 & -0.127 & 0.000 & -0.979 & 0.000 \\
1007 SP & 0.0 & 0.735 & 0.368 & 0.813 & 0.537 & 0.865 & 0.659 \\
1008 & 0.1 & 0.850 & 0.612 & 0.956 & 0.887 & 0.992 & 0.979 \\
1009 & 0.2 & 0.996 & 0.989 & 1.000 & 1.000 & 1.000 & 1.000 \\
1010 & 0.3 & 0.996 & 0.998 & 0.997 & 0.998 & 0.996 & 0.998 \\
1011 SF & 0.0 & 0.998 & 0.995 & 1.000 & 0.999 & 1.000 & 0.999 \\
1012 & 0.1 & 0.998 & 0.995 & 1.000 & 0.999 & 1.000 & 1.000 \\
1013 & 0.2 & 0.999 & 0.998 & 1.000 & 1.000 & 1.000 & 1.000 \\
1014 & 0.3 & 0.996 & 0.998 & 0.997 & 0.998 & 0.996 & 0.998 \\
1015 GSC & & 0.998 & 0.995 & 1.000 & 0.999 & 1.000 & 1.000 \\
1016 RF & & 0.999 & 0.995 & 1.000 & 0.999 & 1.000 & 1.000 \\
1017 \midrule
1018 PC & & 2.387 & 0.000 & 0.183 & 0.000 & 1.282 & 0.000 \\
1019 SP & 0.0 & 0.847 & 0.543 & 0.904 & 0.694 & 0.935 & 0.786 \\
1020 & 0.1 & 0.922 & 0.749 & 0.980 & 0.934 & 0.996 & 0.988 \\
1021 & 0.2 & 0.987 & 0.985 & 0.989 & 0.992 & 0.990 & 0.993 \\
1022 & 0.3 & 0.965 & 0.973 & 0.967 & 0.975 & 0.967 & 0.976 \\
1023 SF & 0.0 & 0.978 & 0.990 & 0.988 & 0.997 & 0.993 & 0.999 \\
1024 & 0.1 & 0.983 & 0.991 & 0.993 & 0.997 & 0.997 & 0.999 \\
1025 & 0.2 & 0.986 & 0.989 & 0.989 & 0.992 & 0.990 & 0.993 \\
1026 & 0.3 & 0.965 & 0.973 & 0.967 & 0.975 & 0.967 & 0.976 \\
1027 GSC & & 0.995 & 0.981 & 0.999 & 0.991 & 1.001 & 0.994 \\
1028 RF & & 0.993 & 0.989 & 0.998 & 0.996 & 1.000 & 0.999 \\
1029 \bottomrule
1030 \end{tabular}
1031 \label{tab:spce}
1032 \end{table}
1033
1034 \begin{table}[htbp]
1035 \centering
1036 \caption{VARIANCE RESULTS FROM GAUSSIAN FITS TO ANGULAR
1037 DISTRIBUTIONS OF THE FORCE AND TORQUE VECTORS IN THE LIQUID WATER
1038 SYSTEM}
1039
1040 \footnotesize
1041 \begin{tabular}{@{} ccrrrrrr @{}}
1042 \toprule
1043 \toprule
1044 & & \multicolumn{3}{c}{Force $\sigma^2$} & \multicolumn{3}{c}{Torque $\sigma^2$} \\
1045 \cmidrule(lr){3-5}
1046 \cmidrule(l){6-8}
1047 Method & $\alpha$ & 9\AA & 12\AA & 15\AA & 9\AA & 12\AA & 15\AA \\
1048 \midrule
1049 PC & & 783.759 & 481.353 & 332.677 & 248.674 & 144.382 & 98.535 \\
1050 SP & 0.0 & 659.440 & 380.699 & 250.002 & 235.151 & 134.661 & 88.135 \\
1051 & 0.1 & 293.849 & 67.772 & 11.609 & 105.090 & 23.813 & 4.369 \\
1052 & 0.2 & 5.975 & 0.136 & 0.094 & 5.553 & 1.784 & 1.536 \\
1053 & 0.3 & 0.725 & 0.707 & 0.693 & 7.293 & 6.933 & 6.748 \\
1054 SF & 0.0 & 2.238 & 0.713 & 0.292 & 3.290 & 1.090 & 0.416 \\
1055 & 0.1 & 2.238 & 0.524 & 0.115 & 3.184 & 0.945 & 0.326 \\
1056 & 0.2 & 0.374 & 0.102 & 0.094 & 2.598 & 1.755 & 1.537 \\
1057 & 0.3 & 0.721 & 0.707 & 0.693 & 7.322 & 6.933 & 6.748 \\
1058 GSC & & 2.431 & 0.614 & 0.274 & 5.135 & 2.133 & 1.339 \\
1059 RF & & 2.091 & 0.403 & 0.113 & 3.583 & 1.071 & 0.399 \\
1060 \midrule
1061 GSSP & 0.0 & 2.431 & 0.614 & 0.274 & 5.135 & 2.133 & 1.339 \\
1062 & 0.1 & 1.879 & 0.291 & 0.057 & 3.983 & 1.117 & 0.370 \\
1063 & 0.2 & 0.443 & 0.103 & 0.093 & 2.821 & 1.794 & 1.532 \\
1064 & 0.3 & 0.728 & 0.694 & 0.692 & 7.387 & 6.942 & 6.748 \\
1065 GSSF & 0.0 & 1.298 & 0.270 & 0.083 & 3.098 & 0.992 & 0.375 \\
1066 & 0.1 & 1.296 & 0.210 & 0.044 & 3.055 & 0.922 & 0.330 \\
1067 & 0.2 & 0.433 & 0.104 & 0.093 & 2.895 & 1.797 & 1.532 \\
1068 & 0.3 & 0.728 & 0.694 & 0.692 & 7.410 & 6.942 & 6.748 \\
1069 \bottomrule
1070 \end{tabular}
1071 \label{tab:spceAng}
1072 \end{table}
1073
1074 The water results parallel the combined results seen in sections
1075 \ref{sec:EnergyResults} through \ref{sec:FTDirResults}. There is good
1076 agreement with {\sc spme} in both energetic and dynamic behavior when
1077 using the {\sc sf} method with and without damping. The {\sc sp}
1078 method does well with an $\alpha$ around 0.2\AA$^{-1}$, particularly
1079 with cutoff radii greater than 12\AA. Over-damping the electrostatics
1080 reduces the agreement between both these methods and {\sc spme}.
1081
1082 The pure cutoff ({\sc pc}) method performs poorly, again mirroring the
1083 observations from the combined results. In contrast to these results, however, the use of a switching function and group
1084 based cutoffs greatly improves the results for these neutral water
1085 molecules. The group switched cutoff ({\sc gsc}) does not mimic the
1086 energetics of {\sc spme} as well as the {\sc sp} (with moderate
1087 damping) and {\sc sf} methods, but the dynamics are quite good. The
1088 switching functions correct discontinuities in the potential and
1089 forces, leading to these improved results. Such improvements with the
1090 use of a switching function have been recognized in previous
1091 studies,\cite{Andrea83,Steinbach94} and this proves to be a useful
1092 tactic for stably incorporating local area electrostatic effects.
1093
1094 The reaction field ({\sc rf}) method simply extends upon the results
1095 observed in the {\sc gsc} case. Both methods are similar in form
1096 (i.e. neutral groups, switching function), but {\sc rf} incorporates
1097 an added effect from the external dielectric. This similarity
1098 translates into the same good dynamic results and improved energetic
1099 agreement with {\sc spme}. Though this agreement is not to the level
1100 of the moderately damped {\sc sp} and {\sc sf} methods, these results
1101 show how incorporating some implicit properties of the surroundings
1102 (i.e. $\epsilon_\textrm{S}$) can improve the solvent depiction.
1103
1104 As a final note for the liquid water system, use of group cutoffs and a
1105 switching function leads to noticeable improvements in the {\sc sp}
1106 and {\sc sf} methods, primarily in directionality of the force and
1107 torque vectors (table \ref{tab:spceAng}). The {\sc sp} method shows
1108 significant narrowing of the angle distribution when using little to
1109 no damping and only modest improvement for the recommended conditions
1110 ($\alpha = 0.2$\AA$^{-1}$ and $R_\textrm{c}~\geqslant~12$\AA). The
1111 {\sc sf} method shows modest narrowing across all damping and cutoff
1112 ranges of interest. When over-damping these methods, group cutoffs and
1113 the switching function do not improve the force and torque
1114 directionalities.
1115
1116 \subsection{SPC/E Ice I$_\textrm{c}$ Results}\label{sec:IceResults}
1117
1118 In addition to the disordered molecular system above, the ordered
1119 molecular system of ice I$_\textrm{c}$ was also considered. Ice
1120 polymorph could have been used to fit this role; however, ice
1121 I$_\textrm{c}$ was chosen because it can form an ideal periodic
1122 lattice with the same number of water molecules used in the disordered
1123 liquid state case. The results for the energy gap comparisons and the
1124 force and torque vector magnitude comparisons are shown in table
1125 \ref{tab:ice}. The force and torque vector directionality results are
1126 displayed separately in table \ref{tab:iceAng}, where the effect of
1127 group-based cutoffs and switching functions on the {\sc sp} and {\sc
1128 sf} potentials are also displayed.
1129
1130 \begin{table}[htbp]
1131 \centering
1132 \caption{REGRESSION RESULTS OF THE ICE I$_\textrm{c}$ SYSTEM FOR
1133 $\Delta E$ VALUES ({\it upper}), FORCE VECTOR MAGNITUDES ({\it
1134 middle}) AND TORQUE VECTOR MAGNITUDES ({\it lower})}
1135
1136 \footnotesize
1137 \begin{tabular}{@{} ccrrrrrr @{}}
1138 \toprule
1139 \toprule
1140 & & \multicolumn{2}{c}{9\AA} & \multicolumn{2}{c}{12\AA} & \multicolumn{2}{c}{15\AA}\\
1141 \cmidrule(lr){3-4}
1142 \cmidrule(lr){5-6}
1143 \cmidrule(l){7-8}
1144 Method & $\alpha$ & slope & $R^2$ & slope & $R^2$ & slope & $R^2$ \\
1145 \midrule
1146 PC & & 19.897 & 0.047 & -29.214 & 0.048 & -3.771 & 0.001 \\
1147 SP & 0.0 & -0.014 & 0.000 & 2.135 & 0.347 & 0.457 & 0.045 \\
1148 & 0.1 & 0.321 & 0.017 & 1.490 & 0.584 & 0.886 & 0.796 \\
1149 & 0.2 & 0.896 & 0.872 & 1.011 & 0.998 & 0.997 & 0.999 \\
1150 & 0.3 & 0.983 & 0.997 & 0.992 & 0.997 & 0.991 & 0.997 \\
1151 SF & 0.0 & 0.943 & 0.979 & 1.048 & 0.978 & 0.995 & 0.999 \\
1152 & 0.1 & 0.948 & 0.979 & 1.044 & 0.983 & 1.000 & 0.999 \\
1153 & 0.2 & 0.982 & 0.997 & 0.969 & 0.960 & 0.997 & 0.999 \\
1154 & 0.3 & 0.985 & 0.997 & 0.961 & 0.961 & 0.991 & 0.997 \\
1155 GSC & & 0.983 & 0.985 & 0.966 & 0.994 & 1.003 & 0.999 \\
1156 RF & & 0.924 & 0.944 & 0.990 & 0.996 & 0.991 & 0.998 \\
1157 \midrule
1158 PC & & -4.375 & 0.000 & 6.781 & 0.000 & -3.369 & 0.000 \\
1159 SP & 0.0 & 0.515 & 0.164 & 0.856 & 0.426 & 0.743 & 0.478 \\
1160 & 0.1 & 0.696 & 0.405 & 0.977 & 0.817 & 0.974 & 0.964 \\
1161 & 0.2 & 0.981 & 0.980 & 1.001 & 1.000 & 1.000 & 1.000 \\
1162 & 0.3 & 0.996 & 0.998 & 0.997 & 0.999 & 0.997 & 0.999 \\
1163 SF & 0.0 & 0.991 & 0.995 & 1.003 & 0.998 & 0.999 & 1.000 \\
1164 & 0.1 & 0.992 & 0.995 & 1.003 & 0.998 & 1.000 & 1.000 \\
1165 & 0.2 & 0.998 & 0.998 & 0.981 & 0.962 & 1.000 & 1.000 \\
1166 & 0.3 & 0.996 & 0.998 & 0.976 & 0.957 & 0.997 & 0.999 \\
1167 GSC & & 0.997 & 0.996 & 0.998 & 0.999 & 1.000 & 1.000 \\
1168 RF & & 0.988 & 0.989 & 1.000 & 0.999 & 1.000 & 1.000 \\
1169 \midrule
1170 PC & & -6.367 & 0.000 & -3.552 & 0.000 & -3.447 & 0.000 \\
1171 SP & 0.0 & 0.643 & 0.409 & 0.833 & 0.607 & 0.961 & 0.805 \\
1172 & 0.1 & 0.791 & 0.683 & 0.957 & 0.914 & 1.000 & 0.989 \\
1173 & 0.2 & 0.974 & 0.991 & 0.993 & 0.998 & 0.993 & 0.998 \\
1174 & 0.3 & 0.976 & 0.992 & 0.977 & 0.992 & 0.977 & 0.992 \\
1175 SF & 0.0 & 0.979 & 0.997 & 0.992 & 0.999 & 0.994 & 1.000 \\
1176 & 0.1 & 0.984 & 0.997 & 0.996 & 0.999 & 0.998 & 1.000 \\
1177 & 0.2 & 0.991 & 0.997 & 0.974 & 0.958 & 0.993 & 0.998 \\
1178 & 0.3 & 0.977 & 0.992 & 0.956 & 0.948 & 0.977 & 0.992 \\
1179 GSC & & 0.999 & 0.997 & 0.996 & 0.999 & 1.002 & 1.000 \\
1180 RF & & 0.994 & 0.997 & 0.997 & 0.999 & 1.000 & 1.000 \\
1181 \bottomrule
1182 \end{tabular}
1183 \label{tab:ice}
1184 \end{table}
1185
1186 \begin{table}[htbp]
1187 \centering
1188 \caption{VARIANCE RESULTS FROM GAUSSIAN FITS TO ANGULAR DISTRIBUTIONS
1189 OF THE FORCE AND TORQUE VECTORS IN THE ICE I$_\textrm{c}$ SYSTEM}
1190
1191 \footnotesize
1192 \begin{tabular}{@{} ccrrrrrr @{}}
1193 \toprule
1194 \toprule
1195 & & \multicolumn{3}{c}{Force $\sigma^2$} & \multicolumn{3}{c}{Torque
1196 $\sigma^2$} \\
1197 \cmidrule(lr){3-5}
1198 \cmidrule(l){6-8}
1199 Method & $\alpha$ & 9\AA & 12\AA & 15\AA & 9\AA & 12\AA & 15\AA \\
1200 \midrule
1201 PC & & 2128.921 & 603.197 & 715.579 & 329.056 & 221.397 & 81.042 \\
1202 SP & 0.0 & 1429.341 & 470.320 & 447.557 & 301.678 & 197.437 & 73.840 \\
1203 & 0.1 & 590.008 & 107.510 & 18.883 & 118.201 & 32.472 & 3.599 \\
1204 & 0.2 & 10.057 & 0.105 & 0.038 & 2.875 & 0.572 & 0.518 \\
1205 & 0.3 & 0.245 & 0.260 & 0.262 & 2.365 & 2.396 & 2.327 \\
1206 SF & 0.0 & 1.745 & 1.161 & 0.212 & 1.135 & 0.426 & 0.155 \\
1207 & 0.1 & 1.721 & 0.868 & 0.082 & 1.118 & 0.358 & 0.118 \\
1208 & 0.2 & 0.201 & 0.040 & 0.038 & 0.786 & 0.555 & 0.518 \\
1209 & 0.3 & 0.241 & 0.260 & 0.262 & 2.368 & 2.400 & 2.327 \\
1210 GSC & & 1.483 & 0.261 & 0.099 & 0.926 & 0.295 & 0.095 \\
1211 RF & & 2.887 & 0.217 & 0.107 & 1.006 & 0.281 & 0.085 \\
1212 \midrule
1213 GSSP & 0.0 & 1.483 & 0.261 & 0.099 & 0.926 & 0.295 & 0.095 \\
1214 & 0.1 & 1.341 & 0.123 & 0.037 & 0.835 & 0.234 & 0.085 \\
1215 & 0.2 & 0.558 & 0.040 & 0.037 & 0.823 & 0.557 & 0.519 \\
1216 & 0.3 & 0.250 & 0.251 & 0.259 & 2.387 & 2.395 & 2.328 \\
1217 GSSF & 0.0 & 2.124 & 0.132 & 0.069 & 0.919 & 0.263 & 0.099 \\
1218 & 0.1 & 2.165 & 0.101 & 0.035 & 0.895 & 0.244 & 0.096 \\
1219 & 0.2 & 0.706 & 0.040 & 0.037 & 0.870 & 0.559 & 0.519 \\
1220 & 0.3 & 0.251 & 0.251 & 0.259 & 2.387 & 2.395 & 2.328 \\
1221 \bottomrule
1222 \end{tabular}
1223 \label{tab:iceAng}
1224 \end{table}
1225
1226 Highly ordered systems are a difficult test for the pairwise methods
1227 in that they lack the implicit periodicity of the Ewald summation. As
1228 expected, the energy gap agreement with {\sc spme} is reduced for the
1229 {\sc sp} and {\sc sf} methods with parameters that were ideal for the
1230 disordered liquid system. Moving to higher $R_\textrm{c}$ helps
1231 improve the agreement, though at an increase in computational cost.
1232 The dynamics of this crystalline system (both in magnitude and
1233 direction) are little affected. Both methods still reproduce the Ewald
1234 behavior with the same parameter recommendations from the previous
1235 section.
1236
1237 It is also worth noting that {\sc rf} exhibits improved energy gap
1238 results over the liquid water system. One possible explanation is
1239 that the ice I$_\textrm{c}$ crystal is ordered such that the net
1240 dipole moment of the crystal is zero. With $\epsilon_\textrm{S} =
1241 \infty$, the reaction field incorporates this structural organization
1242 by actively enforcing a zeroed dipole moment within each cutoff
1243 sphere.
1244
1245 \subsection{NaCl Melt Results}\label{sec:SaltMeltResults}
1246
1247 A high temperature NaCl melt was tested to gauge the accuracy of the
1248 pairwise summation methods in a disordered system of charges. The
1249 results for the energy gap comparisons and the force vector magnitude
1250 comparisons are shown in table \ref{tab:melt}. The force vector
1251 directionality results are displayed separately in table
1252 \ref{tab:meltAng}.
1253
1254 \begin{table}[htbp]
1255 \centering
1256 \caption{REGRESSION RESULTS OF THE MOLTEN SODIUM CHLORIDE SYSTEM FOR
1257 $\Delta E$ VALUES ({\it upper}) AND FORCE VECTOR MAGNITUDES ({\it
1258 lower})}
1259
1260 \footnotesize
1261 \begin{tabular}{@{} ccrrrrrr @{}}
1262 \toprule
1263 \toprule
1264 & & \multicolumn{2}{c}{9\AA} & \multicolumn{2}{c}{12\AA} & \multicolumn{2}{c}{15\AA}\\
1265 \cmidrule(lr){3-4}
1266 \cmidrule(lr){5-6}
1267 \cmidrule(l){7-8}
1268 Method & $\alpha$ & slope & $R^2$ & slope & $R^2$ & slope & $R^2$ \\
1269 \midrule
1270 PC & & -0.008 & 0.000 & -0.049 & 0.005 & -0.136 & 0.020 \\
1271 SP & 0.0 & 0.928 & 0.996 & 0.931 & 0.998 & 0.950 & 0.999 \\
1272 & 0.1 & 0.977 & 0.998 & 0.998 & 1.000 & 0.997 & 1.000 \\
1273 & 0.2 & 0.960 & 1.000 & 0.813 & 0.996 & 0.811 & 0.954 \\
1274 & 0.3 & 0.671 & 0.994 & 0.439 & 0.929 & 0.535 & 0.831 \\
1275 SF & 0.0 & 0.996 & 1.000 & 0.995 & 1.000 & 0.997 & 1.000 \\
1276 & 0.1 & 1.021 & 1.000 & 1.024 & 1.000 & 1.007 & 1.000 \\
1277 & 0.2 & 0.966 & 1.000 & 0.813 & 0.996 & 0.811 & 0.954 \\
1278 & 0.3 & 0.671 & 0.994 & 0.439 & 0.929 & 0.535 & 0.831 \\
1279 \midrule
1280 PC & & 1.103 & 0.000 & 0.989 & 0.000 & 0.802 & 0.000 \\
1281 SP & 0.0 & 0.973 & 0.981 & 0.975 & 0.988 & 0.979 & 0.992 \\
1282 & 0.1 & 0.987 & 0.992 & 0.993 & 0.998 & 0.997 & 0.999 \\
1283 & 0.2 & 0.993 & 0.996 & 0.985 & 0.988 & 0.986 & 0.981 \\
1284 & 0.3 & 0.956 & 0.956 & 0.940 & 0.912 & 0.948 & 0.929 \\
1285 SF & 0.0 & 0.996 & 0.997 & 0.997 & 0.999 & 0.998 & 1.000 \\
1286 & 0.1 & 1.000 & 0.997 & 1.001 & 0.999 & 1.000 & 1.000 \\
1287 & 0.2 & 0.994 & 0.996 & 0.985 & 0.988 & 0.986 & 0.981 \\
1288 & 0.3 & 0.956 & 0.956 & 0.940 & 0.912 & 0.948 & 0.929 \\
1289 \bottomrule
1290 \end{tabular}
1291 \label{tab:melt}
1292 \end{table}
1293
1294 \begin{table}[htbp]
1295 \centering
1296 \caption{VARIANCE RESULTS FROM GAUSSIAN FITS TO ANGULAR DISTRIBUTIONS
1297 OF THE FORCE VECTORS IN THE MOLTEN SODIUM CHLORIDE SYSTEM}
1298
1299 \footnotesize
1300 \begin{tabular}{@{} ccrrrrrr @{}}
1301 \toprule
1302 \toprule
1303 & & \multicolumn{3}{c}{Force $\sigma^2$} \\
1304 \cmidrule(lr){3-5}
1305 \cmidrule(l){6-8}
1306 Method & $\alpha$ & 9\AA & 12\AA & 15\AA \\
1307 \midrule
1308 PC & & 13.294 & 8.035 & 5.366 \\
1309 SP & 0.0 & 13.316 & 8.037 & 5.385 \\
1310 & 0.1 & 5.705 & 1.391 & 0.360 \\
1311 & 0.2 & 2.415 & 7.534 & 13.927 \\
1312 & 0.3 & 23.769 & 67.306 & 57.252 \\
1313 SF & 0.0 & 1.693 & 0.603 & 0.256 \\
1314 & 0.1 & 1.687 & 0.653 & 0.272 \\
1315 & 0.2 & 2.598 & 7.523 & 13.930 \\
1316 & 0.3 & 23.734 & 67.305 & 57.252 \\
1317 \bottomrule
1318 \end{tabular}
1319 \label{tab:meltAng}
1320 \end{table}
1321
1322 The molten NaCl system shows more sensitivity to the electrostatic
1323 damping than the water systems. The most noticeable point is that the
1324 undamped {\sc sf} method does very well at replicating the {\sc spme}
1325 configurational energy differences and forces. Light damping appears
1326 to minimally improve the dynamics, but this comes with a deterioration
1327 of the energy gap results. In contrast, this light damping improves
1328 the {\sc sp} energy gaps and forces. Moderate and heavy electrostatic
1329 damping reduce the agreement with {\sc spme} for both methods. From
1330 these observations, the undamped {\sc sf} method is the best choice
1331 for disordered systems of charges.
1332
1333 \subsection{NaCl Crystal Results}\label{sec:SaltCrystalResults}
1334
1335 Similar to the use of ice I$_\textrm{c}$ to investigate the role of
1336 order in molecular systems on the effectiveness of the pairwise
1337 methods, the 1000K NaCl crystal system was used to investigate the
1338 accuracy of the pairwise summation methods in an ordered system of
1339 charged particles. The results for the energy gap comparisons and the
1340 force vector magnitude comparisons are shown in table \ref{tab:salt}.
1341 The force vector directionality results are displayed separately in
1342 table \ref{tab:saltAng}.
1343
1344 \begin{table}[htbp]
1345 \centering
1346 \caption{REGRESSION RESULTS OF THE CRYSTALLINE SODIUM CHLORIDE
1347 SYSTEM FOR $\Delta E$ VALUES ({\it upper}) AND FORCE VECTOR MAGNITUDES
1348 ({\it lower})}
1349
1350 \footnotesize
1351 \begin{tabular}{@{} ccrrrrrr @{}}
1352 \toprule
1353 \toprule
1354 & & \multicolumn{2}{c}{9\AA} & \multicolumn{2}{c}{12\AA} & \multicolumn{2}{c}{15\AA}\\
1355 \cmidrule(lr){3-4}
1356 \cmidrule(lr){5-6}
1357 \cmidrule(l){7-8}
1358 Method & $\alpha$ & slope & $R^2$ & slope & $R^2$ & slope & $R^2$ \\
1359 \midrule
1360 PC & & -20.241 & 0.228 & -20.248 & 0.229 & -20.239 & 0.228 \\
1361 SP & 0.0 & 1.039 & 0.733 & 2.037 & 0.565 & 1.225 & 0.743 \\
1362 & 0.1 & 1.049 & 0.865 & 1.424 & 0.784 & 1.029 & 0.980 \\
1363 & 0.2 & 0.982 & 0.976 & 0.969 & 0.980 & 0.960 & 0.980 \\
1364 & 0.3 & 0.873 & 0.944 & 0.872 & 0.945 & 0.872 & 0.945 \\
1365 SF & 0.0 & 1.041 & 0.967 & 0.994 & 0.989 & 0.957 & 0.993 \\
1366 & 0.1 & 1.050 & 0.968 & 0.996 & 0.991 & 0.972 & 0.995 \\
1367 & 0.2 & 0.982 & 0.975 & 0.959 & 0.980 & 0.960 & 0.980 \\
1368 & 0.3 & 0.873 & 0.944 & 0.872 & 0.945 & 0.872 & 0.944 \\
1369 \midrule
1370 PC & & 0.795 & 0.000 & 0.792 & 0.000 & 0.793 & 0.000 \\
1371 SP & 0.0 & 0.916 & 0.829 & 1.086 & 0.791 & 1.010 & 0.936 \\
1372 & 0.1 & 0.958 & 0.917 & 1.049 & 0.943 & 1.001 & 0.995 \\
1373 & 0.2 & 0.981 & 0.981 & 0.982 & 0.984 & 0.981 & 0.984 \\
1374 & 0.3 & 0.950 & 0.952 & 0.950 & 0.953 & 0.950 & 0.953 \\
1375 SF & 0.0 & 1.002 & 0.983 & 0.997 & 0.994 & 0.991 & 0.997 \\
1376 & 0.1 & 1.003 & 0.984 & 0.996 & 0.995 & 0.993 & 0.997 \\
1377 & 0.2 & 0.983 & 0.980 & 0.981 & 0.984 & 0.981 & 0.984 \\
1378 & 0.3 & 0.950 & 0.952 & 0.950 & 0.953 & 0.950 & 0.953 \\
1379 \bottomrule
1380 \end{tabular}
1381 \label{tab:salt}
1382 \end{table}
1383
1384 \begin{table}[htbp]
1385 \centering
1386 \caption{VARIANCE RESULTS FROM GAUSSIAN FITS TO ANGULAR
1387 DISTRIBUTIONS OF THE FORCE VECTORS IN THE CRYSTALLINE SODIUM CHLORIDE
1388 SYSTEM}
1389
1390 \footnotesize
1391 \begin{tabular}{@{} ccrrrrrr @{}}
1392 \toprule
1393 \toprule
1394 & & \multicolumn{3}{c}{Force $\sigma^2$} \\
1395 \cmidrule(lr){3-5}
1396 \cmidrule(l){6-8}
1397 Method & $\alpha$ & 9\AA & 12\AA & 15\AA \\
1398 \midrule
1399 PC & & 111.945 & 111.824 & 111.866 \\
1400 SP & 0.0 & 112.414 & 152.215 & 38.087 \\
1401 & 0.1 & 52.361 & 42.574 & 2.819 \\
1402 & 0.2 & 10.847 & 9.709 & 9.686 \\
1403 & 0.3 & 31.128 & 31.104 & 31.029 \\
1404 SF & 0.0 & 10.025 & 3.555 & 1.648 \\
1405 & 0.1 & 9.462 & 3.303 & 1.721 \\
1406 & 0.2 & 11.454 & 9.813 & 9.701 \\
1407 & 0.3 & 31.120 & 31.105 & 31.029 \\
1408 \bottomrule
1409 \end{tabular}
1410 \label{tab:saltAng}
1411 \end{table}
1412
1413 The crystalline NaCl system is the most challenging test case for the
1414 pairwise summation methods, as evidenced by the results in tables
1415 \ref{tab:salt} and \ref{tab:saltAng}. The undamped and weakly damped
1416 {\sc sf} methods seem to be the best choices. These methods match well
1417 with {\sc spme} across the energy gap, force magnitude, and force
1418 directionality tests. The {\sc sp} method struggles in all cases,
1419 with the exception of good dynamics reproduction when using weak
1420 electrostatic damping with a large cutoff radius.
1421
1422 The moderate electrostatic damping case is not as good as we would
1423 expect given the long-time dynamics results observed for this system
1424 (see section \ref{sec:LongTimeDynamics}). Since the data tabulated in
1425 tables \ref{tab:salt} and \ref{tab:saltAng} are a test of
1426 instantaneous dynamics, this indicates that good long-time dynamics
1427 comes in part at the expense of short-time dynamics.
1428
1429 \subsection{0.11M NaCl Solution Results}
1430
1431 In an effort to bridge the charged atomic and neutral molecular
1432 systems, Na$^+$ and Cl$^-$ ion charge defects were incorporated into
1433 the liquid water system. This low ionic strength system consists of 4
1434 ions in the 1000 SPC/E water solvent ($\approx$0.11 M). The results
1435 for the energy gap comparisons and the force and torque vector
1436 magnitude comparisons are shown in table \ref{tab:solnWeak}. The
1437 force and torque vector directionality results are displayed
1438 separately in table \ref{tab:solnWeakAng}, where the effect of
1439 group-based cutoffs and switching functions on the {\sc sp} and {\sc
1440 sf} potentials are investigated.
1441
1442 \begin{table}[htbp]
1443 \centering
1444 \caption{REGRESSION RESULTS OF THE WEAK SODIUM CHLORIDE SOLUTION
1445 SYSTEM FOR $\Delta E$ VALUES ({\it upper}), FORCE VECTOR MAGNITUDES
1446 ({\it middle}) AND TORQUE VECTOR MAGNITUDES ({\it lower})}
1447
1448 \footnotesize
1449 \begin{tabular}{@{} ccrrrrrr @{}}
1450 \toprule
1451 \toprule
1452 & & \multicolumn{2}{c}{9\AA} & \multicolumn{2}{c}{12\AA} & \multicolumn{2}{c}{15\AA}\\
1453 \cmidrule(lr){3-4}
1454 \cmidrule(lr){5-6}
1455 \cmidrule(l){7-8}
1456 Method & $\alpha$ & slope & $R^2$ & slope & $R^2$ & slope & $R^2$ \\
1457 \midrule
1458 PC & & 0.247 & 0.000 & -1.103 & 0.001 & 5.480 & 0.015 \\
1459 SP & 0.0 & 0.935 & 0.388 & 0.984 & 0.541 & 1.010 & 0.685 \\
1460 & 0.1 & 0.951 & 0.603 & 0.993 & 0.875 & 1.001 & 0.979 \\
1461 & 0.2 & 0.969 & 0.968 & 0.996 & 0.997 & 0.994 & 0.997 \\
1462 & 0.3 & 0.955 & 0.966 & 0.984 & 0.992 & 0.978 & 0.991 \\
1463 SF & 0.0 & 0.963 & 0.971 & 0.989 & 0.996 & 0.991 & 0.998 \\
1464 & 0.1 & 0.970 & 0.971 & 0.995 & 0.997 & 0.997 & 0.999 \\
1465 & 0.2 & 0.972 & 0.975 & 0.996 & 0.997 & 0.994 & 0.997 \\
1466 & 0.3 & 0.955 & 0.966 & 0.984 & 0.992 & 0.978 & 0.991 \\
1467 GSC & & 0.964 & 0.731 & 0.984 & 0.704 & 1.005 & 0.770 \\
1468 RF & & 0.968 & 0.605 & 0.974 & 0.541 & 1.014 & 0.614 \\
1469 \midrule
1470 PC & & 1.354 & 0.000 & -1.190 & 0.000 & -0.314 & 0.000 \\
1471 SP & 0.0 & 0.720 & 0.338 & 0.808 & 0.523 & 0.860 & 0.643 \\
1472 & 0.1 & 0.839 & 0.583 & 0.955 & 0.882 & 0.992 & 0.978 \\
1473 & 0.2 & 0.995 & 0.987 & 0.999 & 1.000 & 0.999 & 1.000 \\
1474 & 0.3 & 0.995 & 0.996 & 0.996 & 0.998 & 0.996 & 0.998 \\
1475 SF & 0.0 & 0.998 & 0.994 & 1.000 & 0.998 & 1.000 & 0.999 \\
1476 & 0.1 & 0.997 & 0.994 & 1.000 & 0.999 & 1.000 & 1.000 \\
1477 & 0.2 & 0.999 & 0.998 & 0.999 & 1.000 & 0.999 & 1.000 \\
1478 & 0.3 & 0.995 & 0.996 & 0.996 & 0.998 & 0.996 & 0.998 \\
1479 GSC & & 0.995 & 0.990 & 0.998 & 0.997 & 0.998 & 0.996 \\
1480 RF & & 0.998 & 0.993 & 0.999 & 0.998 & 0.999 & 0.996 \\
1481 \midrule
1482 PC & & 2.437 & 0.000 & -1.872 & 0.000 & 2.138 & 0.000 \\
1483 SP & 0.0 & 0.838 & 0.525 & 0.901 & 0.686 & 0.932 & 0.779 \\
1484 & 0.1 & 0.914 & 0.733 & 0.979 & 0.932 & 0.995 & 0.987 \\
1485 & 0.2 & 0.977 & 0.969 & 0.988 & 0.990 & 0.989 & 0.990 \\
1486 & 0.3 & 0.952 & 0.950 & 0.964 & 0.971 & 0.965 & 0.970 \\
1487 SF & 0.0 & 0.969 & 0.977 & 0.987 & 0.996 & 0.993 & 0.998 \\
1488 & 0.1 & 0.975 & 0.978 & 0.993 & 0.996 & 0.997 & 0.998 \\
1489 & 0.2 & 0.976 & 0.973 & 0.988 & 0.990 & 0.989 & 0.990 \\
1490 & 0.3 & 0.952 & 0.950 & 0.964 & 0.971 & 0.965 & 0.970 \\
1491 GSC & & 0.980 & 0.959 & 0.990 & 0.983 & 0.992 & 0.989 \\
1492 RF & & 0.984 & 0.975 & 0.996 & 0.995 & 0.998 & 0.998 \\
1493 \bottomrule
1494 \end{tabular}
1495 \label{tab:solnWeak}
1496 \end{table}
1497
1498 \begin{table}[htbp]
1499 \centering
1500 \caption{VARIANCE RESULTS FROM GAUSSIAN FITS TO ANGULAR
1501 DISTRIBUTIONS OF THE FORCE AND TORQUE VECTORS IN THE WEAK SODIUM
1502 CHLORIDE SOLUTION SYSTEM}
1503
1504 \footnotesize
1505 \begin{tabular}{@{} ccrrrrrr @{}}
1506 \toprule
1507 \toprule
1508 & & \multicolumn{3}{c}{Force $\sigma^2$} & \multicolumn{3}{c}{Torque $\sigma^2$} \\
1509 \cmidrule(lr){3-5}
1510 \cmidrule(l){6-8}
1511 Method & $\alpha$ & 9\AA & 12\AA & 15\AA & 9\AA & 12\AA & 15\AA \\
1512 \midrule
1513 PC & & 882.863 & 510.435 & 344.201 & 277.691 & 154.231 & 100.131 \\
1514 SP & 0.0 & 732.569 & 405.704 & 257.756 & 261.445 & 142.245 & 91.497 \\
1515 & 0.1 & 329.031 & 70.746 & 12.014 & 118.496 & 25.218 & 4.711 \\
1516 & 0.2 & 6.772 & 0.153 & 0.118 & 9.780 & 2.101 & 2.102 \\
1517 & 0.3 & 0.951 & 0.774 & 0.784 & 12.108 & 7.673 & 7.851 \\
1518 SF & 0.0 & 2.555 & 0.762 & 0.313 & 6.590 & 1.328 & 0.558 \\
1519 & 0.1 & 2.561 & 0.560 & 0.123 & 6.464 & 1.162 & 0.457 \\
1520 & 0.2 & 0.501 & 0.118 & 0.118 & 5.698 & 2.074 & 2.099 \\
1521 & 0.3 & 0.943 & 0.774 & 0.784 & 12.118 & 7.674 & 7.851 \\
1522 GSC & & 2.915 & 0.643 & 0.261 & 9.576 & 3.133 & 1.812 \\
1523 RF & & 2.415 & 0.452 & 0.130 & 6.915 & 1.423 & 0.507 \\
1524 \midrule
1525 GSSP & 0.0 & 2.915 & 0.643 & 0.261 & 9.576 & 3.133 & 1.812 \\
1526 & 0.1 & 2.251 & 0.324 & 0.064 & 7.628 & 1.639 & 0.497 \\
1527 & 0.2 & 0.590 & 0.118 & 0.116 & 6.080 & 2.096 & 2.103 \\
1528 & 0.3 & 0.953 & 0.759 & 0.780 & 12.347 & 7.683 & 7.849 \\
1529 GSSF & 0.0 & 1.541 & 0.301 & 0.096 & 6.407 & 1.316 & 0.496 \\
1530 & 0.1 & 1.541 & 0.237 & 0.050 & 6.356 & 1.202 & 0.457 \\
1531 & 0.2 & 0.568 & 0.118 & 0.116 & 6.166 & 2.105 & 2.105 \\
1532 & 0.3 & 0.954 & 0.759 & 0.780 & 12.337 & 7.684 & 7.849 \\
1533 \bottomrule
1534 \end{tabular}
1535 \label{tab:solnWeakAng}
1536 \end{table}
1537
1538 Because this system is a perturbation of the pure liquid water system,
1539 comparisons are best drawn between these two sets. The {\sc sp} and
1540 {\sc sf} methods are not significantly affected by the inclusion of a
1541 few ions. The aspect of cutoff sphere neutralization aids in the
1542 smooth incorporation of these ions; thus, all of the observations
1543 regarding these methods carry over from section
1544 \ref{sec:WaterResults}. The differences between these systems are more
1545 visible for the {\sc rf} method. Though good force agreement is still
1546 maintained, the energy gaps show a significant increase in the scatter
1547 of the data.
1548
1549 \subsection{1.1M NaCl Solution Results}
1550
1551 The bridging of the charged atomic and neutral molecular systems was
1552 further developed by considering a high ionic strength system
1553 consisting of 40 ions in the 1000 SPC/E water solvent ($\approx$1.1
1554 M). The results for the energy gap comparisons and the force and
1555 torque vector magnitude comparisons are shown in table
1556 \ref{tab:solnStr}. The force and torque vector directionality
1557 results are displayed separately in table \ref{tab:solnStrAng}, where
1558 the effect of group-based cutoffs and switching functions on the {\sc
1559 sp} and {\sc sf} potentials are investigated.
1560
1561 \begin{table}[htbp]
1562 \centering
1563 \caption{REGRESSION RESULTS OF THE STRONG SODIUM CHLORIDE SOLUTION
1564 SYSTEM FOR $\Delta E$ VALUES ({\it upper}), FORCE VECTOR MAGNITUDES
1565 ({\it middle}) AND TORQUE VECTOR MAGNITUDES ({\it lower})}
1566
1567 \footnotesize
1568 \begin{tabular}{@{} ccrrrrrr @{}}
1569 \toprule
1570 \toprule
1571 & & \multicolumn{2}{c}{9\AA} & \multicolumn{2}{c}{12\AA} & \multicolumn{2}{c}{15\AA}\\
1572 \cmidrule(lr){3-4}
1573 \cmidrule(lr){5-6}
1574 \cmidrule(l){7-8}
1575 Method & $\alpha$ & slope & $R^2$ & slope & $R^2$ & slope & $R^2$ \\
1576 \midrule
1577 PC & & -0.081 & 0.000 & 0.945 & 0.001 & 0.073 & 0.000 \\
1578 SP & 0.0 & 0.978 & 0.469 & 0.996 & 0.672 & 0.975 & 0.668 \\
1579 & 0.1 & 0.944 & 0.645 & 0.997 & 0.886 & 0.991 & 0.978 \\
1580 & 0.2 & 0.873 & 0.896 & 0.985 & 0.993 & 0.980 & 0.993 \\
1581 & 0.3 & 0.831 & 0.860 & 0.960 & 0.979 & 0.955 & 0.977 \\
1582 SF & 0.0 & 0.858 & 0.905 & 0.985 & 0.970 & 0.990 & 0.998 \\
1583 & 0.1 & 0.865 & 0.907 & 0.992 & 0.974 & 0.994 & 0.999 \\
1584 & 0.2 & 0.862 & 0.894 & 0.985 & 0.993 & 0.980 & 0.993 \\
1585 & 0.3 & 0.831 & 0.859 & 0.960 & 0.979 & 0.955 & 0.977 \\
1586 GSC & & 1.985 & 0.152 & 0.760 & 0.031 & 1.106 & 0.062 \\
1587 RF & & 2.414 & 0.116 & 0.813 & 0.017 & 1.434 & 0.047 \\
1588 \midrule
1589 PC & & -7.028 & 0.000 & -9.364 & 0.000 & 0.925 & 0.865 \\
1590 SP & 0.0 & 0.701 & 0.319 & 0.909 & 0.773 & 0.861 & 0.665 \\
1591 & 0.1 & 0.824 & 0.565 & 0.970 & 0.930 & 0.990 & 0.979 \\
1592 & 0.2 & 0.988 & 0.981 & 0.995 & 0.998 & 0.991 & 0.998 \\
1593 & 0.3 & 0.983 & 0.985 & 0.985 & 0.991 & 0.978 & 0.990 \\
1594 SF & 0.0 & 0.993 & 0.988 & 0.992 & 0.984 & 0.998 & 0.999 \\
1595 & 0.1 & 0.993 & 0.989 & 0.993 & 0.986 & 0.998 & 1.000 \\
1596 & 0.2 & 0.993 & 0.992 & 0.995 & 0.998 & 0.991 & 0.998 \\
1597 & 0.3 & 0.983 & 0.985 & 0.985 & 0.991 & 0.978 & 0.990 \\
1598 GSC & & 0.964 & 0.897 & 0.970 & 0.917 & 0.925 & 0.865 \\
1599 RF & & 0.994 & 0.864 & 0.988 & 0.865 & 0.980 & 0.784 \\
1600 \midrule
1601 PC & & -2.212 & 0.000 & -0.588 & 0.000 & 0.953 & 0.925 \\
1602 SP & 0.0 & 0.800 & 0.479 & 0.930 & 0.804 & 0.924 & 0.759 \\
1603 & 0.1 & 0.883 & 0.694 & 0.976 & 0.942 & 0.993 & 0.986 \\
1604 & 0.2 & 0.952 & 0.943 & 0.980 & 0.984 & 0.980 & 0.983 \\
1605 & 0.3 & 0.914 & 0.909 & 0.943 & 0.948 & 0.944 & 0.946 \\
1606 SF & 0.0 & 0.945 & 0.953 & 0.980 & 0.984 & 0.991 & 0.998 \\
1607 & 0.1 & 0.951 & 0.954 & 0.987 & 0.986 & 0.995 & 0.998 \\
1608 & 0.2 & 0.951 & 0.946 & 0.980 & 0.984 & 0.980 & 0.983 \\
1609 & 0.3 & 0.914 & 0.908 & 0.943 & 0.948 & 0.944 & 0.946 \\
1610 GSC & & 0.882 & 0.818 & 0.939 & 0.902 & 0.953 & 0.925 \\
1611 RF & & 0.949 & 0.939 & 0.988 & 0.988 & 0.992 & 0.993 \\
1612 \bottomrule
1613 \end{tabular}
1614 \label{tab:solnStr}
1615 \end{table}
1616
1617 \begin{table}[htbp]
1618 \centering
1619 \caption{VARIANCE RESULTS FROM GAUSSIAN FITS TO ANGULAR DISTRIBUTIONS
1620 OF THE FORCE AND TORQUE VECTORS IN THE STRONG SODIUM CHLORIDE SOLUTION
1621 SYSTEM}
1622
1623 \footnotesize
1624 \begin{tabular}{@{} ccrrrrrr @{}}
1625 \toprule
1626 \toprule
1627 & & \multicolumn{3}{c}{Force $\sigma^2$} & \multicolumn{3}{c}{Torque $\sigma^2$} \\
1628 \cmidrule(lr){3-5}
1629 \cmidrule(l){6-8}
1630 Method & $\alpha$ & 9\AA & 12\AA & 15\AA & 9\AA & 12\AA & 15\AA \\
1631 \midrule
1632 PC & & 957.784 & 513.373 & 2.260 & 340.043 & 179.443 & 13.079 \\
1633 SP & 0.0 & 786.244 & 139.985 & 259.289 & 311.519 & 90.280 & 105.187 \\
1634 & 0.1 & 354.697 & 38.614 & 12.274 & 144.531 & 23.787 & 5.401 \\
1635 & 0.2 & 7.674 & 0.363 & 0.215 & 16.655 & 3.601 & 3.634 \\
1636 & 0.3 & 1.745 & 1.456 & 1.449 & 23.669 & 14.376 & 14.240 \\
1637 SF & 0.0 & 3.282 & 8.567 & 0.369 & 11.904 & 6.589 & 0.717 \\
1638 & 0.1 & 3.263 & 7.479 & 0.142 & 11.634 & 5.750 & 0.591 \\
1639 & 0.2 & 0.686 & 0.324 & 0.215 & 10.809 & 3.580 & 3.635 \\
1640 & 0.3 & 1.749 & 1.456 & 1.449 & 23.635 & 14.375 & 14.240 \\
1641 GSC & & 6.181 & 2.904 & 2.263 & 44.349 & 19.442 & 12.873 \\
1642 RF & & 3.891 & 0.847 & 0.323 & 18.628 & 3.995 & 2.072 \\
1643 \midrule
1644 GSSP & 0.0 & 6.197 & 2.929 & 2.290 & 44.441 & 19.442 & 12.873 \\
1645 & 0.1 & 4.688 & 1.064 & 0.260 & 31.208 & 6.967 & 2.303 \\
1646 & 0.2 & 1.021 & 0.218 & 0.213 & 14.425 & 3.629 & 3.649 \\
1647 & 0.3 & 1.752 & 1.454 & 1.451 & 23.540 & 14.390 & 14.245 \\
1648 GSSF & 0.0 & 2.494 & 0.546 & 0.217 & 16.391 & 3.230 & 1.613 \\
1649 & 0.1 & 2.448 & 0.429 & 0.106 & 16.390 & 2.827 & 1.159 \\
1650 & 0.2 & 0.899 & 0.214 & 0.213 & 13.542 & 3.583 & 3.645 \\
1651 & 0.3 & 1.752 & 1.454 & 1.451 & 23.587 & 14.390 & 14.245 \\
1652 \bottomrule
1653 \end{tabular}
1654 \label{tab:solnStrAng}
1655 \end{table}
1656
1657 The {\sc rf} method struggles with the jump in ionic strength. The
1658 configuration energy differences degrade to unusable levels while the
1659 forces and torques show a more modest reduction in the agreement with
1660 {\sc spme}. The {\sc rf} method was designed for homogeneous systems,
1661 and this attribute is apparent in these results.
1662
1663 The {\sc sp} and {\sc sf} methods require larger cutoffs to maintain
1664 their agreement with {\sc spme}. With these results, we still
1665 recommend undamped to moderate damping for the {\sc sf} method and
1666 moderate damping for the {\sc sp} method, both with cutoffs greater
1667 than 12\AA.
1668
1669 \subsection{6\AA\ Argon Sphere in SPC/E Water Results}
1670
1671 The final model system studied was a 6\AA\ sphere of Argon solvated
1672 by SPC/E water. This serves as a test case of a specifically sized
1673 electrostatic defect in a disordered molecular system. The results for
1674 the energy gap comparisons and the force and torque vector magnitude
1675 comparisons are shown in table \ref{tab:argon}. The force and torque
1676 vector directionality results are displayed separately in table
1677 \ref{tab:argonAng}, where the effect of group-based cutoffs and
1678 switching functions on the {\sc sp} and {\sc sf} potentials are
1679 investigated.
1680
1681 \begin{table}[htbp]
1682 \centering
1683 \caption{REGRESSION RESULTS OF THE 6\AA\ ARGON SPHERE IN LIQUID
1684 WATER SYSTEM FOR $\Delta E$ VALUES ({\it upper}), FORCE VECTOR
1685 MAGNITUDES ({\it middle}) AND TORQUE VECTOR MAGNITUDES ({\it lower})}
1686
1687 \footnotesize
1688 \begin{tabular}{@{} ccrrrrrr @{}}
1689 \toprule
1690 \toprule
1691 & & \multicolumn{2}{c}{9\AA} & \multicolumn{2}{c}{12\AA} & \multicolumn{2}{c}{15\AA}\\
1692 \cmidrule(lr){3-4}
1693 \cmidrule(lr){5-6}
1694 \cmidrule(l){7-8}
1695 Method & $\alpha$ & slope & $R^2$ & slope & $R^2$ & slope & $R^2$ \\
1696 \midrule
1697 PC & & 2.320 & 0.008 & -0.650 & 0.001 & 3.848 & 0.029 \\
1698 SP & 0.0 & 1.053 & 0.711 & 0.977 & 0.820 & 0.974 & 0.882 \\
1699 & 0.1 & 1.032 & 0.846 & 0.989 & 0.965 & 0.992 & 0.994 \\
1700 & 0.2 & 0.993 & 0.995 & 0.982 & 0.998 & 0.986 & 0.998 \\
1701 & 0.3 & 0.968 & 0.995 & 0.954 & 0.992 & 0.961 & 0.994 \\
1702 SF & 0.0 & 0.982 & 0.996 & 0.992 & 0.999 & 0.993 & 1.000 \\
1703 & 0.1 & 0.987 & 0.996 & 0.996 & 0.999 & 0.997 & 1.000 \\
1704 & 0.2 & 0.989 & 0.998 & 0.984 & 0.998 & 0.989 & 0.998 \\
1705 & 0.3 & 0.971 & 0.995 & 0.957 & 0.992 & 0.965 & 0.994 \\
1706 GSC & & 1.002 & 0.983 & 0.992 & 0.973 & 0.996 & 0.971 \\
1707 RF & & 0.998 & 0.995 & 0.999 & 0.998 & 0.998 & 0.998 \\
1708 \midrule
1709 PC & & -36.559 & 0.002 & -44.917 & 0.004 & -52.945 & 0.006 \\
1710 SP & 0.0 & 0.890 & 0.786 & 0.927 & 0.867 & 0.949 & 0.909 \\
1711 & 0.1 & 0.942 & 0.895 & 0.984 & 0.974 & 0.997 & 0.995 \\
1712 & 0.2 & 0.999 & 0.997 & 1.000 & 1.000 & 1.000 & 1.000 \\
1713 & 0.3 & 1.001 & 0.999 & 1.001 & 1.000 & 1.001 & 1.000 \\
1714 SF & 0.0 & 1.000 & 0.999 & 1.000 & 1.000 & 1.000 & 1.000 \\
1715 & 0.1 & 1.000 & 0.999 & 1.000 & 1.000 & 1.000 & 1.000 \\
1716 & 0.2 & 1.000 & 1.000 & 1.000 & 1.000 & 1.000 & 1.000 \\
1717 & 0.3 & 1.001 & 0.999 & 1.001 & 1.000 & 1.001 & 1.000 \\
1718 GSC & & 0.999 & 0.999 & 1.000 & 1.000 & 1.000 & 1.000 \\
1719 RF & & 0.999 & 0.999 & 1.000 & 1.000 & 1.000 & 1.000 \\
1720 \midrule
1721 PC & & 1.984 & 0.000 & 0.012 & 0.000 & 1.357 & 0.000 \\
1722 SP & 0.0 & 0.850 & 0.552 & 0.907 & 0.703 & 0.938 & 0.793 \\
1723 & 0.1 & 0.924 & 0.755 & 0.980 & 0.936 & 0.995 & 0.988 \\
1724 & 0.2 & 0.985 & 0.983 & 0.986 & 0.988 & 0.987 & 0.988 \\
1725 & 0.3 & 0.961 & 0.966 & 0.959 & 0.964 & 0.960 & 0.966 \\
1726 SF & 0.0 & 0.977 & 0.989 & 0.987 & 0.995 & 0.992 & 0.998 \\
1727 & 0.1 & 0.982 & 0.989 & 0.992 & 0.996 & 0.997 & 0.998 \\
1728 & 0.2 & 0.984 & 0.987 & 0.986 & 0.987 & 0.987 & 0.988 \\
1729 & 0.3 & 0.961 & 0.966 & 0.959 & 0.964 & 0.960 & 0.966 \\
1730 GSC & & 0.995 & 0.981 & 0.999 & 0.990 & 1.000 & 0.993 \\
1731 RF & & 0.993 & 0.988 & 0.997 & 0.995 & 0.999 & 0.998 \\
1732 \bottomrule
1733 \end{tabular}
1734 \label{tab:argon}
1735 \end{table}
1736
1737 \begin{table}[htbp]
1738 \centering
1739 \caption{VARIANCE RESULTS FROM GAUSSIAN FITS TO ANGULAR
1740 DISTRIBUTIONS OF THE FORCE AND TORQUE VECTORS IN THE 6\AA\ SPHERE OF
1741 ARGON IN LIQUID WATER SYSTEM}
1742
1743 \footnotesize
1744 \begin{tabular}{@{} ccrrrrrr @{}}
1745 \toprule
1746 \toprule
1747 & & \multicolumn{3}{c}{Force $\sigma^2$} & \multicolumn{3}{c}{Torque $\sigma^2$} \\
1748 \cmidrule(lr){3-5}
1749 \cmidrule(l){6-8}
1750 Method & $\alpha$ & 9\AA & 12\AA & 15\AA & 9\AA & 12\AA & 15\AA \\
1751 \midrule
1752 PC & & 568.025 & 265.993 & 195.099 & 246.626 & 138.600 & 91.654 \\
1753 SP & 0.0 & 504.578 & 251.694 & 179.932 & 231.568 & 131.444 & 85.119 \\
1754 & 0.1 & 224.886 & 49.746 & 9.346 & 104.482 & 23.683 & 4.480 \\
1755 & 0.2 & 4.889 & 0.197 & 0.155 & 6.029 & 2.507 & 2.269 \\
1756 & 0.3 & 0.817 & 0.833 & 0.812 & 8.286 & 8.436 & 8.135 \\
1757 SF & 0.0 & 1.924 & 0.675 & 0.304 & 3.658 & 1.448 & 0.600 \\
1758 & 0.1 & 1.937 & 0.515 & 0.143 & 3.565 & 1.308 & 0.546 \\
1759 & 0.2 & 0.407 & 0.166 & 0.156 & 3.086 & 2.501 & 2.274 \\
1760 & 0.3 & 0.815 & 0.833 & 0.812 & 8.330 & 8.437 & 8.135 \\
1761 GSC & & 2.098 & 0.584 & 0.284 & 5.391 & 2.414 & 1.501 \\
1762 RF & & 1.822 & 0.408 & 0.142 & 3.799 & 1.362 & 0.550 \\
1763 \midrule
1764 GSSP & 0.0 & 2.098 & 0.584 & 0.284 & 5.391 & 2.414 & 1.501 \\
1765 & 0.1 & 1.652 & 0.309 & 0.087 & 4.197 & 1.401 & 0.590 \\
1766 & 0.2 & 0.465 & 0.165 & 0.153 & 3.323 & 2.529 & 2.273 \\
1767 & 0.3 & 0.813 & 0.825 & 0.816 & 8.316 & 8.447 & 8.132 \\
1768 GSSF & 0.0 & 1.173 & 0.292 & 0.113 & 3.452 & 1.347 & 0.583 \\
1769 & 0.1 & 1.166 & 0.240 & 0.076 & 3.381 & 1.281 & 0.575 \\
1770 & 0.2 & 0.459 & 0.165 & 0.153 & 3.430 & 2.542 & 2.273 \\
1771 & 0.3 & 0.814 & 0.825 & 0.816 & 8.325 & 8.447 & 8.132 \\
1772 \bottomrule
1773 \end{tabular}
1774 \label{tab:argonAng}
1775 \end{table}
1776
1777 This system does not appear to show any significant deviations from
1778 the previously observed results. The {\sc sp} and {\sc sf} methods
1779 have agreements similar to those observed in section
1780 \ref{sec:WaterResults}. The only significant difference is the
1781 improvement in the configuration energy differences for the {\sc rf}
1782 method. This is surprising in that we are introducing an inhomogeneity
1783 to the system; however, this inhomogeneity is charge-neutral and does
1784 not result in charged cutoff spheres. The charge-neutrality of the
1785 cutoff spheres, which the {\sc sp} and {\sc sf} methods explicitly
1786 enforce, seems to play a greater role in the stability of the {\sc rf}
1787 method than the required homogeneity of the environment.
1788
1789
1790 \section{Short-Time Dynamics: Velocity Autocorrelation Functions of NaCl Crystals}\label{sec:ShortTimeDynamics}
1791
1792 Zahn {\it et al.} investigated the structure and dynamics of water
1793 using equations (\ref{eq:ZahnPot}) and
1794 (\ref{eq:WolfForces}).\cite{Zahn02,Kast03} Their results indicated
1795 that a method similar (but not identical with) the damped {\sc sf}
1796 method resulted in properties very similar to those obtained when
1797 using the Ewald summation. The properties they studied (pair
1798 distribution functions, diffusion constants, and velocity and
1799 orientational correlation functions) may not be particularly sensitive
1800 to the long-range and collective behavior that governs the
1801 low-frequency behavior in crystalline systems. Additionally, the
1802 ionic crystals are the worst case scenario for the pairwise methods
1803 because they lack the reciprocal space contribution contained in the
1804 Ewald summation.
1805
1806 We are using two separate measures to probe the effects of these
1807 alternative electrostatic methods on the dynamics in crystalline
1808 materials. For short- and intermediate-time dynamics, we are
1809 computing the velocity autocorrelation function, and for long-time
1810 and large length-scale collective motions, we are looking at the
1811 low-frequency portion of the power spectrum.
1812
1813 \begin{figure}
1814 \centering
1815 \includegraphics[width = \linewidth]{./figures/vCorrPlot.pdf}
1816 \caption{Velocity autocorrelation functions of NaCl crystals at
1817 1000K using {\sc spme}, {\sc sf} ($\alpha$ = 0.0, 0.1, \&
1818 0.2\AA$^{-1}$), and {\sc sp} ($\alpha$ = 0.2\AA$^{-1}$). The inset is
1819 a magnification of the area around the first minimum. The times to
1820 first collision are nearly identical, but differences can be seen in
1821 the peaks and troughs, where the undamped and weakly damped methods
1822 are stiffer than the moderately damped and {\sc spme} methods.}
1823 \label{fig:vCorrPlot}
1824 \end{figure}
1825
1826 The short-time decay of the velocity autocorrelation function through
1827 the first collision are nearly identical in figure
1828 \ref{fig:vCorrPlot}, but the peaks and troughs of the functions show
1829 how the methods differ. The undamped {\sc sf} method has deeper
1830 troughs (see inset in Fig. \ref{fig:vCorrPlot}) and higher peaks than
1831 any of the other methods. As the damping parameter ($\alpha$) is
1832 increased, these peaks are smoothed out, and the {\sc sf} method
1833 approaches the {\sc spme} results. With $\alpha$ values of 0.2\AA$^{-1}$,
1834 the {\sc sf} and {\sc sp} functions are nearly identical and track the
1835 {\sc spme} features quite well. This is not surprising because the {\sc sf}
1836 and {\sc sp} potentials become nearly identical with increased
1837 damping. However, this appears to indicate that once damping is
1838 utilized, the details of the form of the potential (and forces)
1839 constructed out of the damped electrostatic interaction are less
1840 important.
1841
1842 \section{Collective Motion: Power Spectra of NaCl Crystals}\label{sec:LongTimeDynamics}
1843
1844 To evaluate how the differences between the methods affect the
1845 collective long-time motion, we computed power spectra from long-time
1846 traces of the velocity autocorrelation function. The power spectra for
1847 the best-performing alternative methods are shown in
1848 fig. \ref{fig:methodPS}. Apodization of the correlation functions via
1849 a cubic switching function between 40 and 50ps was used to reduce the
1850 ringing resulting from data truncation. This procedure had no
1851 noticeable effect on peak location or magnitude.
1852
1853 \begin{figure}
1854 \centering
1855 \includegraphics[width = \linewidth]{./figures/spectraSquare.pdf}
1856 \caption{Power spectra obtained from the velocity auto-correlation
1857 functions of NaCl crystals at 1000K while using {\sc spme}, {\sc sf}
1858 ($\alpha$ = 0, 0.1, \& 0.2\AA$^{-1}$), and {\sc sp} ($\alpha$ =
1859 0.2\AA$^{-1}$). The inset shows the frequency region below 100
1860 cm$^{-1}$ to highlight where the spectra differ.}
1861 \label{fig:methodPS}
1862 \end{figure}
1863
1864 While the high frequency regions of the power spectra for the
1865 alternative methods are quantitatively identical with Ewald spectrum,
1866 the low frequency region shows how the summation methods differ.
1867 Considering the low-frequency inset (expanded in the upper frame of
1868 figure \ref{fig:dampInc}), at frequencies below 100 cm$^{-1}$, the
1869 correlated motions are blue-shifted when using undamped or weakly
1870 damped {\sc sf}. When using moderate damping ($\alpha = 0.2$
1871 \AA$^{-1}$) both the {\sc sf} and {\sc sp} methods give nearly identical
1872 correlated motion to the Ewald method (which has a convergence
1873 parameter of 0.3119\AA$^{-1}$). This weakening of the electrostatic
1874 interaction with increased damping explains why the long-ranged
1875 correlated motions are at lower frequencies for the moderately damped
1876 methods than for undamped or weakly damped methods.
1877
1878 To isolate the role of the damping constant, we have computed the
1879 spectra for a single method ({\sc sf}) with a range of damping
1880 constants and compared this with the {\sc spme} spectrum.
1881 Fig. \ref{fig:dampInc} shows more clearly that increasing the
1882 electrostatic damping red-shifts the lowest frequency phonon modes.
1883 However, even without any electrostatic damping, the {\sc sf} method
1884 has at most a 10 cm$^{-1}$ error in the lowest frequency phonon mode.
1885 Without the {\sc sf} modifications, an undamped (pure cutoff) method
1886 would predict the lowest frequency peak near 325 cm$^{-1}$. {\it
1887 Most} of the collective behavior in the crystal is accurately captured
1888 using the {\sc sf} method. Quantitative agreement with Ewald can be
1889 obtained using moderate damping in addition to the shifting at the
1890 cutoff distance.
1891
1892 \begin{figure}
1893 \centering
1894 \includegraphics[width = \linewidth]{./figures/increasedDamping.pdf}
1895 \caption{Effect of damping on the two lowest-frequency phonon modes in
1896 the NaCl crystal at 1000K. The undamped shifted force ({\sc sf})
1897 method is off by less than 10 cm$^{-1}$, and increasing the
1898 electrostatic damping to 0.25\AA$^{-1}$ gives quantitative agreement
1899 with the power spectrum obtained using the Ewald sum. Over-damping can
1900 result in underestimates of frequencies of the long-wavelength
1901 motions.}
1902 \label{fig:dampInc}
1903 \end{figure}
1904
1905 \section{An Application: TIP5P-E Water}\label{sec:t5peApplied}
1906
1907 The above sections focused on the energetics and dynamics of a variety
1908 of systems when utilizing the {\sc sp} and {\sc sf} pairwise
1909 techniques. A unitary correlation with results obtained using the
1910 Ewald summation should result in a successful reproduction of both the
1911 static and dynamic properties of any selected system. To test this,
1912 we decided to calculate a series of properties for the TIP5P-E water
1913 model when using the {\sc sf} technique.
1914
1915 The TIP5P-E water model is a variant of Mahoney and Jorgensen's
1916 five-point transferable intermolecular potential (TIP5P) model for
1917 water.\cite{Mahoney00} TIP5P was developed to reproduce the density
1918 maximum anomaly present in liquid water near 4$^\circ$C. As with many
1919 previous point charge water models (such as ST2, TIP3P, TIP4P, SPC,
1920 and SPC/E), TIP5P was parametrized using a simple cutoff with no
1921 long-range electrostatic
1922 correction.\cite{Stillinger74,Jorgensen83,Berendsen81,Berendsen87}
1923 Without this correction, the pressure term on the central particle
1924 from the surroundings is missing. Because they expand to compensate
1925 for this added pressure term when this correction is included, systems
1926 composed of these particles tend to under-predict the density of water
1927 under standard conditions. When using any form of long-range
1928 electrostatic correction, it has become common practice to develop or
1929 utilize a reparametrized water model that corrects for this
1930 effect.\cite{vanderSpoel98,Fennell04,Horn04} The TIP5P-E model follows
1931 this practice and was optimized specifically for use with the Ewald
1932 summation.\cite{Rick04} In his publication, Rick preserved the
1933 geometry and point charge magnitudes in TIP5P and focused on altering
1934 the Lennard-Jones parameters to correct the density at
1935 298K.\cite{Rick04} With the density corrected, he compared common
1936 water properties for TIP5P-E using the Ewald sum with TIP5P using a
1937 9\AA\ cutoff.
1938
1939 In the following sections, we compared these same water properties
1940 calculated from TIP5P-E using the Ewald sum with TIP5P-E using the
1941 {\sc sf} technique. In the above evaluation of the pairwise
1942 techniques, we observed some flexibility in the choice of parameters.
1943 Because of this, the following comparisons include the {\sc sf}
1944 technique with a 12\AA\ cutoff and an $\alpha$ = 0.0, 0.1, and
1945 0.2\AA$^{-1}$, as well as a 9\AA\ cutoff with an $\alpha$ =
1946 0.2\AA$^{-1}$.
1947
1948 \subsection{Density}\label{sec:t5peDensity}
1949
1950 As stated previously, the property that prompted the development of
1951 TIP5P-E was the density at 1 atm. The density depends upon the
1952 internal pressure of the system in the $NPT$ ensemble, and the
1953 calculation of the pressure includes a components from both the
1954 kinetic energy and the virial. More specifically, the instantaneous
1955 molecular pressure ($p(t)$) is given by
1956 \begin{equation}
1957 p(t) = \frac{1}{\textrm{d}V}\sum_\mu
1958 \left[\frac{\mathbf{P}_{\mu}^2}{M_{\mu}}
1959 + \mathbf{R}_{\mu}\cdot\sum_i\mathbf{F}_{\mu i}\right],
1960 \label{eq:MolecularPressure}
1961 \end{equation}
1962 where $V$ is the volume, $\mathbf{P}_{\mu}$ is the momentum of
1963 molecule $\mu$, $\mathbf{R}_\mu$ is the position of the center of mass
1964 ($M_\mu$) of molecule $\mu$, and $\mathbf{F}_{\mu i}$ is the force on
1965 atom $i$ of molecule $\mu$.\cite{Melchionna93} The virial term (the
1966 right term in the brackets of equation \ref{eq:MolecularPressure}) is
1967 directly dependent on the interatomic forces. Since the {\sc sp}
1968 method does not modify the forces (see
1969 section. \ref{sec:PairwiseDerivation}), the pressure using {\sc sp} will
1970 be identical to that obtained without an electrostatic correction.
1971 The {\sc sf} method does alter the virial component and, by way of the
1972 modified pressures, should provide densities more in line with those
1973 obtained using the Ewald summation.
1974
1975 To compare densities, $NPT$ simulations were performed with the same
1976 temperatures as those selected by Rick in his Ewald summation
1977 simulations.\cite{Rick04} In order to improve statistics around the
1978 density maximum, 3ns trajectories were accumulated at 0, 12.5, and
1979 25$^\circ$C, while 2ns trajectories were obtained at all other
1980 temperatures. The average densities were calculated from the later
1981 three-fourths of each trajectory. Similar to Mahoney and Jorgensen's
1982 method for accumulating statistics, these sequences were spliced into
1983 200 segments to calculate the average density and standard deviation
1984 at each temperature.\cite{Mahoney00}
1985
1986 \begin{figure}
1987 \includegraphics[width=\linewidth]{./figures/tip5peDensities.pdf}
1988 \caption{Density versus temperature for the TIP5P-E water model when
1989 using the Ewald summation (Ref. \cite{Rick04}) and the {\sc sf} method
1990 with various parameters. The pressure term from the image-charge shell
1991 is larger than that provided by the reciprocal-space portion of the
1992 Ewald summation, leading to slightly lower densities. This effect is
1993 more visible with the 9\AA\ cutoff, where the image charges exert a
1994 greater force on the central particle. The error bars for the {\sc sf}
1995 methods show plus or minus the standard deviation of the density
1996 measurement at each temperature.}
1997 \label{fig:t5peDensities}
1998 \end{figure}
1999
2000 Figure \ref{fig:t5peDensities} shows the densities calculated for
2001 TIP5P-E using differing electrostatic corrections overlaid on the
2002 experimental values.\cite{CRC80} The densities when using the {\sc sf}
2003 technique are close to, though typically lower than, those calculated
2004 while using the Ewald summation. These slightly reduced densities
2005 indicate that the pressure component from the image charges at
2006 R$_\textrm{c}$ is larger than that exerted by the reciprocal-space
2007 portion of the Ewald summation. Bringing the image charges closer to
2008 the central particle by choosing a 9\AA\ R$_\textrm{c}$ (rather than
2009 the preferred 12\AA\ R$_\textrm{c}$) increases the strength of their
2010 interactions, resulting in a further reduction of the densities.
2011
2012 Because the strength of the image charge interactions has a noticeable
2013 effect on the density, we would expect the use of electrostatic
2014 damping to also play a role in these calculations. Larger values of
2015 $\alpha$ weaken the pair-interactions; and since electrostatic damping
2016 is distance-dependent, force components from the image charges will be
2017 reduced more than those from particles close the the central
2018 charge. This effect is visible in figure \ref{fig:t5peDensities} with
2019 the damped {\sc sf} sums showing slightly higher densities; however,
2020 it is apparent that the choice of cutoff radius plays a much more
2021 important role in the resulting densities.
2022
2023 As a final note, all of the above density calculations were performed
2024 with systems of 512 water molecules. Rick observed a system sized
2025 dependence of the computed densities when using the Ewald summation,
2026 most likely due to his tying of the convergence parameter to the box
2027 dimensions.\cite{Rick04} For systems of 256 water molecules, the
2028 calculated densities were on average 0.002 to 0.003 g/cm$^3$ lower. A
2029 system size of 256 molecules would force the use of a shorter
2030 R$_\textrm{c}$ when using the {\sc sf} technique, and this would also
2031 lower the densities. Moving to larger systems, as long as the
2032 R$_\textrm{c}$ remains at a fixed value, we would expect the densities
2033 to remain constant.
2034
2035 \subsection{Liquid Structure}\label{sec:t5peLiqStructure}
2036
2037 A common function considered when developing and comparing water
2038 models is the oxygen-oxygen radial distribution function
2039 ($g_\textrm{OO}(r)$). The $g_\textrm{OO}(r)$ is the probability of
2040 finding a pair of oxygen atoms some distance ($r$) apart relative to a
2041 random distribution at the same density.\cite{Allen87} It is
2042 calculated via
2043 \begin{equation}
2044 g_\textrm{OO}(r) = \frac{V}{N^2}\left\langle\sum_i\sum_{j\ne i}
2045 \delta(\mathbf{r}-\mathbf{r}_{ij})\right\rangle,
2046 \label{eq:GOOofR}
2047 \end{equation}
2048 where the double sum is over all $i$ and $j$ pairs of $N$ oxygen
2049 atoms. The $g_\textrm{OO}(r)$ can be directly compared to X-ray or
2050 neutron scattering experiments through the oxygen-oxygen structure
2051 factor ($S_\textrm{OO}(k)$) by the following relationship:
2052 \begin{equation}
2053 S_\textrm{OO}(k) = 1 + 4\pi\rho
2054 \int_0^\infty r^2\frac{\sin kr}{kr}g_\textrm{OO}(r)\textrm{d}r.
2055 \label{eq:SOOofK}
2056 \end{equation}
2057 Thus, $S_\textrm{OO}(k)$ is related to the Fourier-Laplace transform
2058 of $g_\textrm{OO}(r)$.
2059
2060 The experimentally determined $g_\textrm{OO}(r)$ for liquid water has
2061 been compared in great detail with the various common water models,
2062 and TIP5P was found to be in better agreement than other rigid,
2063 non-polarizable models.\cite{Sorenson00} This excellent agreement with
2064 experiment was maintained when Rick developed TIP5P-E.\cite{Rick04} To
2065 check whether the choice of using the Ewald summation or the {\sc sf}
2066 technique alters the liquid structure, the $g_\textrm{OO}(r)$s at 298K
2067 and 1atm were determined for the systems compared in the previous
2068 section.
2069
2070 \begin{figure}
2071 \includegraphics[width=\linewidth]{./figures/tip5peGofR.pdf}
2072 \caption{The $g_\textrm{OO}(r)$s calculated for TIP5P-E at 298K and
2073 1atm while using the Ewald summation (Ref. \cite{Rick04}) and the {\sc
2074 sf} technique with varying parameters. Even with the reduced densities
2075 using the {\sc sf} technique, the $g_\textrm{OO}(r)$s are essentially
2076 identical.}
2077 \label{fig:t5peGofRs}
2078 \end{figure}
2079
2080 The $g_\textrm{OO}(r)$s calculated for TIP5P-E while using the {\sc
2081 sf} technique with a various parameters are overlaid on the
2082 $g_\textrm{OO}(r)$ while using the Ewald summation. The differences in
2083 density do not appear to have any effect on the liquid structure as
2084 the $g_\textrm{OO}(r)$s are indistinguishable. These results indicate
2085 that the $g_\textrm{OO}(r)$ is insensitive to the choice of
2086 electrostatic correction.
2087
2088 \subsection{Thermodynamic Properties}\label{sec:t5peThermo}
2089
2090 In addition to the density, there are a variety of thermodynamic
2091 quantities that can be calculated for water and compared directly to
2092 experimental values. Some of these additional quantities include the
2093 latent heat of vaporization ($\Delta H_\textrm{vap}$), the constant
2094 pressure heat capacity ($C_p$), the isothermal compressibility
2095 ($\kappa_T$), the thermal expansivity ($\alpha_p$), and the static
2096 dielectric constant ($\epsilon$). All of these properties were
2097 calculated for TIP5P-E with the Ewald summation, so they provide a
2098 good set for comparisons involving the {\sc sf} technique.
2099
2100 The $\Delta H_\textrm{vap}$ is the enthalpy change required to
2101 transform one mol of substance from the liquid phase to the gas
2102 phase.\cite{Berry00} In molecular simulations, this quantity can be
2103 determined via
2104 \begin{equation}
2105 \begin{split}
2106 \Delta H_\textrm{vap} &= H_\textrm{gas} - H_\textrm{liq.} \\
2107 &= E_\textrm{gas} - E_\textrm{liq.}
2108 + p(V_\textrm{gas} - V_\textrm{liq.}) \\
2109 &\approx -\frac{\langle U_\textrm{liq.}\rangle}{N}+ RT,
2110 \end{split}
2111 \label{eq:DeltaHVap}
2112 \end{equation}
2113 where $E$ is the total energy, $U$ is the potential energy, $p$ is the
2114 pressure, $V$ is the volume, $N$ is the number of molecules, $R$ is
2115 the gas constant, and $T$ is the temperature.\cite{Jorgensen98b} As
2116 seen in the last line of equation (\ref{eq:DeltaHVap}), we can
2117 approximate $\Delta H_\textrm{vap}$ by using the ideal gas for the gas
2118 state. This allows us to cancel the kinetic energy terms, leaving only
2119 the $U_\textrm{liq.}$ term. Additionally, the $pV$ term for the gas is
2120 several orders of magnitude larger than that of the liquid, so we can
2121 neglect the liquid $pV$ term.
2122
2123 The remaining thermodynamic properties can all be calculated from
2124 fluctuations of the enthalpy, volume, and system dipole
2125 moment.\cite{Allen87} $C_p$ can be calculated from fluctuations in the
2126 enthalpy in constant pressure simulations via
2127 \begin{equation}
2128 \begin{split}
2129 C_p = \left(\frac{\partial H}{\partial T}\right)_{N,p}
2130 = \frac{(\langle H^2\rangle - \langle H\rangle^2)}{Nk_BT^2},
2131 \end{split}
2132 \label{eq:Cp}
2133 \end{equation}
2134 where $k_B$ is Boltzmann's constant. $\kappa_T$ can be calculated via
2135 \begin{equation}
2136 \begin{split}
2137 \kappa_T = \frac{1}{V}\left(\frac{\partial V}{\partial p}\right)_{N,T}
2138 = \frac{(\langle V^2\rangle_{N,P,T} - \langle V\rangle^2_{N,P,T})}
2139 {k_BT\langle V\rangle_{N,P,T}},
2140 \end{split}
2141 \label{eq:kappa}
2142 \end{equation}
2143 and $\alpha_p$ can be calculated via
2144 \begin{equation}
2145 \begin{split}
2146 \alpha_p = \frac{1}{V}\left(\frac{\partial V}{\partial T}\right)_{N,P}
2147 = \frac{(\langle VH\rangle_{N,P,T}
2148 - \langle V\rangle_{N,P,T}\langle H\rangle_{N,P,T})}
2149 {k_BT^2\langle V\rangle_{N,P,T}}.
2150 \end{split}
2151 \label{eq:alpha}
2152 \end{equation}
2153 Using the Ewald sum under tin-foil boundary conditions, $\epsilon$ can
2154 be calculated for systems of non-polarizable substances via
2155 \begin{equation}
2156 \epsilon = 1 + \frac{\langle M^2\rangle}{3\epsilon_0k_\textrm{B}TV},
2157 \label{eq:staticDielectric}
2158 \end{equation}
2159 where $\epsilon_0$ is the permittivity of free space and $\langle
2160 M^2\rangle$ is the fluctuation of the system dipole
2161 moment.\cite{Allen87} The numerator in the fractional term in equation
2162 (\ref{eq:staticDielectric}) is the fluctuation of the simulation-box
2163 dipole moment, identical to the quantity calculated in the
2164 finite-system Kirkwood $g$ factor ($G_k$):
2165 \begin{equation}
2166 G_k = \frac{\langle M^2\rangle}{N\mu^2},
2167 \label{eq:KirkwoodFactor}
2168 \end{equation}
2169 where $\mu$ is the dipole moment of a single molecule of the
2170 homogeneous system.\cite{Neumann83,Neumann84,Neumann85} The
2171 fluctuation term in both equation (\ref{eq:staticDielectric}) and
2172 \ref{eq:KirkwoodFactor} is calculated as follows,
2173 \begin{equation}
2174 \begin{split}
2175 \langle M^2\rangle &= \langle\bm{M}\cdot\bm{M}\rangle
2176 - \langle\bm{M}\rangle\cdot\langle\bm{M}\rangle \\
2177 &= \langle M_x^2+M_y^2+M_z^2\rangle
2178 - (\langle M_x\rangle^2 + \langle M_x\rangle^2
2179 + \langle M_x\rangle^2).
2180 \end{split}
2181 \label{eq:fluctBoxDipole}
2182 \end{equation}
2183 This fluctuation term can be accumulated during the simulation;
2184 however, it converges rather slowly, thus requiring multi-nanosecond
2185 simulation times.\cite{Horn04} In the case of tin-foil boundary
2186 conditions, the dielectric/surface term of equation (\ref{eq:EwaldSum})
2187 is equal to zero. Since the {\sc sf} method also lacks this
2188 dielectric/surface term, equation (\ref{eq:staticDielectric}) is still
2189 valid for determining static dielectric constants.
2190
2191 All of the above properties were calculated from the same trajectories
2192 used to determine the densities in section \ref{sec:t5peDensity}
2193 except for the static dielectric constants. The $\epsilon$ values were
2194 accumulated from 2ns $NVE$ ensemble trajectories with system densities
2195 fixed at the average values from the $NPT$ simulations at each of the
2196 temperatures. The resulting values are displayed in figure
2197 \ref{fig:t5peThermo}.
2198 \begin{figure}
2199 \centering
2200 \includegraphics[width=5.5in]{./figures/t5peThermo.pdf}
2201 \caption{Thermodynamic properties for TIP5P-E using the Ewald summation
2202 and the {\sc sf} techniques along with the experimental values. Units
2203 for the properties are kcal mol$^{-1}$ for $\Delta H_\textrm{vap}$,
2204 cal mol$^{-1}$ K$^{-1}$ for $C_p$, 10$^6$ atm$^{-1}$ for $\kappa_T$,
2205 and 10$^5$ K$^{-1}$ for $\alpha_p$. Ewald summation results are from
2206 reference \cite{Rick04}. Experimental values for $\Delta
2207 H_\textrm{vap}$, $\kappa_T$, and $\alpha_p$ are from reference
2208 \cite{Kell75}. Experimental values for $C_p$ are from reference
2209 \cite{Wagner02}. Experimental values for $\epsilon$ are from reference
2210 \cite{Malmberg56}.}
2211 \label{fig:t5peThermo}
2212 \end{figure}
2213
2214 As observed for the density in section \ref{sec:t5peDensity}, the
2215 property trends with temperature seen when using the Ewald summation
2216 are reproduced with the {\sc sf} technique. Differences include the
2217 calculated values of $\Delta H_\textrm{vap}$ under-predicting the Ewald
2218 values. This is to be expected due to the direct weakening of the
2219 electrostatic interaction through forced neutralization in {\sc
2220 sf}. This results in an increase of the intermolecular potential
2221 producing lower values from equation (\ref{eq:DeltaHVap}). The slopes of
2222 these values with temperature are similar to that seen using the Ewald
2223 summation; however, they are both steeper than the experimental trend,
2224 indirectly resulting in the inflated $C_p$ values at all temperatures.
2225
2226 Above the supercooled regime, $C_p$, $\kappa_T$, and $\alpha_p$
2227 values all overlap within error. As indicated for the $\Delta
2228 H_\textrm{vap}$ and $C_p$ results discussed in the previous paragraph,
2229 the deviations between experiment and simulation in this region are
2230 not the fault of the electrostatic summation methods but are due to
2231 the TIP5P class model itself. Like most rigid, non-polarizable,
2232 point-charge water models, the density decreases with temperature at a
2233 much faster rate than experiment (see figure
2234 \ref{fig:t5peDensities}). The reduced density leads to the inflated
2235 compressibility and expansivity values at higher temperatures seen
2236 here in figure \ref{fig:t5peThermo}. Incorporation of polarizability
2237 and many-body effects are required in order for simulation to overcome
2238 these differences with experiment.\cite{Laasonen93,Donchev06}
2239
2240 At temperatures below the freezing point for experimental water, the
2241 differences between {\sc sf} and the Ewald summation results are more
2242 apparent. The larger $C_p$ and lower $\alpha_p$ values in this region
2243 indicate a more pronounced transition in the supercooled regime,
2244 particularly in the case of {\sc sf} without damping. This points to
2245 the onset of a more frustrated or glassy behavior for TIP5P-E at
2246 temperatures below 250K in these simulations. Because the systems are
2247 locked in different regions of phase-space, comparisons between
2248 properties at these temperatures are not exactly fair. This
2249 observation is explored in more detail in section
2250 \ref{sec:t5peDynamics}.
2251
2252 The final thermodynamic property displayed in figure
2253 \ref{fig:t5peThermo}, $\epsilon$, shows the greatest discrepancy
2254 between the Ewald summation and the {\sc sf} technique (and experiment
2255 for that matter). It is known that the dielectric constant is
2256 dependent upon and quite sensitive to the imposed boundary
2257 conditions.\cite{Neumann80,Neumann83} This is readily apparent in the
2258 converged $\epsilon$ values accumulated for the {\sc sf}
2259 simulations. Lack of a damping function results in dielectric
2260 constants significantly smaller than that obtained using the Ewald
2261 sum. Increasing the damping coefficient to 0.2\AA$^{-1}$ improves the
2262 agreement considerably. It should be noted that the choice of the
2263 ``Ewald coefficient'' value also has a significant effect on the
2264 calculated value when using the Ewald summation. In the simulations of
2265 TIP5P-E with the Ewald sum, this screening parameter was tethered to
2266 the simulation box size (as was the $R_\textrm{c}$).\cite{Rick04} In
2267 general, systems with larger screening parameters reported larger
2268 dielectric constant values, the same behavior we see here with {\sc
2269 sf}; however, the choice of cutoff radius also plays an important
2270 role. In section \ref{sec:dampingDielectric}, this connection is
2271 further explored as optimal damping coefficients for different choices
2272 of $R_\textrm{c}$ are determined for {\sc sf} for capturing the
2273 dielectric behavior.
2274
2275 \subsection{Dynamic Properties}\label{sec:t5peDynamics}
2276
2277 To look at the dynamic properties of TIP5P-E when using the {\sc sf}
2278 method, 200ps $NVE$ simulations were performed for each temperature at
2279 the average density reported by the $NPT$ simulations. The
2280 self-diffusion constants ($D$) were calculated with the Einstein
2281 relation using the mean square displacement (MSD),
2282 \begin{equation}
2283 D = \frac{\langle\left|\mathbf{r}_i(t)-\mathbf{r}_i(0)\right|^2\rangle}{6t},
2284 \label{eq:MSD}
2285 \end{equation}
2286 where $t$ is time, and $\mathbf{r}_i$ is the position of particle
2287 $i$.\cite{Allen87} Figure \ref{fig:ExampleMSD} shows an example MSD
2288 plot. As labeled in the figure, MSD plots consist of three distinct
2289 regions:
2290
2291 \begin{enumerate}[itemsep=0pt]
2292 \item parabolic short-time ballistic motion,
2293 \item linear diffusive regime, and
2294 \item poor statistic region at long-time.
2295 \end{enumerate}
2296 The slope from the linear region (region 2) is used to calculate $D$.
2297 \begin{figure}
2298 \centering
2299 \includegraphics[width=3.5in]{./figures/ExampleMSD.pdf}
2300 \caption{Example plot of mean square displacement verses time. The
2301 left red region is the ballistic motion regime, the middle green
2302 region is the linear diffusive regime, and the right blue region is
2303 the region with poor statistics.}
2304 \label{fig:ExampleMSD}
2305 \end{figure}
2306
2307 \begin{figure}
2308 \centering
2309 \includegraphics[width=3.5in]{./figures/waterFrame.pdf}
2310 \caption{Body-fixed coordinate frame for a water molecule. The
2311 respective molecular principle axes point in the direction of the
2312 labeled frame axes.}
2313 \label{fig:waterFrame}
2314 \end{figure}
2315 In addition to translational diffusion, reorientational time constants
2316 were calculated for comparisons with the Ewald simulations and with
2317 experiments. These values were determined from 25ps $NVE$ trajectories
2318 through calculation of the orientational time correlation function,
2319 \begin{equation}
2320 C_l^\alpha(t) = \left\langle P_l\left[\hat{\mathbf{u}}_i^\alpha(t)
2321 \cdot\hat{\mathbf{u}}_i^\alpha(0)\right]\right\rangle,
2322 \label{eq:OrientCorr}
2323 \end{equation}
2324 where $P_l$ is the Legendre polynomial of order $l$ and
2325 $\hat{\mathbf{u}}_i^\alpha$ is the unit vector of molecule $i$ along
2326 principle axis $\alpha$. The principle axis frame for these water
2327 molecules is shown in figure \ref{fig:waterFrame}. As an example,
2328 $C_l^y$ is calculated from the time evolution of the unit vector
2329 connecting the two hydrogen atoms.
2330
2331 \begin{figure}
2332 \centering
2333 \includegraphics[width=3.5in]{./figures/ExampleOrientCorr.pdf}
2334 \caption{Example plots of the orientational autocorrelation functions
2335 for the first and second Legendre polynomials. These curves show the
2336 time decay of the unit vector along the $y$ principle axis.}
2337 \label{fig:OrientCorr}
2338 \end{figure}
2339 From the orientation autocorrelation functions, we can obtain time
2340 constants for rotational relaxation. Figure \ref{fig:OrientCorr} shows
2341 some example plots of orientational autocorrelation functions for the
2342 first and second Legendre polynomials. The relatively short time
2343 portions (between 1 and 3ps for water) of these curves can be fit to
2344 an exponential decay to obtain these constants, and they are directly
2345 comparable to water orientational relaxation times from nuclear
2346 magnetic resonance (NMR). The relaxation constant obtained from
2347 $C_2^y(t)$ is of particular interest because it describes the
2348 relaxation of the principle axis connecting the hydrogen atoms. Thus,
2349 $C_2^y(t)$ can be compared to the intermolecular portion of the
2350 dipole-dipole relaxation from a proton NMR signal and should provide
2351 the best estimate of the NMR relaxation time constant.\cite{Impey82}
2352
2353 \begin{figure}
2354 \centering
2355 \includegraphics[width=5.5in]{./figures/t5peDynamics.pdf}
2356 \caption{Diffusion constants ({\it upper}) and reorientational time
2357 constants ({\it lower}) for TIP5P-E using the Ewald sum and {\sc sf}
2358 technique compared with experiment. Data at temperatures less that
2359 0$^\circ$C were not included in the $\tau_2^y$ plot to allow for
2360 easier comparisons in the more relevant temperature regime.}
2361 \label{fig:t5peDynamics}
2362 \end{figure}
2363 Results for the diffusion constants and reorientational time constants
2364 are shown in figure \ref{fig:t5peDynamics}. From this figure, it is
2365 apparent that the trends for both $D$ and $\tau_2^y$ of TIP5P-E using
2366 the Ewald sum are reproduced with the {\sc sf} technique. The enhanced
2367 diffusion at high temperatures are again the product of the lower
2368 densities in comparison with experiment and do not provide any special
2369 insight into differences between the electrostatic summation
2370 techniques. With the undamped {\sc sf} technique, TIP5P-E tends to
2371 diffuse a little faster than with the Ewald sum; however, use of light
2372 to moderate damping results in indistinguishable $D$ values. Though not
2373 apparent in this figure, {\sc sf} values at the lowest temperature are
2374 approximately an order of magnitude lower than with Ewald. These
2375 values support the observation from section \ref{sec:t5peThermo} that
2376 there appeared to be a change to a more glassy-like phase with the
2377 {\sc sf} technique at these lower temperatures.
2378
2379 The $\tau_2^y$ results in the lower frame of figure
2380 \ref{fig:t5peDynamics} show a much greater difference between the {\sc
2381 sf} results and the Ewald results. At all temperatures shown, TIP5P-E
2382 relaxes faster than experiment with the Ewald sum while tracking
2383 experiment fairly well when using the {\sc sf} technique, independent
2384 of the choice of damping constant. Their are several possible reasons
2385 for this deviation between techniques. The Ewald results were taken
2386 shorter (10ps) trajectories than the {\sc sf} results (25ps). A quick
2387 calculation from a 10ps trajectory with {\sc sf} with an $\alpha$ of
2388 0.2\AA$^-1$ at 25$^\circ$C showed a 0.4ps drop in $\tau_2^y$, placing
2389 the result more in line with that obtained using the Ewald sum. These
2390 results support this explanation; however, recomputing the results to
2391 meet a poorer statistical standard is counter-productive. Assuming the
2392 Ewald results are not the product of poor statistics, differences in
2393 techniques to integrate the orientational motion could also play a
2394 role. {\sc shake} is the most commonly used technique for
2395 approximating rigid-body orientational motion,\cite{Ryckaert77} where
2396 as in {\sc oopse}, we maintain and integrate the entire rotation
2397 matrix using the {\sc dlm} method.\cite{Meineke05} Since {\sc shake}
2398 is an iterative constraint technique, if the convergence tolerances
2399 are raised for increased performance, error will accumulate in the
2400 orientational motion. Finally, the Ewald results were calculated using
2401 the $NVT$ ensemble, while the $NVE$ ensemble was used for {\sc sf}
2402 calculations. The additional mode of motion due to the thermostat will
2403 alter the dynamics, resulting in differences between $NVT$ and $NVE$
2404 results. These differences are increasingly noticeable as the
2405 thermostat time constant decreases.
2406
2407 \section{Damping of Point Multipoles}\label{sec:dampingMultipoles}
2408
2409 As discussed above, the {\sc sp} and {\sc sf} methods operate by
2410 neutralizing the cutoff sphere with charge-charge interaction shifting
2411 and by damping the electrostatic interactions. Now we would like to
2412 consider an extension of these techniques to include point multipole
2413 interactions. How will the shifting and damping need to develop in
2414 order to accommodate point multipoles?
2415
2416 Of the two techniques, the least to vary is shifting. Shifting is
2417 employed to neutralize the cutoff sphere; however, in a system
2418 composed purely of point multipoles, the cutoff sphere is already
2419 neutralized. This means that shifting is not necessary between point
2420 multipoles. In a mixed system of monopoles and multipoles, the
2421 undamped {\sc sf} potential needs only to shift the force terms of the
2422 monopole (and use the monopole potential of equation (\ref{eq:SFPot}))
2423 and smoothly cutoff the multipole interactions with a switching
2424 function. The switching function is required in order to conserve
2425 energy, because a discontinuity will exist at $R_\textrm{c}$ in the
2426 absence of shifting terms.
2427
2428 If we consider damping the {\sc sf} potential (Eq. (\ref{eq:DSFPot})),
2429 then we need to incorporate the complimentary error function term into
2430 the multipole potentials. The most direct way to do this is by
2431 replacing $r^{-1}$ with erfc$(\alpha r)\cdot r^{-1}$ in the multipole
2432 expansion.\cite{Hirschfelder67} In the multipole expansion, rather
2433 than considering only the interactions between single point charges,
2434 the electrostatic interactions is reformulated such that it describes
2435 the interaction between charge distributions about central sites of
2436 the respective sets of charges. This procedure is what leads to the
2437 familiar charge-dipole,
2438 \begin{equation}
2439 V_\textrm{cd} = -q_i\frac{\boldsymbol{\mu}_j\cdot\mathbf{r}_{ij}}{r^3_{ij}}
2440 = -q_i\mu_j\frac{\cos\theta}{r^2_{ij}},
2441 \label{eq:chargeDipole}
2442 \end{equation}
2443 and dipole-dipole,
2444 \begin{equation}
2445 V_\textrm{dd} = 3\frac{(\boldsymbol{\mu}_i\cdot\mathbf{r}_{ij})
2446 (\boldsymbol{\mu}_j\cdot\mathbf{r}_{ij})}{r^5_{ij}} -
2447 \frac{\boldsymbol{\mu}_i\cdot\boldsymbol{\mu}_j}{r^3_{ij}},
2448 \label{eq:dipoleDipole}
2449 \end{equation}
2450 interaction potentials.
2451
2452 Using the charge-dipole interaction as an example, if we insert
2453 erfc$(\alpha r)\cdot r^{-1}$ in place of $r^{-1}$, a damped
2454 charge-dipole results,
2455 \begin{equation}
2456 V_\textrm{Dcd} = -q_i\mu_j\frac{\cos\theta}{r^2_{ij}} c_1(r_{ij}),
2457 \label{eq:dChargeDipole}
2458 \end{equation}
2459 where $c_1(r_{ij})$ is
2460 \begin{equation}
2461 c_1(r_{ij}) = \frac{2\alpha r_{ij}e^{-\alpha^2r^2_{ij}}}{\sqrt{\pi}}
2462 + \textrm{erfc}(\alpha r_{ij}).
2463 \label{eq:c1Func}
2464 \end{equation}
2465 Thus, $c_1(r_{ij})$ is the resulting damping term that modifies the
2466 standard charge-dipole potential (Eq. (\ref{eq:chargeDipole})). Note
2467 that this damping term is dependent upon distance and not upon
2468 orientation, and that it is acting on what was originally an
2469 $r^{-3}_{ij}$ function. By writing the damped form in this manner, we
2470 can collect the damping into one function and apply it to the original
2471 potential when damping is desired. This works well for potentials that
2472 have only one $r^{-n}$ term (where $n$ is an odd positive integer);
2473 but in the case of the dipole-dipole potential, there is one part
2474 dependent on $r^{-3}$ and another dependent on $r^{-5}$. In order to
2475 properly damping this potential, each of these parts is dampened with
2476 separate damping functions. We can determine the necessary damping
2477 functions by continuing with the multipole expansion; however, it
2478 quickly becomes more complex with ``two-center'' systems, like the
2479 dipole-dipole potential, and is typically approached with a spherical
2480 harmonic formalism.\cite{Hirschfelder67} A simpler method for
2481 determining these functions arises from adopting the tensor formalism
2482 for expressing the electrostatic interactions.\cite{Stone02}
2483
2484 The tensor formalism for electrostatic interactions involves obtaining
2485 the multipole interactions from successive gradients of the monopole
2486 potential. Thus, tensors of rank one through three are
2487 \begin{equation}
2488 T = \frac{1}{4\pi\epsilon_0r_{ij}},
2489 \label{eq:tensorRank1}
2490 \end{equation}
2491 \begin{equation}
2492 T_\alpha = \frac{1}{4\pi\epsilon_0}\nabla_\alpha \frac{1}{r_{ij}},
2493 \label{eq:tensorRank2}
2494 \end{equation}
2495 \begin{equation}
2496 T_{\alpha\beta} = \frac{1}{4\pi\epsilon_0}
2497 \nabla_\alpha\nabla_\beta \frac{1}{r_{ij}},
2498 \label{eq:tensorRank3}
2499 \end{equation}
2500 where the form of the first tensor gives the monopole-monopole
2501 potential, the second gives the monopole-dipole potential, and the
2502 third gives the monopole-quadrupole and dipole-dipole
2503 potentials.\cite{Stone02} Since the force is $-\nabla V$, the forces
2504 for each potential come from the next higher tensor.
2505
2506 To obtain the damped electrostatic forms, we replace $r^{-1}$ with
2507 erfc$(\alpha r)\cdot r^{-1}$. Equation \ref{eq:tensorRank2} generates
2508 $c_1(r_{ij})$, just like the multipole expansion, while equation
2509 \ref{eq:tensorRank3} generates $c_2(r_{ij})$, where
2510 \begin{equation}
2511 c_2(r_{ij}) = \frac{4\alpha^3r^3_{ij}e^{-\alpha^2r^2_{ij}}}{3\sqrt{\pi}}
2512 + \frac{2\alpha r_{ij}e^{-\alpha^2r^2_{ij}}}{\sqrt{\pi}}
2513 + \textrm{erfc}(\alpha r_{ij}).
2514 \end{equation}
2515 Note that $c_2(r_{ij})$ is equal to $c_1(r_{ij})$ plus an additional
2516 term. Continuing with higher rank tensors, we can obtain the damping
2517 functions for higher multipoles as well as the forces. Each subsequent
2518 damping function includes one additional term, and we can simplify the
2519 procedure for obtaining these terms by writing out the following
2520 generating function,
2521 \begin{equation}
2522 c_n(r_{ij}) = \frac{2^n(\alpha r_{ij})^{2n-1}e^{-\alpha^2r^2_{ij}}}
2523 {\sqrt{\pi}(2n-1)!!} + c_{n-1}(r_{ij}),
2524 \label{eq:dampingGeneratingFunc}
2525 \end{equation}
2526 where,
2527 \begin{equation}
2528 m!! \equiv \left\{ \begin{array}{l@{\quad\quad}l}
2529 m\cdot(m-2)\ldots 5\cdot3\cdot1 & m > 0\textrm{ odd} \\
2530 m\cdot(m-2)\ldots 6\cdot4\cdot2 & m > 0\textrm{ even} \\
2531 1 & m = -1\textrm{ or }0,
2532 \end{array}\right.
2533 \label{eq:doubleFactorial}
2534 \end{equation}
2535 and $c_0(r_{ij})$ is erfc$(\alpha r_{ij})$. This generating function
2536 is similar in form to those obtained by researchers for the
2537 application of the Ewald sum to
2538 multipoles.\cite{Smith82,Smith98,Aguado03}
2539
2540 Returning to the dipole-dipole example, the potential consists of a
2541 portion dependent upon $r^{-5}$ and another dependent upon
2542 $r^{-3}$. In the damped dipole-dipole potential,
2543 \begin{equation}
2544 V_\textrm{Ddd} = 3\frac{(\boldsymbol{\mu}_i\cdot\mathbf{r}_{ij})
2545 (\boldsymbol{\mu}_j\cdot\mathbf{r}_{ij})}{r^5_{ij}}
2546 c_2(r_{ij}) -
2547 \frac{\boldsymbol{\mu}_i\cdot\boldsymbol{\mu}_j}{r^3_{ij}}
2548 c_1(r_{ij}),
2549 \label{eq:dampDipoleDipole}
2550 \end{equation}
2551 $c_2(r_{ij})$ and $c_1(r_{ij})$ respectively dampen these two
2552 parts. The forces for the damped dipole-dipole interaction,
2553 \begin{equation}
2554 \begin{split}
2555 F_\textrm{Ddd} = &15\frac{(\boldsymbol{\mu}_i\cdot\mathbf{r}_{ij})
2556 (\boldsymbol{\mu}_j\cdot\mathbf{r}_{ij})\mathbf{r}_{ij}}{r^7_{ij}}
2557 c_3(r_{ij})\\ &-
2558 3\frac{\boldsymbol{\mu}_i\cdot\mathbf{r}_{ij}\cdot\hat{\boldsymbol{\mu}}_j +
2559 \boldsymbol{\mu}_j\cdot\mathbf{r}_{ij}\cdot\hat{\boldsymbol{\mu}}_i +
2560 \boldsymbol{\mu}_i\cdot\boldsymbol{\mu}_j\cdot\mathbf{r}_{ij}}
2561 {r^5_{ij}} c_2(r_{ij}),
2562 \end{split}
2563 \label{eq:dampDipoleDipoleForces}
2564 \end{equation}
2565 rely on higher order damping functions because we perform another
2566 gradient operation. In this manner, we can dampen higher order
2567 multipolar interactions along with the monopole interactions, allowing
2568 us to include multipoles in simulations involving damped electrostatic
2569 interactions.
2570
2571
2572 \section{Damping and Dielectric Constants}\label{sec:dampingDielectric}
2573
2574 In section \ref{sec:t5peThermo}, we observed that the choice of
2575 damping coefficient plays a major role in the calculated dielectric
2576 constant. This is not too surprising given the results for damping
2577 parameter influence on the long-time correlated motions of the NaCl
2578 crystal in section \ref{sec:LongTimeDynamics}. The static dielectric
2579 constant is calculated from the long-time fluctuations of the system's
2580 accumulated dipole moment (Eq. (\ref{eq:staticDielectric})), so it is
2581 going to be quite sensitive to the choice of damping parameter. We
2582 would like to choose an optimal damping constant for any particular
2583 cutoff radius choice that would properly capture the dielectric
2584 behavior of the liquid.
2585
2586 In order to find these optimal values, we mapped out the static
2587 dielectric constant as a function of both the damping parameter and
2588 cutoff radius for several different water models. To calculate the
2589 static dielectric constant, we performed 5ns $NPT$ calculations at 9,
2590 10, 11, and 12\AA cutoff radii, each with damping parameter values
2591 ranging from 0 to 0.35\AA$^{-1}$ using the TIP5P-E, TIP4P-Ew, SPC/E,
2592 and SSD/RF water models. TIP4P-Ew is a reparametrized version of the
2593 four-point transferable intermolecular potential (TIP4P) for water
2594 targeted for use with the Ewald summation.\cite{Horn04} SSD/RF is the
2595 reaction field modified variant of the soft sticky dipole (SSD) model
2596 for water, and this model is discussed in more detail in the next
2597 chapter. One thing to note about it, electrostatic interactions are
2598 handled via dipole-dipole interactions rather than charge-charge
2599 interactions like the other three models. Damping of the dipole-dipole
2600 interaction was handled as described in section
2601 \ref{sec:dampingMultipoles}.
2602 \begin{figure}
2603 \centering
2604 \includegraphics[width=3.5in]{./figures/dielectricMap.pdf}
2605 \caption{The static dielectric constant for the A: TIP5P-E, B: TIP4P-Ew,
2606 C: SPC/E, and D: SSD/RF water models as a function of cutoff radius
2607 ($R_\textrm{c}$) and damping coefficient ($\alpha$).}
2608 \label{fig:dielectricMap}
2609 \end{figure}
2610
2611 The results of these calculations are displayed in figure
2612 \ref{fig:dielectricMap} in the form of shaded contour plots. An
2613 interesting aspect of all four contour plots is that the dielectric
2614 constant is effectively linear with respect to $\alpha$ and
2615 $R_\textrm{c}$ in the low to moderate damping regions. Another point
2616 to note is that choosing $\alpha$ and $R_\textrm{c}$ identical to
2617 those used in studies with the Ewald summation results in the same
2618 calculated dielectric constant. As an example, in the paper outlining
2619 the development of TIP5P-E, the real-space cutoff and Ewald
2620 coefficient were tethered to the system size, and for a 512 molecule
2621 system are approximately 12\AA and 0.25\AA$^{-1}$
2622 respectively.\cite{Rick04} These parameters resulted in a dielectric
2623 constant of 92$\pm$14, while with {\sc sf} these parameters give a
2624 dielectric constant of 90.8$\pm$0.9. Another example comes from the
2625 TIP4P-Ew paper where $\alpha$ and $R_\textrm{c}$ were chosen to be
2626 9.5\AA and 0.35\AA$^{-1}$, and these parameters resulted in a
2627 $\epsilon_0$ equal to 63$\pm$1.\cite{Horn04} We did not perform
2628 calculations with these exact parameters, but interpolating between
2629 surrounding values gives a $\epsilon_0$ of 61$\pm$1. Seeing a
2630 dependence of the dielectric constant on $\alpha$ and $R_\textrm{c}$
2631 with the {\sc sf} technique, it might be interesting to investigate
2632 the dielectric dependence when using the Ewald summation.
2633
2634
2635
2636
2637 \section{Conclusions}\label{sec:PairwiseConclusions}
2638
2639 The above investigation of pairwise electrostatic summation techniques
2640 shows that there are viable and computationally efficient alternatives
2641 to the Ewald summation. These methods are derived from the damped and
2642 cutoff-neutralized Coulombic sum originally proposed by Wolf
2643 \textit{et al.}\cite{Wolf99} In particular, the {\sc sf}
2644 method, reformulated above as equations (\ref{eq:DSFPot}) and
2645 (\ref{eq:DSFForces}), shows a remarkable ability to reproduce the
2646 energetic and dynamic characteristics exhibited by simulations
2647 employing lattice summation techniques. The cumulative energy
2648 difference results showed the undamped {\sc sf} and moderately damped
2649 {\sc sp} methods produced results nearly identical to {\sc spme}.
2650 Similarly for the dynamic features, the undamped or moderately damped
2651 {\sc sf} and moderately damped {\sc sp} methods produce force and
2652 torque vector magnitude and directions very similar to the expected
2653 values. These results translate into long-time dynamic behavior
2654 equivalent to that produced in simulations using {\sc spme}.
2655
2656 As in all purely-pairwise cutoff methods, these methods are expected
2657 to scale approximately {\it linearly} with system size, and they are
2658 easily parallelizable. This should result in substantial reductions
2659 in the computational cost of performing large simulations.
2660
2661 Aside from the computational cost benefit, these techniques have
2662 applicability in situations where the use of the Ewald sum can prove
2663 problematic. Of greatest interest is their potential use in
2664 interfacial systems, where the unmodified lattice sum techniques
2665 artificially accentuate the periodicity of the system in an
2666 undesirable manner. There have been alterations to the standard Ewald
2667 techniques, via corrections and reformulations, to compensate for
2668 these systems; but the pairwise techniques discussed here require no
2669 modifications, making them natural tools to tackle these problems.
2670 Additionally, this transferability gives them benefits over other
2671 pairwise methods, like reaction field, because estimations of physical
2672 properties (e.g. the dielectric constant) are unnecessary.
2673
2674 If a researcher is using Monte Carlo simulations of large chemical
2675 systems containing point charges, most structural features will be
2676 accurately captured using the undamped {\sc sf} method or the {\sc sp}
2677 method with an electrostatic damping of 0.2\AA$^{-1}$. These methods
2678 would also be appropriate for molecular dynamics simulations where the
2679 data of interest is either structural or short-time dynamical
2680 quantities. For long-time dynamics and collective motions, the safest
2681 pairwise method we have evaluated is the {\sc sf} method with an
2682 electrostatic damping between 0.2 and 0.25\AA$^{-1}$.
2683
2684 We are not suggesting that there is any flaw with the Ewald sum; in
2685 fact, it is the standard by which these simple pairwise sums have been
2686 judged. However, these results do suggest that in the typical
2687 simulations performed today, the Ewald summation may no longer be
2688 required to obtain the level of accuracy most researchers have come to
2689 expect.