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# Line 68 | Line 68 | We examine potential surface reconstructions of Pt and
68   \begin{doublespace}
69  
70   \begin{abstract}
71 < We examine potential surface reconstructions of Pt and Au(557)
72 < under various CO coverages using molecular dynamics in order
73 < to explore possible mechanisms for any observed reconstructions and their dynamics.
74 < The metal-CO interactions were parameterized as part of this
75 < work so that an efficient large-scale treatment of this system could be
76 < undertaken. The large difference in binding strengths of the metal-CO
77 < interactions was found to play a significant role with regards to
78 < step-edge stability and adatom diffusion. A small correlation
79 < between coverage and the magnitude of the diffusion constant was
80 < also determined. An in-depth examination of the energetics of CO
81 < adsorbed to the surface provides results that appear sufficient to explain the
82 < reconstructions observed on the Pt systems and the corresponding lack  
83 < on the Au systems.
71 > We examine surface reconstructions of Pt and Au(557) under
72 > various CO coverages using molecular dynamics in order to
73 > explore possible mechanisms for any observed reconstructions
74 > and their dynamics. The metal-CO interactions were parameterized
75 > as part of this work so that an efficient large-scale treatment of
76 > this system could be undertaken. The large difference in binding
77 > strengths of the metal-CO interactions was found to play a significant
78 > role with regards to step-edge stability and adatom diffusion. A
79 > small correlation between coverage and the diffusion constant
80 > was also determined. The energetics of CO adsorbed to the surface
81 > is sufficient to explain the reconstructions observed on the Pt
82 > systems and the lack  of reconstruction of the Au systems.
83 >
84   \end{abstract}
85  
86   \newpage
# Line 120 | Line 120 | to reconstruct under certain conditions. The Au(557) s
120   Since restructuring typically occurs as a result of specific interactions of the
121   catalyst with adsorbates, in this work, two metal systems exposed
122   to carbon monoxide were examined. The Pt(557) surface has already been shown
123 < to reconstruct under certain conditions. The Au(557) surface, because
124 < of a weaker interaction with CO, is less likely to undergo this kind
125 < of reconstruction.  
123 > to undergo a large scale reconstruction under certain conditions.\cite{Tao:2010}
124 > The Au(557) surface, because of a weaker interaction with CO, is seen as less
125 > likely to undergo this kind of reconstruction. However, Peters et al.\cite{Peters:2000}
126 > and Piccolo et al.\cite{Piccolo:2004} have both observed CO induced
127 > reconstruction of a Au(111) surface. Peters et al. saw a relaxing of the
128 > 22 x $\sqrt{3}$ cell. They argued that a very small number of Au atoms
129 > would become adatoms, limiting the stress of this reconstruction while
130 > allowing the rest of the row to relax and approach the ideal (111)
131 > configuration. They did not see the ``herringbone'' pattern being greatly
132 > affected by this relaxation. Piccolo et al. on the other hand, did see a
133 > disruption of the ``herringbone'' pattern as CO was adsorbed to the
134 > surface. Both groups suggested that the preference CO shows for
135 > low-coordinated Au particles was the primary driving force for these reconstructions.
136  
137  
138  
# Line 130 | Line 140 | The challenge in modeling any solid/gas interface prob
140   %gold molecular dynamics
141  
142   \section{Simulation Methods}
143 < The challenge in modeling any solid/gas interface problem is the
143 > The challenge in modeling any solid/gas interface is the
144   development of a sufficiently general yet computationally tractable
145   model of the chemical interactions between the surface atoms and
146   adsorbates.  Since the interfaces involved are quite large (10$^3$ -
# Line 146 | Line 156 | Au-Au and Pt-Pt interactions\cite{EAM}, while modeling
156   Coulomb potential.  For this work, we have used classical molecular
157   dynamics with potential energy surfaces that are specifically tuned
158   for transition metals.  In particular, we used the EAM potential for
159 < Au-Au and Pt-Pt interactions\cite{EAM}, while modeling the CO using a rigid
159 > Au-Au and Pt-Pt interactions\cite{EAM}. The CO was modeled using a rigid
160   three-site model developed by Straub and Karplus for studying
161   photodissociation of CO from myoglobin.\cite{Straub} The Au-CO and
162   Pt-CO cross interactions were parameterized as part of this work.
# Line 196 | Line 206 | dynamics.\cite{Shibata:2002hh} All of these potentials
206   melting,\cite{Belonoshko00,sankaranarayanan:155441,Sankaranarayanan:2005lr}
207   fracture,\cite{Shastry:1996qg,Shastry:1998dx} crack
208   propagation,\cite{BECQUART:1993rg} and alloying
209 < dynamics.\cite{Shibata:2002hh} All of these potentials have their
210 < strengths and weaknesses.  One of the strengths common to all of the
211 < methods is the relatively large library of metals for which these
212 < potentials have been
213 < parameterized.\cite{Foiles86,PhysRevB.37.3924,Rifkin1992,mishin99:_inter,mishin01:cu,mishin02:b2nial,zope03:tial_ap,mishin05:phase_fe_ni}  
209 > dynamics.\cite{Shibata:2002hh} One of EAM's strengths
210 > is its sensitivity to small changes in structure. This arises
211 > from the original parameterization, where the interactions
212 > up to the third nearest-neighbor were taken into account.\cite{Voter95a}
213 > Comparing that to the glue model of Ercolessi et al.\cite{Ercolessi88}
214 > which only parameterized up to the nearest-neighbor
215 > interactions, EAM is a suitable choice for systems where
216 > the bulk properties are of secondary importance to low-index
217 > surface structures. Additionally, the similarity of EAMs functional
218 > treatment of the embedding energy to standard density functional
219 > theory (DFT) approaches gives EAM, and conclusions derived, a firm theoretical footing.
220 > \cite{Foiles86,PhysRevB.37.3924,Rifkin1992,mishin99:_inter,mishin01:cu,mishin02:b2nial,zope03:tial_ap,mishin05:phase_fe_ni}  
221  
222 +
223 +
224 +
225   \subsection{Carbon Monoxide model}
226   Previous explanations for the surface rearrangements center on
227 < the large linear quadrupole moment of carbon monoxide.  
227 > the large linear quadrupole moment of carbon monoxide.\cite{Tao:2010}  
228   We used a model first proposed by Karplus and Straub to study
229   the photodissociation of CO from myoglobin because it reproduces
230   the quadrupole moment well.\cite{Straub} The Straub and
231 < Karplus model, treats CO as a rigid three site molecule which places a massless M
232 < site at the center of mass position along the CO bond.  The geometry used along
233 < with the interaction parameters are reproduced in Table~\ref{tab:CO}. The effective
231 > Karplus model, treats CO as a rigid three site molecule with a massless M
232 > site at the molecular center of mass. The geometry and interaction
233 > parameters are reproduced in Table~\ref{tab:CO}. The effective
234   dipole moment, calculated from the assigned charges, is still
235   small (0.35 D) while the linear quadrupole (-2.40 D~\AA) is close
236   to the experimental (-2.63 D~\AA)\cite{QuadrupoleCO} and quantum
# Line 219 | Line 239 | mechanical predictions (-2.46 D~\AA)\cite{QuadrupoleCO
239   \begin{table}[H]
240    \caption{Positions, Lennard-Jones parameters ($\sigma$ and
241      $\epsilon$), and charges for the CO-CO
242 <    interactions borrowed from Ref.\bibpunct{}{}{,}{n}{}{,} \protect\cite{Straub}. Distances are in \AA, energies are
242 >    interactions in Ref.\bibpunct{}{}{,}{n}{}{,} \protect\cite{Straub}. Distances are in \AA, energies are
243      in kcal/mol, and charges are in atomic units.}
244   \centering
245   \begin{tabular}{| c | c | ccc |}
246   \hline
247   &  {\it z} & $\sigma$ & $\epsilon$ & q\\
248   \hline
249 < \textbf{C} & -0.6457 &  0.0262  & 3.83   &   -0.75 \\
250 < \textbf{O} &  0.4843 &   0.1591 &   3.12 &   -0.85 \\
249 > \textbf{C} & -0.6457 &  3.83 & 0.0262   &   -0.75 \\
250 > \textbf{O} &  0.4843 &  3.12 &  0.1591  &   -0.85 \\
251   \textbf{M} & 0.0 & -  &  -  &    1.6 \\
252   \hline
253   \end{tabular}
# Line 241 | Line 261 | clean metal surfaces. Parameters reported by Korzeniew
261   and theoretical work
262   \cite{Beurden:2002ys,Pons:1986,Deshlahra:2009,Feibelman:2001,Mason:2004}
263   there is a significant amount of data on adsorption energies for CO on
264 < clean metal surfaces. Parameters reported by Korzeniewski {\it et
265 <  al.}\cite{Pons:1986} were a starting point for our fits, which were
264 > clean metal surfaces. An earlier model by Korzeniewski {\it et
265 >  al.}\cite{Pons:1986} served as a starting point for our fits. The parameters were
266   modified to ensure that the Pt-CO interaction favored the atop binding
267 < position on Pt(111). These parameters are reproduced in Table~\ref{tab:co_parameters}
268 < This resulted in binding energies that are slightly higher
267 > position on Pt(111). These parameters are reproduced in Table~\ref{tab:co_parameters}.
268 > The modified parameters yield binding energies that are slightly higher
269   than the experimentally-reported values as shown in Table~\ref{tab:co_energies}. Following Korzeniewski
270   et al.,\cite{Pons:1986} the Pt-C interaction was fit to a deep
271   Lennard-Jones interaction to mimic strong, but short-ranged partial
272   binding between the Pt $d$ orbitals and the $\pi^*$ orbital on CO. The
273 < Pt-O interaction was parameterized to a Morse potential at a larger
274 < minimum distance, ($r_o$).  This was chosen so that the C would be preferred
275 < over O as the binder to the surface. In most cases, this parameterization contributes a weak
273 > Pt-O interaction was modeled with a Morse potential with a large
274 > equilibrium distance, ($r_o$).  These choices ensure that the C is preferred
275 > over O as the surface-binding atom. In most cases, the Pt-O parameterization contributes a weak
276   repulsion which favors the atop site.  The resulting potential-energy
277   surface suitably recovers the calculated Pt-C separation length
278   (1.6~\AA)\cite{Beurden:2002ys} and affinity for the atop binding
# Line 263 | Line 283 | The limited experimental data for CO adsorption on Au
283   %same cutoff for slab and slab + CO ? seems low, although feibelmen had values around there...
284   The Au-C and Au-O cross-interactions were also fit using Lennard-Jones and
285   Morse potentials, respectively, to reproduce Au-CO binding energies.
286 < The limited experimental data for CO adsorption on Au lead us to refine our fits against DFT.
286 > The limited experimental data for CO adsorption on Au required refining the fits against plane-wave DFT calculations.
287   Adsorption energies were obtained from gas-surface DFT calculations with a
288   periodic supercell plane-wave basis approach, as implemented in the
289 < {\sc Quantum ESPRESSO} package.\cite{QE-2009} Electron cores are
289 > {\sc Quantum ESPRESSO} package.\cite{QE-2009} Electron cores were
290   described with the projector augmented-wave (PAW)
291   method,\cite{PhysRevB.50.17953,PhysRevB.59.1758} with plane waves
292   included to an energy cutoff of 20 Ry. Electronic energies are
# Line 287 | Line 307 | are shown in Table~\ref{co_parameters} and the binding
307  
308   %Hint at future work
309   The parameters employed for the metal-CO cross-interactions in this work
310 < are shown in Table~\ref{co_parameters} and the binding energies on the
311 < (111) surfaces are displayed in Table~\ref{co_energies}.  Charge transfer
310 > are shown in Table~\ref{tab:co_parameters} and the binding energies on the
311 > (111) surfaces are displayed in Table~\ref{tab:co_energies}.  Charge transfer
312   and polarization are neglected in this model, although these effects are likely to
313 < affect binding energies and binding site preferences, and will be added in
313 > affect binding energies and binding site preferences, and will be addressed in
314   a future work.\cite{Deshlahra:2012,StreitzMintmire:1994}
315  
316   %Table  of Parameters
# Line 298 | Line 318 | a future work.\cite{Deshlahra:2012,StreitzMintmire:199
318   %Au Parameter Set 35
319   \begin{table}[H]
320    \caption{Best fit parameters for metal-CO cross-interactions. Metal-C
321 <    interactions are modeled with Lennard-Jones potential, while the
321 >    interactions are modeled with Lennard-Jones potentials. While the
322      metal-O interactions were fit to Morse
323      potentials.  Distances are given in \AA~and energies in kcal/mol. }
324   \centering
# Line 316 | Line 336 | a future work.\cite{Deshlahra:2012,StreitzMintmire:199
336  
337   %Table of energies
338   \begin{table}[H]
339 <  \caption{Adsorption energies for CO on M(111) at the atop site using the potentials
339 >  \caption{Adsorption energies for a single CO at the atop site on M(111) at the atop site using the potentials
340      described in this work.  All values are in eV.}
341   \centering
342   \begin{tabular}{| c | cc |}
# Line 333 | Line 353 | a future work.\cite{Deshlahra:2012,StreitzMintmire:199
353   \end{table}
354  
355   \subsection{Pt(557) and Au(557) metal interfaces}
356 <
357 < Our model systems are composed of 3888 Pt atoms and 3384 Au atoms in a
358 < FCC crystal that have been cut along the (557) plane so that they are
359 < periodic in the {\it x} and {\it y} directions, and have been oriented
360 < to expose two aligned (557) cuts along the extended {\it
361 <  z}-axis.  Simulations of the bare metal interfaces at temperatures
362 < ranging from 300~K to 1200~K were performed to observe the relative
356 > Our Pt system has dimensions of 18~x~24~x~9 in a box of size
357 > 54.482~x~50.046~x~120.88~\AA while our Au system has
358 > dimensions of 18~x~24~x~8 in a box of size 57.4~x~51.9285~x~100~\AA.
359 > The systems are arranged in a FCC crystal that have been cut
360 > along the (557) plane so that they are periodic in the {\it x} and
361 > {\it y} directions, and have been oriented to expose two aligned
362 > (557) cuts along the extended {\it z}-axis.  Simulations of the
363 > bare metal interfaces at temperatures ranging from 300~K to
364 > 1200~K were performed to observe the relative
365   stability of the surfaces without a CO overlayer.  
366  
367 < The different bulk (and surface) melting temperatures (1337~K for Au
368 < and 2045~K for Pt) suggest that any possible reconstruction may happen at
367 > The different bulk melting temperatures (1337~K for Au
368 > and 2045~K for Pt) suggest that any possible reconstruction should happen at
369   different temperatures for the two metals.  The bare Au and Pt surfaces were
370   initially run in the canonical (NVT) ensemble at 800~K and 1000~K
371 < respectively for 100 ps. These temperatures were chosen because the
372 < surfaces were relatively stable at these temperatures when no CO was
373 < present, but experienced additional instability upon addition of CO in the time
352 < frames we were examining. Each surface was exposed to a range of CO
371 > respectively for 100 ps. The two surfaces were relatively stable at these
372 > temperatures when no CO was present, but experienced increased surface
373 > mobility on addition of CO. Each surface was then dosed with different concentrations of CO
374   that was initially placed in the vacuum region.  Upon full adsorption,
375 < these amounts correspond to 0\%, 5\%, 25\%, 33\%, and 50\% surface
376 < coverage. Higher coverages were tried, but the CO-CO repulsion was preventing
377 < a higher amount of adsorption.  Because of the difference in binding energies, the Pt
357 < systems very rarely had CO that was not bound to the surface, while
375 > these concentrations correspond to 0\%, 5\%, 25\%, 33\%, and 50\% surface
376 > coverage. Higher coverages resulted in CO double layer formation, which introduces artifacts that are not relevant to (557) reconstruction.
377 > Because of the difference in binding energies, nearly all of the CO was bound to the Pt surface, while
378   the Au surfaces often had a significant CO population in the gas
379   phase.  These systems were allowed to reach thermal equilibrium (over
380   5 ns) before being run in the microcanonical (NVE) ensemble for
381   data collection. All of the systems examined had at least 40 ns in the
382   data collection stage, although simulation times for some of the
383 < systems exceeded 200ns.  All simulations were run using the open
383 > systems exceeded 200~ns.  Simulations were run using the open
384   source molecular dynamics package, OpenMD.\cite{Ewald,OOPSE}
385  
386   % Just results, leave discussion for discussion section
# Line 372 | Line 392 | Tao et al. showed experimentally that the Pt(557) surf
392   %       time scale, formation, breakage
393   \section{Results}
394   \subsection{Structural remodeling}
395 < Tao et al. showed experimentally that the Pt(557) surface
395 > \subsubsection{Step wandering}
396 > \subsubsection{Double layers}
397 > Tao et al. have shown experimentally that the Pt(557) surface
398   undergoes two separate reconstructions upon CO
399   adsorption.\cite{Tao:2010} The first involves a doubling of
400   the step height and plateau length. Similar behavior has been
401 < seen to occur on numerous surfaces at varying conditions (Ni 977, Si 111, etc).
401 > seen to occur on numerous surfaces at varying conditions: Ni(977), Si(111).
402   \cite{Williams:1994,Williams:1991,Pearl} Of the two systems
403   we examined, the Pt system showed a larger amount of
404   reconstruction when compared to the Au system. The amount
405 < of reconstruction appears to be correlated to the amount of CO
406 < adsorbed upon the surface.  We believe this is related to the
407 < effect that adsorbate coverage has on edge breakup and surface
408 < diffusion of adatoms. While both systems displayed step-edge
405 > of reconstruction is correlated to the amount of CO
406 > adsorbed upon the surface.  This appears to be related to the
407 > effect that adsorbate coverage has on edge breakup and on the surface
408 > diffusion of metal adatoms. While both systems displayed step-edge
409   wandering, only the Pt surface underwent the doubling seen by
410 < Tao et al., within the time scales we were modeling. Specifically,
411 < only the 50~\% coverage Pt system was observed to have a
412 < step-edge undergo a complete doubling in the time scales we
413 < were able to monitor. This event encouraged us to allow that
414 < specific system to run for much longer periods during which two
415 < more double layers were created. The other systems, not displaying
416 < any large scale changes of interest, were all stopped after running
395 < for 40 ns in the microcanonical ensemble. Despite no observation
396 < of double layer formation, the other Pt systems tended to show
397 < more cumulative lateral movement of the step-edges when
398 < compared to the Au systems. The 50\% Pt system is highlighted
410 > Tao et al. within the time scales studied here.  
411 > Only the 50\% coverage Pt system exhibited
412 > a complete doubling in the time scales we
413 > were able to monitor. Over longer periods (150~ns) two more double layers formed on this interface.
414 > Although double layer formation did not occur in the other Pt systems, they show
415 > more lateral movement of the step-edges
416 > compared to their Au counterparts. The 50\% Pt system is highlighted
417   in Figure \ref{fig:reconstruct} at various times along the simulation
418 < showing the evolution of the system.
418 > showing the evolution of a step-edge.
419  
420   The second reconstruction on the Pt(557) surface observed by
421   Tao involved the formation of triangular clusters that stretched
422   across the plateau between two step-edges. Neither system, within
423 < our simulated time scales, experiences this reconstruction. A constructed
406 < system in which the triangular motifs were constructed on the surface
407 < will be explored in future work and is shown in the supporting information.
423 > the 40~ns time scale, experienced this reconstruction.
424  
425   \subsection{Dynamics}
426 < While atomistic-like simulations of stepped surfaces have been
427 < performed before, they tend to be performed using Monte Carlo
428 < techniques\cite{Williams:1991,Williams:1994}. This allows them
429 < to efficiently sample the equilibrium thermodynamic landscape
430 < but at the expense of ignoring the dynamics of the system. Previous
431 < work by Pearl and Sibener\cite{Pearl}, using STM, has been able to
432 < visualize the coalescing of steps of Ni(977). The time scale of the image
433 < acquisition, $\sim$70 s/image provides an upper bounds for the time
434 < required for the doubling to actually occur. Statistical treatments of step-edges
435 < are adept at analyzing such systems. However, in a system where
436 < the number of steps is limited, examining the individual atoms that make
421 < up the steps can provide useful information as well.
426 > Previous atomistic simulations of stepped surfaces were largely
427 > concerned with the energetics and structures at different conditions
428 > \cite{Williams:1991,Williams:1994}. Consequently, the most common
429 > technique has been Monte Carlo. Monte Carlo gives an efficient
430 > sampling of the equilibrium thermodynamic landscape at the expense
431 > of ignoring the dynamics of the system. Previous work by Pearl and
432 > Sibener\cite{Pearl}, using STM, has been able to show the coalescing
433 > of steps on Ni(977). The time scale of the image acquisition,
434 > $\sim$70 s/image provides an upper bound for the time required for
435 > the doubling to occur. In this section we give data on dynamic and
436 > transport properties, e.g. diffusion, layer formation time, etc.
437  
438  
439   \subsubsection{Transport of surface metal atoms}
440   %forcedSystems/stepSeparation
441   The movement or wandering of a step-edge is a cooperative effect
442   arising from the individual movements, primarily through surface
443 < diffusion, of the atoms making up the step. An ideal metal surface
443 > diffusion, of the atoms making up the steps An ideal metal surface
444   displaying a low index facet, (111) or (100) is unlikely to experience
445   much surface diffusion because of the large energetic barrier that must
446   be overcome to lift an atom out of the surface. The presence of step-edges
447   on higher-index surfaces provide a source for mobile metal atoms.
448   Breaking away from the step-edge on a clean surface still imposes an
449 < energetic penalty around $\sim$~40 kcal/mole, but is much less than lifting
450 < the same metal atom out from the surface,  \textgreater~60 kcal/mole, and
451 < the penalty lowers even further when CO is present in sufficient quantities
452 < on the surface. For certain tested distributions of CO, the penalty was lowered
453 < to $\sim$~20 kcal/mole. Once an adatom exists on the surface, its barrier for
454 < diffusion is negligible ( \textless~4 kcal/mole) and is well able to explore the
455 < terrace before potentially rejoining its original step-edge or becoming a part
449 > energetic penalty around $\sim$~40 kcal/mol, but is much less than lifting
450 > the same metal atom vertically out of the surface,  \textgreater~60 kcal/mol.
451 > The penalty lowers significantly when CO is present in sufficient quantities
452 > on the surface. For certain distributions of CO, the penalty can be as low as
453 > $\sim$~20 kcal/mol. Once an adatom exists on the surface, the barrier for
454 > diffusion is negligible ( \textless~4 kcal/mol) and these adatoms are well
455 > able to explore the terrace before rejoining either the original step-edge or becoming a part
456   of a different edge. Atoms traversing separate terraces is a more difficult
457   process, but can be overcome through a joining and lifting stage which is
458   examined in the discussion section. By tracking the mobility of individual
459   metal atoms on the Pt and Au surfaces we were able to determine the relative
460 < diffusion rates and how varying coverages of CO affected the rates. Close
460 > diffusion constants, as well as how varying coverages of CO affect the diffusion. Close
461   observation of the mobile metal atoms showed that they were typically in
462 < equilibrium with the step-edges, constantly breaking apart and rejoining.
463 < At times their motion was concerted and two or more adatoms would be
462 > equilibrium with the step-edges, dynamically breaking apart and rejoining the edges.
463 > At times, their motion was concerted and two or more adatoms would be
464   observed moving together across the surfaces. The primary challenge in
465   quantifying the overall surface mobility was in defining ``mobile" vs. ``static" atoms.
466  
467   A particle was considered mobile once it had traveled more than 2~\AA~
468 < between saved configurations of the system (10-100 ps). An atom that was
469 < truly mobile would typically travel much greater than this, but the 2~\AA~ cutoff
470 < was to prevent the in-place vibrational movement of non-surface atoms from
471 < being included in the analysis. Diffusion on  a surface is strongly affected by
472 < local structures and in this work the presence of single and double layer
468 > between saved configurations of the system (typically 10-100 ps). An atom that was
469 > truly mobile would typically travel much greater distances than this, but the 2~\AA~ cutoff
470 > was to prevent swamping the diffusion data with the in-place vibrational
471 > movement of buried atoms. Diffusion on  a surface is strongly affected by
472 > local structures and in this work, the presence of single and double layer
473   step-edges causes the diffusion parallel to the step-edges to be different
474 < from the diffusion perpendicular to these edges. This led us to compute
475 < those diffusions separately as seen in Figure \ref{fig:diff}.
474 > from the diffusion perpendicular to these edges. Parallel and perpendicular
475 > diffusion constants are shown in Figure \ref{fig:diff}.
476  
477 < \subsubsection{Double layer formation}
478 < The increased amounts of diffusion on Pt at the higher CO coverages appears
464 < to play a primary role in the formation of double layers, although this conclusion
465 < does not explain the 33\% coverage Pt system. On the 50\% system, three
466 < separate layers were formed over the extended run time of this system. As
467 < mentioned earlier, previous experimental work has given some insight into the
468 < upper bounds of the time required for enough atoms to move around to allow two
469 < steps to coalesce\cite{Williams:1991,Pearl}. As seen in Figure \ref{fig:reconstruct},
470 < the first appearance of a double layer, a nodal site, appears at 19 ns into the
471 < simulation. Within 12 ns, nearly half of the step has formed the double layer and
472 < by 86 ns, a smooth complete layer has formed. The double layer is ``complete" by
473 < 37 ns but is a bit rough. From the appearance of the first node to the initial doubling
474 < of the layers ignoring their roughness took $\sim$~20 ns. Another ~40 ns was
475 < necessary for the layer to completely straighten. The other two layers in this
476 < simulation form over a period of 22 ns and 42 ns respectively. Comparing this to
477 < the upper bounds of the image scan, it is likely that aspects of this reconstruction
478 < occur very quickly.
477 > \subsubsection{Dynamics of double layer formation}
478 > The increased amounts of diffusion on Pt at the higher CO coverages plays a primary role in the formation of the double layers observed on Pt. However, this is not a complete explanation as seen by the 33\% Pt system which has higher diffusion constants but did not show any signs of undergoing the doubling. This difference will be explored more fully in the discussion. On the 50\% Pt system, three separate layers were formed over the extended run time of this system. Previous experimental work has given some insight into the upper bounds of the time required for step coalescing.\cite{Williams:1991,Pearl} In this system, as seen in Figure \ref{fig:reconstruct}, the first appearance of a double layer, a nodal site, appears at 19 ns into the simulation. Within 12 ns, nearly half of the step has formed the double layer and by 86 ns, the complete layer has been smoothed. The double layer could be considered ``complete" by 37 ns but is a bit rough or wavy. From the appearance of the first node to the first observed double layer, ignoring roughening, the process took $\sim$20 ns. Another $\sim$40 ns was necessary for the layer to completely straighten. The other two layers in this simulation form over a period of 22 ns and 42 ns respectively. Comparing this to the upper bounds of the image scan, it is likely that aspects of this reconstruction occur very quickly. A possible explanation for this rapid reconstruction is the elevated temperatures our systems were run at. It is likely that the process would take longer at lower temperatures and is an area of exploration for future work.
479  
480   %Evolution of surface
481   \begin{figure}[H]
# Line 514 | Line 514 | Comparing the results from simulation to those reporte
514   were able to observe the dynamic processes necessary for this reconstruction.
515  
516   \subsection{Mechanism for restructuring}
517 < Comparing the results from simulation to those reported previously by
517 > Since the Au surface showed no large scale restructuring throughout
518 > our simulation time our discussion will focus on the 50\% Pt-CO system
519 > which did undergo the doubling featured in Figure \ref{fig:reconstruct}.
520 > Comparing the results from this simulation to those reported previously by
521   Tao et al.\cite{Tao:2010} the similarities in the Pt-CO system are quite
522   strong. As shown in Figure \ref{fig:reconstruct}, the simulated Pt
523 < system under a CO atmosphere will restructure by doubling the terrace
524 < heights. The restructuring occurs slowly, one to two Pt atoms at a time.
523 > system exposed to a large dosage of CO will restructure by doubling the terrace
524 > widths and step heights. The restructuring occurs in a piecemeal fashion, one to two Pt atoms at a time and as such is a fairly stochastic event.
525   Looking at individual configurations of the system, the adatoms either
526   break away from the step-edge and stay on the lower terrace or they lift
527 < up onto the higher terrace. Once ``free'' they will diffuse on the terrace
528 < until reaching another step-edge or coming back to their original edge.  
527 > up onto the higher terrace. Once ``free'', they will diffuse on the terrace
528 > until reaching another step-edge or rejoining their original edge.  
529   This combination of growth and decay of the step-edges is in a state of
530   dynamic equilibrium. However, once two previously separated edges
531   meet as shown in Figure 1.B, this meeting point tends to act as a focus
532   or growth point for the rest of the edge to meet up, akin to that of a zipper.
533   From the handful of cases where a double layer was formed during the
534   simulation, measuring from the initial appearance of a growth point, the
535 < double layer tends to be fully formed within $\sim$~35 ns.
535 > double layer tends to be fully formed within $\sim$35 ns.
536  
537   A number of possible mechanisms exist to explain the role of adsorbed
538   CO in restructuring the Pt surface. Quadrupolar repulsion between adjacent
539   CO molecules adsorbed on the surface is one likely possibility.  However,
540   the quadrupole-quadrupole interaction is short-ranged and is attractive for
541   some orientations.  If the CO molecules are ``locked'' in a specific orientation
542 < relative to each other, through atop adsorption perhaps, this explanation
542 > relative to each other, through atop adsorption for example, this explanation
543   gains some weight.  The energetic repulsion between two CO located a
544   distance of 2.77~\AA~apart (nearest-neighbor distance of Pt) with both in
545 < a  vertical orientation is 8.62 kcal/mole. Moving the CO apart to the second
545 > a  vertical orientation is 8.62 kcal/mol. Moving the CO apart to the second
546   nearest-neighbor distance of 4.8~\AA~or 5.54~\AA~drops the repulsion to
547 < nearly 0 kcal/mole. Allowing the CO's to leave a purely vertical orientation
548 < also quickly drops the repulsion, a minimum is reached at $\sim$24 degrees
549 < of 6.2 kcal/mole. As mentioned above, the energy barrier for surface diffusion
550 < of a Pt adatom is only 4 kcal/mole. So this repulsion between CO can help
551 < increase the surface diffusion. However, the residence time of CO was
547 > nearly 0 kcal/mol. Allowing the CO's to leave a purely vertical orientation
548 > also quickly drops the repulsion, a minimum of 6.2 kcal/mol is reached at $\sim$24 degrees between the 2 CO when the carbons are locked at a distance of 2.77 \AA apart.
549 > As mentioned above, the energy barrier for surface diffusion
550 > of a Pt adatom is only 4 kcal/mol. So this repulsion between CO can help
551 > increase the surface diffusion. However, the residence time of CO on Pt was
552   examined and while the majority of the CO is on or near the surface throughout
553   the run, it is extremely mobile. This mobility suggests that the CO are more
554   likely to shift their positions without necessarily dragging the Pt along with them.
# Line 631 | Line 634 | In this work we have shown the reconstruction of the P
634  
635  
636   \section{Conclusion}
637 < In this work we have shown the reconstruction of the Pt(557) crystalline surface upon adsorption of CO in < $\mu s$. Only the highest coverage Pt system showed this initial reconstruction similar to that seen previously. The strong interaction between Pt and CO and the limited interaction between Au and CO helps explain the differences between the two systems.
637 > In this work we have shown the reconstruction of the Pt(557) crystalline surface upon adsorption of CO in less than a $\mu s$. Only the highest coverage Pt system showed this initial reconstruction similar to that seen previously. The strong interaction between Pt and CO and the limited interaction between Au and CO helps explain the differences between the two systems.
638  
639   %Things I am not ready to remove yet
640  

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