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Explicit and implicit modeling of nanobubbles in hydrophobic confinement

Abstracts

Water at normal conditions is a fluid thermodynamically close to the liquid-vapor phase coexistence and features a large surface tension. This combination can lead to interesting capillary phenomena on microscopic scales. Explicit water molecular dynamics (MD) computer simulations of hydrophobic solutes, for instance, give evidence of capillary evaporation on nanometer scales, i.e., the formation of nanometer-sized vapor bubbles (nanobubbles) between confining hydrophobic surfaces. This phenomenon has been exemplified for solutes with varying complexity, e.g., paraffin plates, coarse-grained homopolymers, biological and solid-state channels, and atomistically resolved proteins. It has been argued that nanobubbles strongly impact interactions in nanofluidic devices, translocation processes, and even in protein stability, function, and folding. As large-scale MD simulations are computationally expensive, the efficient multiscale modeling of nanobubbles and the prediction of their stability poses a formidable task to the'nanophysical' community. Recently, we have presented a conceptually novel and versatile implicit solvent model, namely, the variational implicit solvent model (VISM), which is based on a geometric energy functional. As reviewed here, first solvation studies of simple hydrophobic solutes using VISM coupled with the numerical level-set scheme show promising results, and, in particular, capture nanobubble formation and its subtle competition to local energetic potentials in hydrophobic confinement.

solvation; hydrophobicity; nanobubbles; implicit water model; molecular dynamics simulations


Água em condições normais consiste de um fluido termodinamicamente próximo à fase líquida-vapor exibindo alta tensão superficial. Esta combinação conduz a fenômenos capilares interessantes na escala microscópica. Simulações computacionais baseadas em técnicas de Dinâmica Molecular em solutos hidrofóbicos por exemplo fornecem evidências do fenômeno de evaporação capilar em escalas nanométricas dando origem à formação de bolhas nanométricas confinadas entre superfícies hidrofóbicas. Este fenômeno tem sido exemplificado em solutos de complexidade variável, ex placas de parafina, polímeros, canais biológicos e de estado sólido bem como proteínas tratadas atomicamente. Tem sido arguido quebolhas nanométricas possuem impacto significativo nos mecanismos fluídicos nanométricos e na estabilidade e dobramento de proteínas. Dado que simulações baseadas em dinâmica molecular são custosas computacionalmente, o desenvolvimento de uma modelagem multiescala eficiente sob o ponto de vista computacional impõe uma tarefa formidável à comunidadenano-física. Recentemente apresentamos um novo e versátil modelo de solvente denominado modelo implícito variacional de solvente (VISM) o qual é baseado em um funcional deenergia geométrica. Tal como apresentado aqui os primeiros estudos de solvatação de solutos hidrofóbicos simples usando VISM acoplados com esquemas numéricos de conjunto de níveis mostraram resultados promissores e em particular capturaram a formação de nano-bolhas e a sua competição com potenciais localmente energéticos em condições de confinamento hidrofóbico.

solvatação; hidrofobicidade; nano-bolhas; modelo de água implícito; simulações de dinâmica molecular


PHYSICAL SCIENCES

Explicit and implicit modeling of nanobubbles in hydrophobic confinement

Joachim Dzubiella

Physics Department (T37), Technical University Munich, James-Franck-Straß e, 85748 Garching, Germany

ABSTRACT

Water at normal conditions is a fluid thermodynamically close to the liquid-vapor phase coexistence and features a large surface tension. This combination can lead to interesting capillary phenomena on microscopic scales. Explicit water molecular dynamics (MD) computer simulations of hydrophobic solutes, for instance, give evidence of capillary evaporation on nanometer scales, i.e., the formation of nanometer-sized vapor bubbles (nanobubbles) between confining hydrophobic surfaces. This phenomenon has been exemplified for solutes with varying complexity, e.g., paraffin plates, coarse-grained homopolymers, biological and solid-state channels, and atomistically resolved proteins. It has been argued that nanobubbles strongly impact interactions in nanofluidic devices, translocation processes, and even in protein stability, function, and folding. As large-scale MD simulations are computationally expensive, the efficient multiscale modeling of nanobubbles and the prediction of their stability poses a formidable task to the'nanophysical' community. Recently, we have presented a conceptually novel and versatile implicit solvent model, namely, the variational implicit solvent model (VISM), which is based on a geometric energy functional. As reviewed here, first solvation studies of simple hydrophobic solutes using VISM coupled with the numerical level-set scheme show promising results, and, in particular, capture nanobubble formation and its subtle competition to local energetic potentials in hydrophobic confinement.

Key words: solvation, hydrophobicity, nanobubbles, implicit water model, molecular dynamics simulations.

RESUMO

Água em condições normais consiste de um fluido termodinamicamente próximo à fase líquida-vapor exibindo alta tensão superficial. Esta combinação conduz a fenômenos capilares interessantes na escala microscópica. Simulações computacionais baseadas em técnicas de Dinâmica Molecular em solutos hidrofóbicos por exemplo fornecem evidências do fenômeno de evaporação capilar em escalas nanométricas dando origem à formação de bolhas nanométricas confinadas entre superfícies hidrofóbicas. Este fenômeno tem sido exemplificado em solutos de complexidade variável, ex placas de parafina, polímeros, canais biológicos e de estado sólido bem como proteínas tratadas atomicamente. Tem sido arguido quebolhas nanométricas possuem impacto significativo nos mecanismos fluídicos nanométricos e na estabilidade e dobramento de proteínas. Dado que simulações baseadas em dinâmica molecular são custosas computacionalmente, o desenvolvimento de uma modelagem multiescala eficiente sob o ponto de vista computacional impõe uma tarefa formidável à comunidadenano-física. Recentemente apresentamos um novo e versátil modelo de solvente denominado modelo implícito variacional de solvente (VISM) o qual é baseado em um funcional deenergia geométrica. Tal como apresentado aqui os primeiros estudos de solvatação de solutos hidrofóbicos simples usando VISM acoplados com esquemas numéricos de conjunto de níveis mostraram resultados promissores e em particular capturaram a formação de nano-bolhas e a sua competição com potenciais localmente energéticos em condições de confinamento hidrofóbico.

Palavras-chave: solvatação, hidrofobicidade, nano-bolhas, modelo de água implícito, simulações de dinâmica molecular.

INTRODUCTION

The modeling and description of aqueous properties such as water structure, dynamics, and eventually thermodynamics are obviously of fundamental interest as water is the most abundant fluid on our planet, and governs biological evolution and geomechanical and atmospheric phenomena (Ball 1999). Particularly, on microscopic scales, i.e., on length scales on the order of thesize of a water molecule (~ 3Å) to the size of a hydrogen-bonded network ( 1-100 nm), the structural properties of water in bulk and confinement are crucial forthe understanding of micro- to macroscale hierarchical processes in our environment. These small length scales, however, are still difficult to access directly by experiments, and their exploration by theoretical and computational means has become an important and necessary branch of theoretical physical chemistry and biology in the last few decades.

The theoretical modeling of water can be performed by explicitly resolving its atomic and molecular degrees of freedom by quantum-mechanical (QM) methods (Jensen 2006) or classical molecular dynamics (MD) computer simulations (Allen and Tildesley1987, Frenkel and Smit 1996). In the following, we refer to this as an explicit modeling of water. Due to the high computational cost, QM and MD methods are restricted to small systems ranging from ~ 100 water molecules in QM methods to ~ 105 molecules in MD simulations. Although the latter number seems to berelatively large, the accessible time scales for thesesystem sizes are typically too small to guarantee ergodicity and good sampling of the statistical ensemble.A typical procedure to reduce computational costs is to integrate out the solvent degrees of freedom by introducing effective interactions ("coarse-graining"), see for instance information theory (Hummer et al. 1996), LCW theory (Lum et al. 1999), or the string method (Miller III et al. 2007).

An extremely coarse but efficient approach is to model the water in a continuum manner, i.e., by describing water properties by macroscopic constants only, such as the surface tension and dielectric constant.Those quantities are then assumed to be locally defined in space depending on the particular microscopic aqueous environment. In theoretical biochemistry, this is a common approach to obtain quick estimates of solvation or binding free energies of proteins. (Note that a protein, or in general a solute, can be considered an external, confining potential.) The approach is mainly based on the so-called solvent-accessible surface (SAS) and Poisson-Boltzmann (PB) electrostatics (Roux and Simonson 1999). The SAS, which has to be defined before evaluating any energies, usually serves also as a dielectric boundary. In the following we refer to thecontinuum modeling of water as an implicit modeling.

Water at normal conditions (i.e., pressure P = 1 bar and temperature T = 300 K) is a fluid thermodynamically close to the liquid-vapor phase transition andfeatures a relatively high surface tension. As a consequence, in strong hydrophobic confinement, capillary evaporation can be triggered - a well known phenomenon in the physics of phase transitions (Kralchevsky and Nagayama 2001). Spelling it out, a stable vapor bubble can form between the confining surfaces (Chandler 2005, Rasaiah et al. 2008). The physical reason behind that phenomenon is that the water can minimize its free energy by evaporating and reducing unfavorableliquid-solid interface area in the hydrophobic environment. As the surface tension of water is large, the thermodynamic volume (V) work PV for evaporating plays only a minor role on microscopic ( ~ nm) scales. Sometimes in the literature the vapor bubble on these scales is called a 'nanobubble'. The nanobubbles in this work however, must not be confused with aqueous surface bubbles (Attard 2000, Parker et al. 1994) which are due to fluctuations and impurities close to the solid surfaces. These fluctuations, however, may be the trigger to capillary evaporation which usually comes with a nucleation barrier (Huang et al. 2003).

Figure 1 illustrates a simple plate-like confinement with two hydrophobic square plates (length L) in a distance D on a nanometer scale. The free energy difference between the filled state (liquid between the two plates) and the vapor state (nanobubble) can be estimated by simple macroscopic arguments and is

where P is the liquid bulk pressure and the vapor pressure is assumed to be zero. γ is the surface tension that is assumed to be the same for all interfaces and curvature effects are neglected. The first term is the thermodynamic work to create a vapor hole against the liquid pressure, while the second term is the interfacial work gained by removing the two plate-liquid interfaces, and the third term the interfacial work paid by forming the four liquid-vapor interfaces. On these scales, the pressure term can be neglected as the bubble volume is small and the interfacial terms dominate. We obtain ΔG 2 γ L(2D-L), showing that, for distances D L/2, ΔG < 0, the nanobubble is thermodynamically stable and should have long life times. Given the large surface tension of water, we find for the nanometer plates a large mutual hydrophobic attraction of ΔG γ nm2 20kBT in agreement with atomistic computer simulations (Koishi et al. 2004). Also see Figure 4 later in this work.





The phenomenon of nanobubble formation in hydrophobic confinement has been confirmed in the last decade by a large number of explicit computer simulations of, e.g., plate-like solutes (Chandler 2005), homopolymers (ten Wolde and Chandler 2002), or channels and pores (Beckstein et al. 2001, Dzubiella andHansen 2004b, 2005, Rasaiah et al. 2008, Vaitheesvaran et al. 2004). It has been suggested that nanobubbles can play a crucial role in protein stability, folding, and function. Once a nanobubble is formed, it leads to strong and long-ranged hydrophobic forces among the "dry" regions as the system further tries to minimize unfavorable interface area (see for instance the simpleplate model above) and can induce quick protein folding and collapse (ten Wolde and Chandler 2002) or stable protein assemblies (Liu et al. 2005). Importantly,the evaporation of liquid in the narrow hydrophobicpore region of ion channel proteins (Anishkin andSukharev 2004, Beckstein et al. 2001, Sotomayor et al. 2007) seems to be important for the control of physiological ion conductance. The presence of a vapor bubble blocks ion permeation as the ion would have to desolvate to travel through the vapor. It has been recognized that the bubble stability is sensitive to local geometry and electrostatics, implying that it can play a key role in the voltage or mechanical gating of the channel protein, i.e., the electrostatic or geometrical control of particle (ion) permeability (Beckstein et al. 2001, Dzubiella and Hansen 2004b, 2005, Sotomayor et al. 2007). Related to this, nanobubble formation has been maderesponsible experimentally to block (bio)polymer translocation through narrow hydrophobic solid-state nanopores (Smeets et al. 2006). Direct experimental evidence of nanobubbles is still elusive as they are small, soft, and transient. For this reason, the explicit and implicit theoretical modeling of nanobubbles is crucial for understanding their impact on molecular processes in aqueous solution.

It has been systematically demonstrated that the shape and stability of the vapor bubble sensitively competes with local solute geometry, dispersion, or electrostatic potentials (Dzubiella and Hansen 2003, 2004a, b, 2005, Liu et al. 2005, Vaitheesvaran et al. 2004, Zhou et al. 2004). Figure 1 illustrates an example where the charging of hydrophobic plates can destroy the nanobubble by dragging the polar solvent into the region between the two plates. Clearly, the stability depends on the amount of charge and geometry of the solute that determine the local electrostatic field distribution. Modeling and prediction of the nanobubble transition, shape, and stability with coarse-grained models thus poses a formidable challenge to the 'nanophysical' and mathematical communities. Established implicit solvent models, such as those based on SAS definitions (Roux and Simonson 1999) are not suitable, as here the solute-solvent interface is input, i.e., is it predefined. The stability of a nanobubble, however, is a priori not known, and a model is required that predicts nanobubble stability, or, in other words, the solute-solvent interface location.

In this paper we review selected examples in the explicit and implicit modeling of nanobubbles in hydrophobic confinement and present a method - the variational implicit solvent model (VISM) - which is potentially capable of predicting nanobubbles in arbitrary confinement without any a priori assumption of the interface location. It is the first implicit water model that can predict nanobubble formation as it is based on ageometric minimization procedure and does not need the interface location in the confining system as input, as used by conventional methods. In the next section,the mechanisms of and competition between hydrophobic (interfacial) effects and electrostatics are readily exemplified by explicit-water MD simulations of two generic model systems. After that, the VISM is introduced, along with the level-set method, helpful for the numerical evaluation of the VISM equation. Some simpleapplication are discussed thereafter in the last but onesection. Parts of this paper have been published elsewhere (Cheng et al. 2007, Dzubiella and Hansen 2003, 2004a, b, 2005, Dzubiella et al. 2006a, b).

EXPLICIT MODELING OF NANOBUBBLES: SELECTED EXAMPLES

A. TWO SPHERICAL HYDROPHOBIC NANOSOLUTES

In Figure 2 we show the (cylindrically averaged) density profiles of water around two hydrophobic nanometer sized solutes from MD simulation at normal conditions (Dzubiella and Hansen 2003, 2004a). The water-sphere interaction is hard-core like and the spheres have a radius of R 1 nm and are kept at a fixed surface-to-surface distance of 4 Å. Additionally, the spheres are homogeneously and oppositely charged with a) z = 0,b) 2, and c) 5 elementary charges. As can be seenin Figure 2 a), a stable nanobubble is developed between the two neutral spheres due to capillary evaporation. The solute-solvent interface has a catenoidal shape and minimizes the area of the enveloping surface, which is smaller than the total solvent-accessible surface area of the two spheres (8 π R2). Upon charging, the spheresbecome increasingly solvated and the nanobubble becomes unstable and vanishes [Fig. 2 b) and c)]. Charging the spheres, i.e., adding attraction between the solute and the polar solvent, competes with the hydrophobic effect and clearly suppresses nanobubble formation due to a favorable solvation.

The nanobubble has a strong impact on the mean force (MF) between the two spheres, as shown in Figure 2 in the right plot. The MF displays a significant attraction for the neutral spheres while the attraction decreases for increasing charge. Without charges, the system is strongly hydrophobic and attempts to furtherminimize solute-solvent interface area by pushing the spheres together. Charging, on the other hand, attracts solvent to the solute surface and the solutes like to stay in solution. This simple system already exemplifies the subtle competition between hydrophobicity and electrostatics in molecular systems, which might play a role in macromolecular assemblies on nanometer scales.

B. NANOPORES AND IONS CHANNELS

Another relevant generic model system for studying hydrophobic effects is that of a cylindrical pore with length L and radius R connecting two reservoirs of water and ions, as shown in Figure 3. In explicit-water MD simulations (Allen et al. 2002, Beckstein et al. 2001, Dzubiella and Hansen 2004b, Rasaiah et al. 2008) it was shown that the pore can exhibit capillary evaporation, i.e., nanobubble formation, with a strong dependence on the geometry (R,L) of the pore. This can be readilyunderstood by the simple macroscopic arguments presented in the introduction. By evaporating from thecylinder interior, the solvent saves unfavorable interactions with the hydrophobic cylinder walls ( ΔG ∝ -RL) while new interfaces have to be created at the cylinder mouths ( ΔGR2). In the shown example, the pore radius is ~ 0.5 nm while the length is about 1.5 nm and a stable nanobubble is observed. Consequently, ions in the reservoir do not seem to permeate the channel as they have to pay a large solvation free energy when crossing the bubble. Under the bottom line, the channel, although sterically large enough, is blocked by the nanobubblefor particle permeation.

However, it was further demonstrated that an ionic concentration imbalance between the two reservoirs can give rise to a large electric field E across the membrane that drives the polar solvent into the pore. It was observed that the electric field necessary for wetting of the pore had to be larger than a critical field Ec. Oncethe pore was solvated, ions could be easily dragged through it by the help of the driving field, as shown in Figure 3b). Subsequent permeation events lower the concentration gradient and the electric field E falls below Ec, whereupon the pore empties again from water and closes to ion permeation. The nanobubble acts hereby as an 'electrostatic switch' and may be relevant for biological voltage gating or biotechnological applications as previously proposed (Dzubiella and Hansen 2004b, 2005). Furthermore, explicit MD simulations of atomistically resolved ion channel proteins revealedthat this mechanism may indeed play a key role in the electrostatic control of water and ion permeation in biological membranes (Sotomayor et al. 2007).

IMPLICIT MODELING

A. VARIATIONAL IMPLICIT SOLVENT MODEL (VISM)

Consider an assembly of arbitrary solutes surrounded by solvent in a region . is the region occupied by the solutes (the cavity region empty of solvent) and we identify the solute-solvent interface to be the boundary of region , and denote it by Γ = . We further define avolume exclusion function

characterizing space devoid of solvent. We assume that the position of each solute atom

i and the solute conformation is fixed. Thus, the solutes can be considered as an external potential to the solvent without any degrees of freedom. Coupling the VISM model the solute's degrees of freedom is work in progress (Cheng et al. 2009). In this continuum solvent model, the solvent density distribution is given by a sharp-interface distribution ρ() = ρ0υ(), where ρ0 is the bulk density of the solvent.

The basic idea of VISM is to express the solvation free energy G as a functional of the cavity geometry and obtain the 'optimal' interface by minimization. It has been proposed that (Dzubiella et al. 2006a, b) G[υ] = Gvol[υ]+Gsur[υ]+ GvdW[υ] + Gele[υ], where the first term

is proportional to the volume of V , is the energy of creating a cavity in the solvent against the difference in bulk pressures P between the liquid and vapor phase, P = Pl-Pv (typically one can assume Pv 0 at normal conditions and for nanoscale volumes). The second term

describes the energetic cost due to the solvent rearrangement around the cavity, i.e., near the solute-solvent interface Γ , in terms of a function with dimensions of free energy/surface area and depending on the particular topology of the solute-solvent interface. The approximation based on scaled-particle theory assumptions (Reiss 1965) accounts for the interface curvature dependence of the surface tension (Dzubiella et al. 2006a, b), where g 0 is the constant solvent liquid-vapor surface tension for a planar interface, t is a constant first-order curvature correction coefficient, and is the local mean curvature in which and are the local principal curvatures. The third term

is the total energy of the non-electrostatic, van der Waals type, solute-solvent interaction. The potential is the sum of Ui that describes the interaction of the ith solute atom (with N total atoms) centered at i with the surrounding solvent. Each termUi includes the short-ranged repulsive exclusion andthe long-ranged attractive dispersion interaction between each solute atom i at position i and a solvent molecule at . Classical solvation studies typically represent the interaction Ui as an isotropic Lennard-Jones (LJ) potential,

with an energy scale e , length scale σ , and center-to-center distance r.

The last term Gele[υ] is the electrostatic energy due to charges possibly carried by solute atoms and the ions in the solvent and is modeled by a functional term on the Poisson-Boltzmann (PB) level (Dzubiella et al. 2006b). We refer to literature (Dzubiella et al. 2006a, b) and a recent work on a more mathematical derivation (Che et al. 2008) for further details and references.

The solvation free energy ΔG is the reversiblework to solvate the solute and is given by ΔG = G[υmin]- G0, with some arbitrary reference energy G0 and υmin() obtained from minimization

at every point of the boundary Γ , leading to the main result

where we introduced the Gaussian curvature K = k 1 k 2. This partial differential equation (PDE) for the optimal exclusion function v min(), or equivalently the optimal solute-solvent interface Γmin, is expressed in terms of pressure, curvatures, short-range repulsion, and dispersion, all of which have dimensions of energy density. It can also be interpreted as a mechanical balance between the forces per surface area generated by each of the particular contributions. Note that the electrostatic contribution is not included in (5); see the literature (Che et al. 2008, Dzubiella et al. 2006b) for details.

B. THE LEVEL SET METHOD

The level-set method is a stable numerical technique for the description and evolution of 2D surfaces in 3D space and perfectly suited for solving eq. (5). One of the major advantages of the level-set method is its easy handling of topological changes of surfaces during the surface evolution. For instance, the merge or break of bubbles can be captured by level-set calculations.

The starting point of the level-set method is to identify the surface G in three-dimensional space as the zero level-set of a function ø = ø () [see literature (Cheng et al. 2007) for references] Γ = { \colon f () = 0 }. In other words, the surface consists exactly of those points at which the function f vanishes. The function ø = ø () is called a level-set function of the surface G . The unit normal vector at the interface Γ , the mean curvature H, and the Gaussian curvature K can all be expressed in terms of the level-set function ø :

where He( ø ) is the 3 ×3 Hessian matrix of the function ø whose entries are all the second order partial derivatives of the level-set function f , and adj (He( ø )) is the adjoint matrix of the Hessian He( ø ). The basic idea is now to track the motion of the moving surface Γ(t) by evolving the level-set function f (, t) and its zero level-set at each time t according to the so-called level-set equation,

where is the normal velocity. As in common practice, we define the level-set normal velocity to be proportional to the negative of the first variation of the Gibbs free energy yielding with (5)

where µ is the interface mobility. For the equilibrium solution of (5), the particular form of µ is arbitrary. If one is interested in the right dynamics and time scales, however, µ has to be further defined. Although only valid for spherical bubbles, it was shown by a simple analysis of the Rayleigh-Plesset equation that µ = R/4 h , where R is the radius of mean curvature of the bubble and η the dynamic solvent viscosity (Dzubiella 2007). For complex geometries, one could naively assume that a simple generalization µ = (4ηH)-1 holds, but here a more thorough derivation based on the hydrodynamic Stokes equations is necessary. Interestingly, however, if one assumes dominance of capillary pressure ( ∝ γ0H) in the driving of the nanobubble interface motion, one immediately sees that the mean curvature cancels out and the absolute interface velocity is given by υn ~ γ0/η , which is of the order of 1Å/ps (100m/s). This is in accord with previous explicit-water computer simulations of nanobubble collapse (Huang et al. 2003, Liu et al. 2005, ten Wolde and Chandler 2002, Zhou et al. 2004).

C. SELECTED VISM EXAMPLES

The following selected examples illustrate that complex cavities with different interface curvature, as typical in molecular structures, can be efficiently tackled by the VISM together with the level-set method. For morequantitative details of the systems including the calculation of solvation free energies, see previous work (Cheng et al. 2007). In all of our examples, we focus on water close to normal conditions (T = 298K and P = 1bar). All solutes are modeled by fixed assemblies of identical and uncharged spheres with hard-core or LJ interactions.

1. Two spherical hydrophobic nanosolutes

We applied the VISM to study the simple two sphere system discussed in section 2 (Dzubiella et al. 2006a). The results for the MF are shown in Figure 2 together with the explicit modeling results and show good agreement. In particular, VISM captures the trend that nanobubble formation is increasingly suppressed (Dzubiella et al. 2006a) and the strong attraction in the MF reduces with charging of the solutes. Thus, VISM captures the subtle competition between hydrophobic (interfacial) and electrostatic effects.

2. Two parallel nanometer-sized paraffin plates

Here we consider the strongly hydrophobic system oftwo parallel paraffin plates as investigated in explicitwater MD simulations (Koishi et al. 2004). Each plateconsists of 6 ×6 fixed LJ-spheres and has a squarelength of ~ 3 nm. The two plates are placed in a center-to-center distance d and different separations are investigated. Koishi et al. observed a clear nanobubble formation for distances smaller than d 15Å accompaniedby a strong attractive interaction energy of the order of tenths of kBT (and in accord with the simple macroscopic estimate in the Introduction). The potential of mean force (pmf) is shown in Figure 4 together with the solution of our variational implicit solvent model and level-set snapshots of the equilibrium interface at selected distances.

As can be seen in Figure 4, we have almost perfect agreement with the MD simulation results. Our variational implicit solvent model captures the nanobubble formation, see the interface snapshots in Figure 4 for d 15Å, a consequence of the energetic desire of the system to minimize the total interface area. For larger distances the interface breaks, i.e., the bubble ruptures and the equilibrium interface is given by two isolated plates having almost no mutual interaction.

3. Helical alkane chains

In order to check if our level-set method works for more complex shaped molecules, we study model helicalalkane chains. We investigate the solvation of two different configurations, one is more loosely packed with 32 atoms, and the other uses more tightly packed 22 atoms with hardly room for water in the helical core.

The results are plotted in Figure 5, which include a comparison of our level-set calculation and a typical SAS type surface constructed by taking the envelope of all the LJ spheres. Though they look quite similar, our level-set result leads to a much smoother solute-solvent interface, and a nanobubble in the tightly packed helix, a result from the minimization of the interface area based on the energy functional. In Figure 5, on the right side, we show the same two helical chains but using a color code that indicates the value of mean curvature at each point of the solute-solvent interface. Thecurvature ranges between positive and negative valuesshowing also concave parts (blue). The highest positive curvature (deep red) is roughly given by the inverse of the length s of one LJ sphere. According to the energy functional, the concave parts give large interfacial energy penalties (mainly entropic) but the latter might be compensated by large favorable dispersion attraction (mainly enthalpic), which result in total solvation energies close to small alkanes (Cheng et al. 2007). Note that the concave parts of the interface are on the inner side of the loosely packed helix in contrast to the convex outer parts. This finding suggests a qualitatively different hydration of the helix based on local curvature, i.e., geometry.


CONCLUSIONS

In conclusion, capillary effects of water on nanometer scales (e.g., nanobubble formation) have strong relevance in a broad range of confining systems as foundin bio(techno)logical or nanofluidic processes. As demonstrated by explicit studies of these effects in generic model systems, a subtle competition between interfacial and energetic contributions (e.g., electrostatics, dispersion) governs the stability and occurrence of nanobubbles and, consequently, the behavior and function in any possible nano-devices. The implicit modeling of these intricate effects poses a formidable theoretical and numerical challenge for the 'nano'-physical and mathematical community. The presented VISM together with the level-set numerics shows high potential for that and, after further refinement, might be a suitable candidate for the implicit modeling and prediction of nanobubbles in hydrophobic confinement, and for molecular solvation studies in general.

ACKNOWLEDGMENTS

The author thanks the Deutsche Forschungsgemeinschaft (DFG) for support within the Emmy-NoetherProgramme.

Manuscript received on April 22, 2008; accepted for publication on September 10, 2008

Selected paper presented at the IUTAM Symposium on Swelling and Shrinking of Porous Materials: From Colloid Science to Poromechanics - August 06-10 2007, LNCC/MCT.

E-mail: jdzubiel@ph.tum.de

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Publication Dates

  • Publication in this collection
    25 Feb 2010
  • Date of issue
    Mar 2010

History

  • Accepted
    10 Sept 2008
  • Received
    22 Apr 2008
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