## New Research In

### Physical Sciences

### Social Sciences

#### Featured Portals

#### Articles by Topic

### Biological Sciences

#### Featured Portals

#### Articles by Topic

- Agricultural Sciences
- Anthropology
- Applied Biological Sciences
- Biochemistry
- Biophysics and Computational Biology
- Cell Biology
- Developmental Biology
- Ecology
- Environmental Sciences
- Evolution
- Genetics
- Immunology and Inflammation
- Medical Sciences
- Microbiology
- Neuroscience
- Pharmacology
- Physiology
- Plant Biology
- Population Biology
- Psychological and Cognitive Sciences
- Sustainability Science
- Systems Biology

# Relevance of packing to colloidal self-assembly

Contributed by Sharon C. Glotzer, December 26, 2017 (sent for review November 20, 2017; reviewed by John Crocker and Randall D. Kamien)

## Significance

Understanding how structural order forms in matter is a key challenge in designing materials. In the 1920s, Pauling proposed packing as a mechanism for driving structural order based on observed correlations between the structure of crystals and the mathematical packing of hard spheres. We study the ordering of several systems of hard colloids in which structural order correlates with mathematical packing and find, surprisingly, that structural order cannot arise from packing. Our approach provides statistical mechanics approaches for investigating the mathematics of packing and raises questions about the role of packing in determining the structural order of matter.

## Abstract

Since the 1920s, packing arguments have been used to rationalize crystal structures in systems ranging from atomic mixtures to colloidal crystals. Packing arguments have recently been applied to complex nanoparticle structures, where they often, but not always, work. We examine when, if ever, packing is a causal mechanism in hard particle approximations of colloidal crystals. We investigate three crystal structures composed of their ideal packing shapes. We show that, contrary to expectations, the ordering mechanism cannot be packing, even when the thermodynamically self-assembled structure is the same as that of the densest packing. We also show that the best particle shapes for hard particle colloidal crystals at any finite pressure are imperfect versions of the ideal packing shape.

Why do atoms, molecules, or nanoparticles form the crystals that they form? In 1929, Pauling proposed an answer to this question for atoms by showing remarkable correlations between the sphere packing problem, the study of which dates back to Sanskrit writings in 499 CE (1), and the crystal structures of ionic solids (2). The packing problem asks the following question: given a set of hard, convex objects, such as spheres, what is the spatial arrangement of those objects that most densely fills space? Pauling argued that crystal structures could be explained by packings of spheres of appropriate atomic radii.

Variants of the packing problem have yielded solutions relevant not only to the rationalization of crystal structures (2) but also, in optimal information transmission (3), DNA in cell nuclei (4, 5), blood clots (6), plant morphology (7), and the stacking of oranges in the produce section (8). Packing rules were used by Frank and Kasper (9, 10) to rationalize complex crystal structures in intermetallic alloys, and the molecular packing parameter, a popular geometric measure in surfactant self-assembly, is also based on packing principles (11).

More recently, Pauling’s packing principles have been used to rationalize and predict colloidal crystals and nanoparticle superlattice structures by asserting packing as a causal mechanism. For example, packing rules explain many binary nanoparticle superlattice structures obtained from both spherical and nonspherical particle shapes (12⇓–14). Packing rules are also successfully used to design DNA-functionalized gold nanospheres (15, 16). This raises the question: in instances where packing principles can describe observed crystal structures, does that necessarily imply that packing mechanisms are responsible?

For chemically bonded spherical particles, where, for example, electrostatic forces between oppositely charged colloids or ligand–ligand attraction between functionalized nanoparticles may dominate, packing arguments seem plausible due to the tendency toward close-packed structures. However, when attractive interparticle forces are weak and particles are nonspherical, entropy arising from thermal motion can dominate and invalidate packing rules (17⇓⇓⇓⇓⇓⇓⇓–25). Nevertheless, there are examples in both situations where packing rules seem to explain self-assembled structures. Does that imply that the crystal formed via a packing mechanism? Or is it simply the case that packing rules are useful to rationalize the structure retrospectively, as is the case for molecular packing rules in ordered surfactant systems?

Statistical thermodynamics tells us that free energy minimization dictates equilibrium structures. In the case of hard particles, free energy minimization is achieved by structures that self-assemble to maximize entropy, except in the limit of very high pressures, where they maximize density (24, 26⇓⇓⇓⇓–31). It is these maximum density (or infinite pressure) structures that are invoked when packings are discussed. It is also this limiting case that offers an explanation of why systems of atoms, molecules, or nanoparticles might order through packing.

We can answer our questions by comparing for a given system the self-assembly density,

If we find for some system that

We also pose the following related question. When can packing arguments be used for the inverse problem of predicting the thermodynamically optimal particle shape for a particular structure? In other words, when—if ever—is the space-filling shape of a target crystal structure thermodynamically optimal for self-assembling that crystal?

## Approach

To understand whether packing is driving self-assembly or fundamental to particle design, we study the most likely systems for this to be the case: idealized, perfectly hard, convex shapes. We consider three common structures [face-centered cubic (FCC), simple cubic (SC), and body-centered cubic (BCC)] and their corresponding space-filling (Voronoi) shapes (rhombic dodecahedron, cube, and truncated octahedron) shown in Fig. 1 *B*–*D*. It is well-known that, for each of these shapes, the corresponding structure is the only thermodynamic equilibrium assembly and the densest packing (at

Hard particle Monte Carlo (HPMC) simulations (37) of the self-assembly of FCC, SC, and BCC crystals were carried out for a family of spheric triangle group invariant particle shapes, *A*), which includes each crystal’s space-filling particle, as shown in Fig. 1 *B*–*D*, but also, importantly, sets of truncated versions of those shapes that are nearby in shape space. This shape family maps two values,

To compute the packing onset density, we used analytical constructions of putative densest packings reported in ref. 38 for the entire **2** in the infinite pressure limit. We evaluated the first term in Eq. **2** at finite pressure using *NPT* HPMC simulations at varying pressures. From this, we estimated the lower limit of

*NVT*μ ensemble to find the thermodynamically optimal shape for FCC, SC, and BCC as a function of density. Additional details and derivations for the parameterization of the

*Materials and Methods*and

*SI Materials and Methods*.

## Results and Discussion

The computed alchemical potential as a function of pressure is plotted in Fig. 2 for FCC (Fig. 2*A*), SC (Fig. 2*B*), and BCC (Fig. 2*C*). Particle shape is fixed to that of the space-filling particle in each case. Asymptotic behavior extracted from analytical results reported in ref. 38 reveals that, in all three cases, asymptotes have zero slope in the limit of infinite pressure and thus, **2**, and dashed lines represent the second term, adapted from analytical results reported in ref. 38. We also indicate both the assembly and random close packing densities for FCC, SC, and BCC:

Moreover, results in Fig. 3 *A*–*C* indicate that packing cannot predict ideal particle shapes for self-assembly, because the perfect space-filling shape is never thermodynamically preferred away from *A*–*C* indicate the per-particle free energy cost of modifying the shape of all colloidal particles while maintaining a fixed target structure. Even at *A*–*C*) with the corresponding densest packing landscape from ref. 38 (re-created in Fig. 3 *D*–*F*). Thus, while densest packing arguments do not predict the optimal shape for self-assembly, the densest packing landscape may provide qualitative guidance in determining optimal particle shape.

## Conclusions

Although packing arguments are often used successfully in nanoparticle and colloidal assembly, they often fail to explain experimental and computational observations. Our findings show that the use of packing arguments to rationalize observed structures or design particles to achieve target structures may not be well-founded, even when the observed structure is the same as that one would get from packing. Because one would expect packing principles—if they do hold—to hold for hard particles, our finding raises the question: is the apparent success of Pauling’s packing principles for atomic systems also a spurious correlation? It could also be that the imperfect hardness of atoms and molecules makes them more amenable to dense packing as a mechanism. This counterintuitive possibility would beg for additional understanding, as the initial reasons for applying packing arguments were based on the existence of steep, sterically repulsive interaction potentials that are nearly hard. Combining the approach for studying sphere packings developed in ref. 41 with the generalized Maxwell relation Eq. **1** could give additional insight into the behavior of putative sphere packings more generally. Indeed, for spherical nanoparticles, recent work analyzing experiments reported in ref. 12 has shown that the microscopic details of the particle organization are driven by a complex form of packing involving ligand topology (42⇓–44). In addition, in providing thermodynamic formulations with which to investigate the packing of hard shapes, we offer alternative approaches to the ubiquitous but notoriously difficult set of general packing problems (45).

Our results combined with those reported in ref. 46 indicate that, in every case that has so far been investigated, there is not a single instance in which a space filling shape is thermodynamically optimal for the self-assembly of its corresponding target structure, at least for hard colloidal particles, as entropic contributions cannot be ignored. Small, stabilizing entropic contributions one might have guessed to be irrelevant can arise from nearly infinitesimal shape modifications, such as small truncations of vertices or edges of polyhedral nanoparticles. This means the space-filling shape is never thermodynamically optimal for self-assembling its corresponding structure, at least for hard colloidal particles. Our observations suggest that heroic efforts to synthesize perfectly shaped, space-filling particles to achieve the corresponding target structure are unnecessary and that the entropy gained from slight imperfections may actually facilitate assembly.

## Materials and Methods

Here, we present a brief overview of the methods used to generate the data given in the text. Additional details and derivations can be found in *SI Materials and Methods*.

### Shape Parameterization.

Spheric triangle group families are generated by the intersection of sets of symmetric planes (38). They are parameterized by *i*th-fold symmetric planes from the particle center. Any *i*th-fold axis of symmetry for the particle shape.

The shape family studied here is generated by intersections of planes perpendicular to the directions of the four-, two-, and threefold axes of rotational symmetry for a rhombic dodecahedron, shown in Fig. 1*A* as red, blue, and gray, respectively, and it is, therefore, named the 423 family of polyhedra (*i*) geometric reasoning about shape features that lead to optimal thermodynamic behavior and (*ii*) crystal growth processes that determine particle symmetries in nanoscale and synthesis protocols (47⇓–49).

### Simulation Methods.

We simulate our shapes in the alchemical ensemble using the digital alchemy (DA) framework (32). DA is a statistical mechanics simulation technique that uses thermodynamic ensembles extended into alchemical (here, particle shape) space by one or more dimensions, allowing fluctuations in the alchemical space or corresponding conjugate alchemical potential(s). This extended (“alchemical”) ensemble has the partition function (32)

We used DA through the simulation method alchemical hard particle Monte Carlo (Alch–HPMC) (32). In Alch–HPMC simulations, *SI Materials and Methods* and ref. 32. For the hard particle systems studied here, the potential energy (and

We used DA and Alch–HPMC in two ways: (*i*) we computed the expectation value *ii*) we performed Alch–HPMC within the *SI Materials and Methods* has numerical details and state points for

In *i*, we initialized independent simulations with distinct shapes, taking

In *ii*, simulations were used to evaluate alchemical potentials for space-filling shapes using the thermodynamic relation**5** numerically using the Bennett acceptance ratio method (52), which is described as it applies to the alchemical potential in ref. 32 and uses a finite differencing method published in ref. 53.

In this ensemble, we derive a Maxwell relation between alchemical potential

Specifically, we consider systems to exhibit packing behavior when the slope of the alchemical potential approaches the infinite pressure asymptotic limit of the dense packing surface given by Eq. **1**. Relevant data (38) have been re-created in *SI Materials and Methods* according to our variable notation.

All simulations were performed with an HPMC (37) extension to HOOMD-Blue (54, 55), which we further extended to allow Alch–HPMC moves. Runs were partially performed on Extreme Science and Engineering Discovery Environment computing resources (56). The data management for this publication was supported by the signac data management framework (57, 58). Details on statistical analyses can be found in *SI Materials and Methods*.

## Acknowledgments

We thank J. Dshemuchadse, C. X. Du, Y. Geng, and E. Harper for helpful conversations and A. Travesset for helpful correspondence. This work used the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by National Science Foundation Grant ACI-1053575 and XSEDE Award DMR 140129. R.K.C. acknowledges support from the University of Michigan Rackham Merit Fellowship program and National Science Foundation Division of Materials Research Award DMR 1120923. P.M.D. acknowledges support from National Science Foundation Emerging Frontiers in Research and Innovation Award EFRI-1240264. This material is based on work supported (in part) by US Army Research Office Grant W911NF-10-1-0518. This work was partially supported by a Simons Investigator Award (to S.C.G.) from the Simons Foundation.

## Footnotes

↵

^{1}R.K.C. and G.v.A. contributed equally to this work.- ↵
^{2}To whom correspondence should be addressed. Email: sglotzer{at}umich.edu.

Author contributions: R.K.C., G.v.A., and S.C.G. designed research; R.K.C., G.v.A., and S.C.G. performed research; R.K.C. and P.M.D. contributed new reagents/analytic tools; R.K.C., G.v.A., and S.C.G. analyzed data; G.v.A. and S.C.G. supervised research; and R.K.C., G.v.A., and S.C.G. wrote the paper.

Reviewers: J.C., University of Pennsylvania; and R.D.K., University of Pennsylvania.

The authors declare no conflict of interest.

This article contains supporting information online at www.pnas.org/lookup/suppl/doi:10.1073/pnas.1720139115/-/DCSupplemental.

Published under the PNAS license.

## References

- ↵
- ↵
- ↵.
- Werner B

- Bischoff S,
- Kobbelt L

- ↵
- ↵
- ↵.
- Cines DB, et al.

- ↵.
- Ball P

- ↵.
- Hales TC

- ↵
- ↵
- ↵.
- Israelachvili JN,
- Mitchell DJ,
- Ninham BW

- ↵
- ↵
- ↵
- ↵
- ↵
- ↵.
- Damasceno PF,
- Engel M,
- Glotzer SC

- ↵.
- Smallenburg F,
- Filion L,
- Marechal M,
- Dijkstra M

- ↵
- ↵
- ↵.
- Rossi L, et al.

- ↵.
- Avendaño C,
- Escobedo FA

- ↵
- ↵
- ↵
- ↵.
- Anders G,
- Klotsa D,
- Ahmed NK,
- Engel M,
- Glotzer SC

- ↵
- ↵.
- Frenkel D

- ↵.
- Barry E,
- Dogic Z

- ↵.
- Manoharan VN

- ↵.
- Frenkel D

- ↵.
- Anders G,
- Klotsa D,
- Karas AS,
- Dodd PM,
- Glotzer SC

- ↵.
- Weeks ER,
- Crocker JC,
- Levitt AC,
- Schofield A,
- Weitz DA

- ↵
- ↵
- ↵
- ↵.
- Anderson JA,
- Irrgang ME,
- Glotzer SC

- ↵.
- Chen ER,
- Klotsa D,
- Engel M,
- Damasceno PF,
- Glotzer SC

- ↵
- ↵
- ↵
- ↵.
- Travesset A

- ↵.
- Travesset A

- ↵.
- Waltmann C,
- Horst N,
- Travesset A

- ↵.
- Lagarias JC,
- Zong C

- ↵.
- Geng Y,
- Anders G,
- Dodd PM,
- Dshemuchadse J,
- Glotzer SC

- ↵.
- Sun Y,
- Xia Y

- ↵.
- Sau TK,
- Rogach AL

- ↵
- ↵.
- Frenkel D,
- Smit B

- ↵
- ↵
- ↵.
- Fornberg B

- ↵.
- Anderson JA,
- Lorenz CD,
- Travesset A

- ↵.
- Anderson JA,
- Glotzer SC

- ↵
- ↵.
- Adorf CS,
- Dodd PM,
- Glotzer SC

- ↵.
- Adorf CS,
- Dodd PM

## Citation Manager Formats

### More Articles of This Classification

### Physical Sciences

### Applied Physical Sciences

### Related Content

- No related articles found.

### Cited by...

- No citing articles found.