Analyzing mechanisms and microscopic reversibility of self-assembly

Abstract

We use computer simulations to investigate self-assembly in a system of model chaperonin proteins, and in an Ising lattice gas. We discuss the mechanisms responsible for rapid and efficient assembly in these systems, and we use measurements of dynamical activity and assembly progress to compare their propensities for kinetic trapping. We use the analytic solution of a simple minimal model to illustrate the key features associated with such trapping, paying particular attention to the number of ways that particles can misbind. We discuss the relevance of our results for the design and control of self-assembly in general.

11 pages, 8 figures. Discussion clarified in response to referee coments

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• The effect of boundary adaptivity on hexagonal ordering and bistability in circularly confined quasi hard discs
• Optimization of Non-Equilibrium Self-Assembly Protocols Using Markov State Models
• Optimising self-assembly through time-dependent interactions
• Stochastic Yield Catastrophes and Robustness in Self-Assembly
• Quantifying reversibility in a phase-separating lattice gas: an analogy with self-assembly
• Molecular Assembly Lines in Active Droplets
• Macroscopic equivalence for microscopic motion in a turbulence driven three-dimensional self-assembly reactor
• Impact of non-reciprocal interactions on colloidal self-assembly with tunable anisotropy
• 2D capsid formation within an oscillatory energy landscape: orderly self-assembly depends on the interplay between a dynamic potential and intrinsic relaxation times