Bonds
Bonded interactions are a specific type of interactions that are applied to a predefined set of particles, identified by their IDs, and remain constant throughout the simulation. These interactions are used to model a wide range of phenomena, the most paradigmatic being two particles connected by, for example, a harmonic bond. This means that two particles, which we identify using their IDs i and j, are interacting with a potential of the type \(U(r) = 1/2 K (r - r_0)^2\), where \(r = |\vec{r}_{ij}| = |\vec{r}_j - \vec{r}_i|\) and \(K\) and \(r_0\) are the spring constant and the equilibrium distance, respectively, which are the characteristic parameters of the potential. UAMMD-structured offers a variety of these types of interactions, which are categorized based on the number of particles involved in the bond.
Available bonds: