Oslet Examples (B)
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Warning:The following models are all 2D. They have all the limitations of 2D, therefore may not be appropriate for use in chemistry and biology, where the accuracy of structure is of the fundamental importance. However, when cautiously used, they can be used to explain certain dynamical behavior of molecules, such as bond vibrations and conformational transformations.


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Polyatomic Systems are ensembles of particles with sort of geometric (such as distances and angles) constraints, always arising from chemical bonding.
dimers trimers
ethylenes benzenes
Polymer Network Left: A picture that could be imagined as a cross-section of transporting particles inside zeolite-like structure. Right: Dynamics of graphite-layer-like a polymer network.
polymer network polymer network
Collision with Polymer A simple impact-on-polymer simulation. The model was created from a template by cutting and pasting. The initial velocities of the two bullets were given by the 'rocketship'. In the pictures the two atoms had been bounced back and forth between the container wall and the polymer, this is the reason why in the screenshots the polymer had been distorted so much while the bullets were still seemingly far away from it. Also in the simulation, the polymer was restrained in space so that the shock wave did not cause a significant translation of the center of mass.
bullet to polymer bullet to polymer
bullet to polymer bullet to polymer
Cell Osmosis We attempted to model molecular transport dynamics through the cell membrane of a cartoonized model for prokaryote cell. The model has a closed-form double-layer membrane. The 'water molecules' in the environment are modelled as small particles. Inside the 'cell' are some other particles and a molecular body that stand for the entity of DNA and ribosime. Flagellum is not modelled. Due to the collisions with the 'water molecules', the 'cell' can move around like a giant Brownian particle.
cell osmosis cell osmosis

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