Perform a Molecular Dynamics Simulation in Solution.

A 3D structure that you’ve previously generated on Glycam-Web is subjected to an energy minimization and molecular dynamics simulation to generate a trajectory of shapes that it adopts in solution.

Currently in alpha testing. User accounts will be approved for beta testing soon. This tool allows you to perform an MD simulation with structures you’ve generated on Glycam-Web. The simulation is performed using Amber, and all the details are made available in the output file. You will be able to download the resulting trajectory for your own analysis.


An account is required for tracking projects. If you don't already have an account, you will need to register, then return to this page.

Assemble a glycan by connecting monosaccharides. This is the legacy tool.
Assemble a glycan by connecting monosaccharides. This new tool is still in development.
If you didn't send your project to the MD tool in the Carbohydrate Builder, you can still do it in your project detail page.
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