We stopped supporting the AMBER Input Configurator because the field of classical dynamics simulations is moving very rapidly, and we were finding it hard to keep up. That is, the recommended set of inputs, and their inter-relationships, keeps changing, and might differ from one simulation engine to another (e.g., sander vs pmemd). This is particularly true […]
This information is out of date and retained here only for historical purposes. Use the information here at your own risk! These instructions apply to O-sulfation of residues from GLYCAM06 and later. The method for adding sulfation to GLYCAM residues is very similar to the method for building branched structures. The only complicated part involves […]
These instructions apply to residues from GLYCAM06-h and later. They also require that you use pre-existing residues in the GLYCAM prep file database. However, there are brief notes regarding modifications of existing residues, if that is required. The method for adding derivatives to GLYCAM residues is very similar to the method for building branched structures. […]
Click here to learn more about file versioning for the GLYCAM parameter sets.
We have occasionally needed to make changes to the GLYCAM06 parameter files. Whenever we do, we give the file a new version number. Click here to learn more about file versioning for the GLYCAM parameter sets.
Answer in progress…. Please pardon any mess while this page is being built. In the meantime, perhaps the information will be of use. If you have questions, please contact us. The tables below list the current capabilities of the GLYCAM-Web parameter sets. Note: these capabilities might differ slightly from those of the point-and-click builder. They […]