This workshop walks through the process of preparing a simple protein system for molecular dynamics simulation using Ambertools. In addition, it showcases the use of Alphafix to remediate crystal structure-derived models (identify and rebuild missing atoms and residues).
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Preparing protein (only) systems for MD simulation using Ambertools (plus CBAtools)
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Preparing protein (only) systems for MD simulation using Ambertools (plus CBAtools)
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