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Hi everybody, This tutorial is about running phenix.pdbtools via the graphical user interface. Phenix.pdbtools is a tool for model manipulations. It offers a large variety of options, which can be applied to the whole model or to selected parts by using atom selections. In this tutorial, some usage examples are presented. Note that the full list of options is listed on the documentation page. As input, only a PDB file is required. Optionally, a ligand restraints file can be used in addition. The data from this example are from the lysozyme model with the Protein Data Bank ID 2vb1. The resolution of the data extends to 0.65 A Now letamp;#39;s switch to the program and see how to run it. To do this, open the Phenix GUI. In the panel on the right hand side, choose Model Tools and then click on PDB tools, which opens a new window. For book-keeping, add a job title, I will use phenixtutorial. To add the model file, click amp;quot;Add fileamp;quot; and select the input file from the dial