by Elizabeth Swanberg | Dec 21, 2018 | General Tools, Tools
OVERVIEW Loading a structure file into Bench is a two step process. Step One: Select which components of the structure file you wish to be included. Step Two: Bench processes the file contents to define all molecules in a way that allows Rosetta to understand the...
by Elizabeth Swanberg | Dec 20, 2018 | Introductory Workflows, Workflows
There are three design methods that you can run in CAD: Design, Flex Design, and Relax Design. They are all set up in the same way using the following steps… 1.) LOAD A STRUCTURE Click on , which will open a new tab in the center window. Load a structure into...
by Elizabeth Swanberg | Dec 18, 2018 | Actions, Tools
INTRODUCTION Many design tools have been developed by Rosetta labs and the three most refined methods have been incorporated into Cyrus CAD for easy use. These tools (Design, Flex Design, and Relax Design ) have been well-tested in the Rosetta labs where they were...
by Elizabeth Swanberg | Dec 16, 2018 | General Tools, Tools
Create a New Selector Edit an Existing Selector Apply a Selector Delete a Selector Rename a Selector How to Create a New Selector: Load a structure into CAD Click the residue(s) that you wish to select NOTE: Command is equivalent to Control on Windows Command (⌘) +...
by Elizabeth Swanberg | Dec 16, 2018 | Actions, Tools
Relax is one of the most used Rosetta methods for sampling conformational changes in a protein. It is more aggressive than Minimize, so it tries out orientations that are up to a few angstroms away from the starting structure. RUNNING RELAX Select the folder that...
