Editing ResDe (section)

===Restraint Checker===

Restraint Checker is a PyMol plugin. After installation the user can access this tool by simply using the plugin menu in PyMol. The user will first open their structure in PyMol. Upon running Restraint Checker (via the Plugin menu), the user will first be asked what format their restraint file is (phenix or ccp4). The user then opens the restraint file that they want to display. The user is asked to choose the PyMOl object to display the restraints on (this is essential for the program and is useful if there is more than one object open in PyMol). Like Restraint Definer, a dotted line will appear between each pair of atoms that have been restrained. Also like Restraint Definer, the collapsible object menu called 'Restraints' will appear where all the restraint objects are listed.

This tool is useful if the user has a restraint definition file that they would like modify in some way. To make modifications the user will use Restraint Checker to bring up previously defined restraints and then use Restraint Definer to make the desired modifications. For example, the user may have a restraint definition file that they would like to add more restraints to. If the user wants to eliminate a previously defined restraint, they can remove the restraint by identifying and deleting the restraint object in the 'Restraint' object menu. After the modifications have been made the user can save a new restraint definition file.

NOTE: If the user has previously defined restraints on their structure and then runs Restraints Definer, the previously defined restraints will turn red while all newly defined restraints will be yellow.