Editing ResDe (section)

===Modify PDB===

Modify PDB is a stand-alone program that is run by simply opening the program or running it from the command line. There are special requirements depending on the platform that you are using (see installation instructions). Upon running Modify PDB the user will be asked to open the PDB file that was used to create the original restraint definition file. The user can then modify the PDB by either offsetting residue numbers or changing chain IDs.

[[File:ModifyPDB all.png|left|frameless|700px]]When offsetting residue numbers the user will be asked to provide the chain ID and the region of residues numbers that they wish to modify. They will also be asked to provide the number by which to offset the region by; the number can be either positive or negative.

When changing chain IDs the user will be asked to provide the chain ID and the region of residues numbers that they wish to modify. They will also be asked to provide the new chain ID.

The user can save a new PDB with the changes that they have made by selecting 'Save PDB Changes.'

To apply these changes to an existing restraint definition file the user will click 'Apply' and be asked to open the restraint definition file. The user then is asked to save the new restraint definition file.