Step 4. How to run PROCHECK-NMR
To run PROCHECK-NMR, enter:
procheck_nmr coordinate_file [ranges-file]
coordinate_file is the name of the PDB file containing
your protein structure, or ensemble of structures, and should contain the full
path unless your structure is in the default directory. For example
[ranges-file] is the name of an (optional) file specifying
which models and residue ranges are to be included in the plots (see Selecting model- and residue-ranges).
If you have run AQUA with the same coordinate_file, then
PROCHECK-NMR will plot analyses of the restraint violations in your
models. Otherwise, it will merely plot its analyses of the geometry of the
structures in the ensemble.