This command assesses the quality of the model using the normalized DOPE method. This is a Z-score; positive scores are likely to be poor models, while scores lower than -1 or so are likely to be native-like.
The normalized DOPE score is derived from the statistics of raw DOPE scores6.3. See selection.assess_dope() for more information on these raw scores.
When using automodel or loopmodel, automatic normalized DOPE assessment of each model can be requested by adding assess.normalized_dope to automodel.assess_methods or loopmodel.loop.assess_methods respectively.
# Example for: model.assess_normalized_dope() from modeller import * from modeller.scripts import complete_pdb env = environ() env.libs.topology.read(file='$(LIB)/top_heav.lib') env.libs.parameters.read(file='$(LIB)/par.lib') # Read a model previously generated by Modeller's automodel class mdl = complete_pdb(env, '../atom_files/1fdx.B99990001.pdb') zscore = mdl.assess_normalized_dope()