Keywords: manual

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## model.assess_ga341() -- assess a model with the GA341 method

`assess_ga341()`

Output:
  (score, compactness, e_native_pair, e_native_surf, e_native_comb, z_pair, z_surf, z_comb)

> This command assesses the quality of the model using the GA341 method method [Melo et al., 2002,John & Š ali, 2003]. The method uses the percentage sequence identity between the template and the model as a parameter. MODELLER-produced PDB files contain this information in a `'REMARK'`; in the case of other PDB files, you should supply this by setting model.seq_id.

> If the model contains multiple chains, only the first is evaluated by this method; if you wish to evaluate the model in a different chain, you should write out that single chain into a new model first. (The method was parameterized for use with single-chain proteins, so its use for multi-chain models is not recommended.)

Example: examples/commands/assess_ga341.py

      # Example for: model.assess_ga341()

      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')

      # Set template-model sequence identity. (Not needed in this case, since
      # this is written by Modeller into the .pdb file.)
      mdl.seq_id = 37.037

      score = mdl.assess_ga341()

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