File archive

This page contains example Python scripts for MODELLER. To submit your own examples, simply edit this page to add them.

(For large inputs, it may be easier to link to a .tar.gz or .zip file containing them. This Wiki does not allow you to upload such files, so in this case, email them to Modeller Caretaker to first have them added to the website.)

Examples

• Restraints_on_pseudo_atoms: demonstrates the use of restraints between real and pseudo atoms.
• Mutate_model: demonstrates the mutation and optimization of a single residue (SNP).
• Missing_residues: demonstrates using Modeller to fill in missing residues.
• Rebuilding_sequence_databases: scripts to rebuild sequence databases from PDB.
• Cyclic_protein: demonstrates how to build a model of a cyclic protein.
• Cluster_PDBs: make a clustered representative from a set of PDBs of the same sequence.
• Using_non-standard_parameter_files: using customized restyp.lib, par.lib and top.lib files with automodel.
• Make_alpha_helix: make an alpha-helical model from primary sequence alone.