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utilities for handling PDB/mmcif atomic structure files
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Atom_struct_utils scipion plugin

Utilities for handling PDB/mmcif atomic structure files:

Current plugin utilities:

  • extract a chain from an atom structure (pdb/cif file)
  • perform union of several atomic structures

implemented in a single protocol called operate

Install this plugin

You will need to use 2.0.0 version of Scipion to run these protocols. To install the plugin, you have two options:

  • Stable version
scipion installp -p scipion-em-atom_struct_utils


  • through the plugin manager GUI by launching Scipion and following Configuration >> Plugins
  • Developer's version
  1. Download repository:
git clone
  1. Install:
scipion installp -p path_to_scipion-em-atom_struct_utils --devel
  • Binary files

Atom_struct_utils plugin is a pure Python module, no binary files are required.

  • Tests

To check the installation, simply run the following Scipion test: scipion test --grep TestOperate --run


See Model Building Tutorial

Buildbot status

Status devel version:

Status production version:

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