scipion-em-atomstructutils 2.0.1

A Scipion plugin to manipulate atomic structure files (PDB/MMCIF)

Atom_struct_utils scipion plugin

Utilities for handling PDB/mmcif atomic structure files:

Current plugin protocols:

• operate (option extract): extract a chain from an atom structure (pdb/cif file).

• operate (option add): perform union of several atomic structures.

• convert_sym: takes an atomStruct in any icosahedric symemtry and rotates it to another.

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

OR

• through the plugin manager GUI by launching Scipion and following Configuration >> Plugins

• Developer’s version

1. Download repository:

git clone https://github.com/scipion-em/scipion-em-atom_struct_utils.git

2. 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

• scipion test –grep TestConvertSymmetry –run

Examples

See Model Building Tutorial

Buildbot status

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Status production version: