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mention haddock-restraints --pml
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education/HADDOCK24/HADDOCK24-protein-DNA-advanced/index.md

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@@ -508,11 +508,11 @@ The topics covered in this part assume that you are familiar with the concept of
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In this part, you will use a custom-made plugin for the PyMOL molecular viewer to construct and visualise *AIR*s for the Cro-OR1 system.
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The plugin combines the ability to construct custom restraint sets for multi-body systems with the convenience of a visual appreciation of the resulting restraints network. **Download `AIRviewer3.py` using this** [**link**](https://surfdrive.surf.nl/files/index.php/s/GX1zKtcaCWq0nFk){:target="_blank"}.
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An alternative to the use of this plugin is a special HADDOCK `Generate Restraints` web interface available at: [https://wenmr.science.uu.nl/haddock-restraints/](https://wenmr.science.uu.nl/haddock-restraints/)
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**Note** that data archive includes `tools/AIRviewer.py`, which differs from the version linked above. The linked AIRviewer3 requires Python 3, while the one in `tools/` requires Python 2.
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**Note** that `AIRviewer.py` is useful only when AIR visualization is needed. Otherwise, the HADDOCK `Generate Restraints` web interface, `haddock-restraints` command-line tool, or manual selection of active/passive residues directly in the `Input parameters` section of the HADDOCK web server is sufficient.
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**Note** that `AIRviewer` is mainly useful when AIRs are generated by manually selecting residues in PyMOL. In most cases, it is more convenient and up to date to use the HADDOCK [Generate Restraints](https://wenmr.science.uu.nl/haddock-restraints/){:target="_blank"} web interface, the [haddock-restraints](https://github.com/haddocking/haddock-restraints){:target="_blank"} command-line tool, or to simply specify active/passive residues directly in the `Input parameters` section of the HADDOCK web server.
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**Note** that `AIRviewer` is not the only way to visualize the restraints network. You can also use `haddock-restraints` with the `--pml` flag. See the [documentation](https://github.com/haddocking/haddock-restraints/pull/47){:target="_blank"} for more details.
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#### Constructing AIRs for protein-DNA systems

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