ValidatorDB:Plugin - Revision history

Lukas at 15:21, 19 July 2017

2017-07-19T15:21:47Z

← Older revision		Revision as of 15:21, 19 July 2017
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	ValidatorDB extension allows for download and display validation reports from the Protein Data Bank. This process is useful for analyses of structural discrepancies found in ligands and non-standard residues within the PDB archive. The plugin archive for PyMOL and UCSF Chimera software is ~~availabe~~ for download [https://webchem.ncbr.muni.cz/Platform/AppsBin/ValidatorDB/ValidatorDB_plugin.zip here].		ValidatorDB extension allows for download and display validation reports from the Protein Data Bank. This process is useful for analyses of structural discrepancies found in ligands and non-standard residues within the PDB archive. The plugin archive for PyMOL and UCSF Chimera software is available for download [https://webchem.ncbr.muni.cz/Platform/AppsBin/ValidatorDB/ValidatorDB_plugin.zip here].

	=Installation=		=Installation=

Lukas at 15:21, 19 July 2017

2017-07-19T15:21:31Z

← Older revision		Revision as of 15:21, 19 July 2017
Line 1:		Line 1:
	ValidatorDB extension allows for download and display validation reports from the Protein Data Bank. This process is useful for analyses of structural discrepancies found in ligands and non-standard residues within the PDB archive.		ValidatorDB extension allows for download and display validation reports from the Protein Data Bank. This process is useful for analyses of structural discrepancies found in ligands and non-standard residues within the PDB archive. The plugin archive for PyMOL and UCSF Chimera software is availabe for download [https://webchem.ncbr.muni.cz/Platform/AppsBin/ValidatorDB/ValidatorDB_plugin.zip here].

	=Installation=		=Installation=

Lukas: Created page with "ValidatorDB extension allows for download and display validation reports from the Protein Data Bank. This process is useful for analyses of structural discrepancies found in l..."

2017-07-19T15:15:46Z

Created page with "ValidatorDB extension allows for download and display validation reports from the Protein Data Bank. This process is useful for analyses of structural discrepancies found in l..."

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ValidatorDB extension allows for download and display validation reports from the Protein Data Bank. This process is useful for analyses of structural discrepancies found in ligands and non-standard residues within the PDB archive.

=Installation=
==PyMOL==
Installation of the ValidatorDB extension in the PyMOL environment is fairly simple. First, select in the PyMOL menu ''Plugin'' -> ''Plugin Manager''. Click ''Install New Plugin'' tab and select the *.zip directory with the programmatic extension. After the PyMOL restart, ''ValidatorDB extension'' can be found in the ''Plugin tab''. The entire process is highlighted at the following figures:

<gallery mode='packed-hover'>
File:PyMOL_plugin_install_1.png | Fig. 1
File:PyMOL_plugin_install_2.png | Fig. 2
</gallery>

==Chimera==
Installation of the ValidatorDB extension in the UCSF Chimera environment can be summarized in the following steps:
* Click 'Favorites tab' and select ''Add to Favorites/Toolbar'' (Fig. 1)
* Click 'Add button' and select parent directory with the unzipped extension archive (Fig. 2)

The ValiatorDB extension is available from the Tool icons menu by clicking on its icon and in the menu Tools->Structure Analysis-> ValidatorDB

<gallery mode='packed-hover'>
File:Chimera_plugin_install_1.png | Fig. 1
File:Chimera_plugin_install_2.png | Fig. 2
File:Chimera_plugin_install_3.png | Fig. 3
</gallery>