Difference between revisions of "Solubis plugin for YASARA"

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'''WALTZ''' indicates whether a protein will form highly structured fibrillar or rather less structured amorphous aggregates.  
 
'''WALTZ''' indicates whether a protein will form highly structured fibrillar or rather less structured amorphous aggregates.  
  
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'''FoldX''' is a molecular modeling and protein design software program that calculates energy differences that come close to experimental values.
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'''FoldX''' is a molecular modeling and protein design software program that calculates energy differences that come close to experimental values. FoldX is widely used to predict the effect of mutations on the stability of a protein.
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FoldX can minimize a PDB structure, mutate one or more residues to new residues, do protein stability analysis, protein-protein interaction energy analysis and much more. FoldX is widely used to predict the effect of mutations on the stability of a protein or to predict the effect on protein-protein binding.
 
  
 
'''YASARA''' is a molecular-graphics, -modeling and -simulation program that finally makes it really easy to answer your biological questions. The 3D graphics and intuitive interface make it a very user-friendly protein and nucleic acid analysis package. It is also easily extendable by means of plugins.
 
'''YASARA''' is a molecular-graphics, -modeling and -simulation program that finally makes it really easy to answer your biological questions. The 3D graphics and intuitive interface make it a very user-friendly protein and nucleic acid analysis package. It is also easily extendable by means of plugins.
  
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FoldX is normally run from the command line without graphics. By installing the FoldX plugin for YASARA, you can access the most important FoldX tools at the touch of a button in the 3D graphical YASARA interface. You directly see the results of your FoldX protein analysis on screen.
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FoldX, TANGO and WALTZ  are normally run from the command line without graphics. By installing the SOLUBIS plugin for YASARA, you can access these tools at the touch of a button in the 3D graphical YASARA interface. You directly see the results of your FoldX protein analysis on screen.
  
 
TANGO, WALTZ, FoldX, YASARA and the FoldX plugin for YASARA are all available for Linux, MacOSX and Windows.
 
TANGO, WALTZ, FoldX, YASARA and the FoldX plugin for YASARA are all available for Linux, MacOSX and Windows.

Revision as of 18:34, 25 March 2013

Welcome to the homepage of the Solubis plugin for YASARA

Solubis tools menu in YASARA

The Solubis plugin for YASARA is a software package to identify mutants that decrease the aggregation tendency with YASARA. This package combines TANGO, WALTZ, FoldX and YASARA.

TANGO is a statistical mechanics algorithm that identifies the regions of a protein sequence involved in the process of b-sheet aggregation.

WALTZ indicates whether a protein will form highly structured fibrillar or rather less structured amorphous aggregates.

FoldX is a molecular modeling and protein design software program that calculates energy differences that come close to experimental values. FoldX is widely used to predict the effect of mutations on the stability of a protein.

YASARA is a molecular-graphics, -modeling and -simulation program that finally makes it really easy to answer your biological questions. The 3D graphics and intuitive interface make it a very user-friendly protein and nucleic acid analysis package. It is also easily extendable by means of plugins.

FoldX, TANGO and WALTZ are normally run from the command line without graphics. By installing the SOLUBIS plugin for YASARA, you can access these tools at the touch of a button in the 3D graphical YASARA interface. You directly see the results of your FoldX protein analysis on screen.

TANGO, WALTZ, FoldX, YASARA and the FoldX plugin for YASARA are all available for Linux, MacOSX and Windows.

This website is a guide through the installation and usage of the Solubis plugin for YASARA.

Have fun!

Topics in this guide

Miscellaneous

Download

FoldX version information

FoldX 3 Beta 5.1 is required for the plugin to work. Any FoldX release before January 2013 will not work. Get the current version from http://foldx.crg.es.

YASARA version information

The plugin only works properly from YASARA version 12.2.20 and higher. Upgrading to the latest YASARA is strongly recommended.

Links

Retrieved from "https://solubisyasara.switchlab.org/index.php?title=Solubis_plugin_for_YASARA&oldid=18"