Difference between revisions of "Annocryst"

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== Example Pymol Script ==
 
== Example Pymol Script ==
 
See userguide http://itee.uq.edu.au/~eresearch/downloads/annocryst-pymol-user-guide.pdf
 
See userguide http://itee.uq.edu.au/~eresearch/downloads/annocryst-pymol-user-guide.pdf
<syntaxhighlight lang="python">
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Test
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Standard settings of '''AnnoCryst Settings'''
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<syntaxhighlight lang="text">
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annotationsServerURL: http://maenad.itee.uq.edu.au:8080/Annotea/AnnoteaServlet
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keywordOntologyNamespace: http://www.proteinontology.info/po.owl
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keywordOntologyURL: http://maenad.itee.uq.edu.au/agerber/po.owl
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pdbRepositoryURL:http://maenad.itee.uq.edu.au:8080/harvanapdb/au.edu.uq.itee.eresearch.harvana.gwt.Main/pdb/
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uploadServerURL: http://maenad.itee.uq.edu.au:8080/Annotea/FileUploadServlet
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username: Anonymous
 
</syntaxhighlight>
 
</syntaxhighlight>
  

Revision as of 20:17, 5 December 2011

AnnoCryst for PyMOL extends the functionality of PyMOL to support collaborative annotation of 3D crystallographic models. It is implemented as a plugin to PyMOL that provides an interface to browse and create annotations on structures loaded from Protein Data Bank (PDB) files. The annotations are retrieved from and stored on an annotation server using the W3C's Annotea protocol.

Website: AnnoyCryst online.

Example Pymol Script

See userguide http://itee.uq.edu.au/~eresearch/downloads/annocryst-pymol-user-guide.pdf

Standard settings of AnnoCryst Settings

annotationsServerURL: http://maenad.itee.uq.edu.au:8080/Annotea/AnnoteaServlet
keywordOntologyNamespace: http://www.proteinontology.info/po.owl
keywordOntologyURL: http://maenad.itee.uq.edu.au/agerber/po.owl
pdbRepositoryURL:http://maenad.itee.uq.edu.au:8080/harvanapdb/au.edu.uq.itee.eresearch.harvana.gwt.Main/pdb/
uploadServerURL: http://maenad.itee.uq.edu.au:8080/Annotea/FileUploadServlet
username: Anonymous

Python Code

Download: plugins/annocryst.py
This code has been put under version control in the project Pymol-script-repo