← Older revision
Revision as of 16:45, 18 November 2013
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= Older News=
= Older News=
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* [[b2transparency]] can set surface transparency based on atom b-factor
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* [[psico]] is a python module which extends PyMOL with many commands
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* [[uniprot_features]] makes named selections for sequence annotations from uniprot
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* [[Gyration_tensor]] Calculates chain-wise gyration tensor of a protein.
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* [[set_phipsi]] can set phi/psi angles for all residues in a selection
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* [[dehydron]] A plugin to calculate dehydrons and display them onto the protein structure. A dehydron is a main chain hydrogen bond incompletely shielded from water attack.
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* [[pymol2glmol]] is script to export a scene in pymol to a webpage for GLmol. GLmol is a molecular viewer for Web browsers written in WebGL/Javascript. Like web Jmol, but MUCH faster. Try it out!
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* [[cyspka]] is an experimental surface cysteine pKa predictor.
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* [[Contact_Map_Visualizer]] visualize residues corresponding to the contact map. See [[CMPyMOL]].
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* [[spectrum_states]] colors states of multi-state object
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* [[TMalign]] is a wrapper for the TMalign program
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* The [[Gallery|gallery]] has been updated to include a few new ideas and scripts for rendering
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* [[save_settings]] can dump all changed settings to a file
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* Instructions for [[3d_pdf|generating 3D PDFs]] using PyMOL.
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* Wiki has been updated. Please report any problems to the sysops.
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* Create objects for each molecule or chain in selection with [[split_object]] and [[split_chains]]
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* [[Rotkit]]: is a collection of usefull scripts to place your dye/molecule where you want. It includes a very handy, rotation around line, function.
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* [[Forster-distance-calculator]]: Can be used as a pymol-python shortcut to calculate the Förster distance between dyes from different companies. Useful, if the user have pymol installed, but not python. This script is meant as a tool to finding the right dyes, when labelling suitable positions for the site-directed cysteine mutants. See [[DisplacementMap]].
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* [[propka]]: Fetches the pka values for your protein from the [http://propka.ki.ku.dk/ propka] server. [[propka]] generates a pymol command file that make pka atoms, color and label them according to your protein. Inspection is made easy by grouping the pka atoms in the pymol menu.
* [[PluginDirectory]]: How to set up a personal plugin directory
* [[PluginDirectory]]: How to set up a personal plugin directory
* Add focal blur to images [[FocalBlur]].
* Add focal blur to images [[FocalBlur]].