Topics: Difference between revisions

From CCP4 wiki
Jump to navigation Jump to search
No edit summary
 
(9 intermediate revisions by 4 users not shown)
Line 1: Line 1:
'''All existing articles and links are blue, whereas a red link corresponds to an article that does not yet exist - by clicking on the red link you start creating that article!'''
'''This page is now obsolete since it was creating before too much of hierarchy structure. Use the Navigation Panel in the Side Bar instead.'''


== Expression and Purification ==
--[[User:3ND03P|3ND03P]] 09:40, 5 March 2008 (CET)
* [[Expression systems]]
* [[Tags]]
* [[Expression screening]]
* [[Purification]]
* [[Cleavage: wanted and unwanted]]
* [[DNA and DNA-binding proteins]]
* [[Expression and Purification: Tips and Tricks]]
* [[SLIC cloning]]
 
== Crystals ==
 
=== Crystal growth and manipulation ===
* [[Modifying the protein to crystallize better]]
* [[Crystallization screens and methods]]
* [[Robots for crystallization setup]]
* [[Biophysical methods]] for characterizing proteins and their crystals
* [[Visualization of crystal growth]]
* [[Robots for crystal mounting]]
* [[Crystal growth: Tips and Tricks]]
 
=== Data collection ===
* [[Synchrotron beamlines]]
* [[Cryo]]
* [[Strategies]]
* [[Data quality]]
* [[Radiation damage]]
* [[Data collection: Tips and Tricks]]
 
== Crystallography ==
 
=== Theory ===
* [[Basics of Crystallography]]
* [[Phase problem]], and [[Phasing]]
* [[R-factors]]
* [[References and links]]
 
=== Programs ===
==== by package ====
(large packages first)
* [[CCP4]]
* [[CNS]]
* [[PHENIX]]
* [[SHELX C/D/E/L]] (homepage at [http://shelx.uni-ac.gwdg.de/SHELX])
* moleman, lsqman, ... from [http://xray.bmc.uu.se/usf/ Uppsala Software Factory]
* XDS [http://www.mpimf-heidelberg.mpg.de/~kabsch/xds homepage] and [http://strucbio.biologie.uni-konstanz.de/xdswiki/index.php/XDS XDSwiki]
* HKL [http://www.hkl-xray.com homepage]
* [[COOT]]
* [http://www.pymolwiki.org/index.php/Main_Page PyMol] wiki
* [[O]]
* [[ARP/wARP]]
* [[SHARP]] [http://www.globalphasing.com homepage]
* ...
 
==== by task ====
* [[Data reduction]]
* [[Molecular replacement]] (MR)
* [[Experimental phasing (SIR/MIR and SAD/MAD)]]
* [[Model building]]
* [[Refinement]]
* [[Model validation]]
* [[Solving a structure: Tips and Tricks]]
* [[Model building and refinement: Tricks and Tips]]
 
== Bioinformatics ==
* [[Servers and programs for sequence analysis]]
* [[Structure based sequence alignment]]
* [[Servers for structure analysis|Servers and programs for protein structure analysis]]
* [[Servers for ligand topologies/parameters]]
* [[Prediction of structure from sequence: servers and programs]]
* [[Programs for visualization]] (see also [[Model building]])
* [[Links to Bioinformatics websites]]
 
== Hardware: computing and displaying ==
* [[Computer hardware]]
* [[Operating systems and Linux distributions]]
* [[Programming and programming languages]]
* [[Visualization: graphics cards and 3D|Graphics cards and 3D]]
 
== FAQ and troubleshooting ==
* [[Expression and Purification: Tips and Tricks|protein is not expressed or cannot be purified]]
* [[Crystal growth: Tips and Tricks|crystals don't grow]]
* [[Solving a structure: Tips and Tricks|phases too bad]]
* [[Model building and refinement: Tricks and Tips|model does not refine]]

Latest revision as of 10:41, 5 March 2008

This page is now obsolete since it was creating before too much of hierarchy structure. Use the Navigation Panel in the Side Bar instead.

--3ND03P 09:40, 5 March 2008 (CET)

Retrieved from "https://wiki.uni-konstanz.de/ccp4/index.php?title=Topics&oldid=469"