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== Expression and Purification ==
--[[User:3ND03P|3ND03P]] 09:40, 5 March 2008 (CET)
* [[SLIC cloning]]
* [[Tags]]
* [[Expression systems]]
* [[Expression screening]]
* [[Purification]]
* [[Cleavage: wanted and unwanted]]
* [[DNA and DNA-binding proteins]]
* [[Expression and Purification: Tips and Tricks]]
 
== 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 ===
* [[X-ray generators and detectors]] (experiences)
* [[Synchrotron beamlines]]
* [[Cryo]]
* [[Strategies]]
* [[Data quality]]
* [[Radiation damage]]
* [[Data collection: Tips and Tricks]]
 
== Crystallography ==
 
=== Theory ===
* [[Basics of Crystallography]]
* [[Phase problem]], and [[Phasing]]
* [[Twinning]]
* [[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]
* [http://www.solve.lanl.gov/index.html Solve/Resolve]
* ...
 
==== 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]]
* [[Programs for nucleic acid structure analysis|Programs for nucleic acid 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]]
 
== See also ==
* [[Teaching crystallography]]
* [[Other crystallography links, or collections of links]]
* [[Other crystallography wikis]]
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