Team:TU-Munich/Notebook/Methods

From 2013.igem.org

(Difference between revisions)
(Generation of Annimated GIFs)
(Generation of Annimated GIFs)
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PyMOL> hide everything, all<br>
PyMOL> hide everything, all<br>
PyMOL> show cartoon, all<br>
PyMOL> show cartoon, all<br>
-
PyMOL> color purple, ss h; color yellow, ss s; color green, ss ""<br>
+
PyMOL> color lime, ss h; color yelloworange, ss s; color limon, ss ""<br>
PyMOL> mset 1 x180<br>
PyMOL> mset 1 x180<br>
PyMOL> util.mroll 1,180<br>
PyMOL> util.mroll 1,180<br>

Revision as of 17:47, 5 July 2013


Molecular-biological Methods

Preparation of Nucleotide fragments

Digestion, Dephosphorylation

Hybridization of Oligonucleotides

Polymerase Chain Reaction

Site-directed Mutagenesis

Agarose Gel Electrophoresis

TAE-Buffer

Reagent Amount

Ligation of DNA-Fragments

Microbiological Methods

Preparation of LB-Media

LB-Media

Reagent Amount

Transformation of E. coli

Cultivation of E. coli

Protein-biochemical Methods

Physcomitrella Methods

The techniques used for the cultivation and manipulation of Physcomitrella patens are based on the knowledge of the chair for Plantbiotechnology of Prof. Dr. Reski at Freiburg University which are availible at [http://www.plant-biotech.net Plant-Biotech.net].

Preparation of Knob-Media

Knob-Media

Reagent Amount

Cultivation of P. patens

Homogenization

Bioinformatical Methods

Generation of Annimated GIFs

PyMOL> orient
PyMOL> hide everything, all
PyMOL> show cartoon, all
PyMOL> color lime, ss h; color yelloworange, ss s; color limon, ss ""
PyMOL> mset 1 x180
PyMOL> util.mroll 1,180
PyMOL> mpng frame

References:

http://www.ncbi.nlm.nih.gov/pubmed/6327079 Edens et al., 1984

  1. http://www.ncbi.nlm.nih.gov/pubmed/6327079 Edens et al., 1984 Edens, L., Bom, I., Ledeboer, A. M., Maat, J., Toonen, M. Y., Visser, C., and Verrips, C. T. (1984). Synthesis and processing of the plant protein thaumatin in yeast. Cell, 37(2):629–33.
  2. http://ihome.cuhk.edu.hk/~b102142/pymol/pymol_tutorial.html Wong A tutorial on using PyMOL to generate publication quality figures. http://ihome.cuhk.edu.hk/~b102142/pymol/pymol_tutorial.html]]


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