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Installing MODELLER on Linux/Ubuntu

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MODELLER is a software package that is used to predict protein three-dimensional structures [1,2]. MODELLER can be used for other tasks such as modeling of loops in proteins, multiple alignments of structures, comparison of protein structures, and many others. In this article, I will explain how to install MODELLER on Linux/Ubuntu.

1. Download

Let’s update and upgrade the system first.

Open the terminal (Ctrl+T) and type the following commands:

$ sudo apt-get update

$ sudo apt-get upgrade

Now start downloading the software in a directory, say, Downloads, by typing the following command:

$ sudo wget https://salilab.org/modeller/9.22/modeller-9.22.tar.gz 

2. Install

Extract the tar package:

$ tar xvzf modeller-9.22.tar.gz

It will create a new directory in Downloads, named modeller-9.22. cd to that directory and start installing.

$ cd modeller-9.22

$ ./install

It will prompt some questions, answer them, and then you are finally done!

You can run MODELLER either by:

  1. using python (assuming python 2.3 – 3.7 is already installed on your system)

$ python modeller_script.py

2. using mod9.22 scripts

$ mod9.22 modeller_script.py

That’s all for the installation of MODELLER.

If you have any query, please email at [email protected]

References

  1. Webb, B., & Sali, A. (2014). Comparative protein structure modeling using MODELLER. Current protocols in bioinformatics47(1), 5-6.
  2. Martí-Renom, M. A., Stuart, A. C., Fiser, A., Sánchez, R., Melo, F., & Šali, A. (2000). Comparative protein structure modeling of genes and genomes. Annual review of biophysics and biomolecular structure29(1), 291-325.

Tariq is founder of Bioinformatics Review and CEO at IQL Technologies. His areas of expertise include algorithm design, phylogenetics, MicroArray, Plant Systematics, and genome data analysis. If you have questions, reach out to him via his homepage.

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