Installing MODELLER on Linux/Ubuntu

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:

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 info@bioinformaticsreview.com.

References

Webb, B., & Sali, A. (2014). Comparative protein structure modeling using MODELLER. Current protocols in bioinformatics, 47(1), 5-6.
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 structure, 29(1), 291-325.