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Docking

Raccoon2: A GUI facilitating virtual screenings with Autodock and Autodock Vina

in Bioinformatics Programming/Docking/Drug Discovery by

In the previous article, a new plugin called ‘Raccoon’ was mentioned, which helps in preparing virtual screening using Autodock. It provides a simple graphical user interface (GUI) where you can easily load the ligand and protein files in Autodock and perform virtual screening. An advanced version of Raccoon called, ‘Raccoon2’ has been introduced by Forli et al., (2016) [1] as GUI to prepare and analyze Autodock and Autodock Vina virtual screenings. Continue reading “Raccoon2: A GUI facilitating virtual screenings with Autodock and Autodock Vina” »

How to install Raccoon plugin on Ubuntu for virtual screening using Autodock?

in Bioinformatics Programming/Docking by

As mentioned in our previous articles, Autodock Vina [1] is a very useful bioinformatics tool for molecular docking and provides various options for site-specific docking and blind docking. But it seemed to be difficult to perform virtual screening using Autodock. Recently, Autodock has developed a plugin known as ‘Raccoon’ [2], which serves for this purpose. Continue reading “How to install Raccoon plugin on Ubuntu for virtual screening using Autodock?” »

Web-based tools for protein-peptide docking

in Docking/Tools by

Protein-protein interactions are considered necessary in the interactome analysis as they play an important in various biological processes such as post-translational modifications and signal transduction, and short peptides mediate around 40% of protein-protein interactions[1]. They are also found involved in some kind of infections and critical human diseases such as cancer [2,3]. Continue reading “Web-based tools for protein-peptide docking” »

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