Code repository of my MSc of Bioinformatics thesis
"An exploratory analysis of the spread and structure of acetyltransferases in Pseudomonas phages"
Research conducted at the lab of Computational Systems Biology of prof. Vera van Noort and the lab of Gene Technology of prof. Rob Lavigne with daily supervision by Hannelore Longin.
Each distinct folder of this repository corresponds to a separate stage of this project.
Mining: Genome and proteome mining of N-acetyltransferases in Pseudomonas phages using HMM-based sequence scanning methods.AlphaFold: Generating AlphaFold2 protein structure models of the mining hits to check for the presence of typical structural features and get a grasp of any existing structural diversity.Docking: Docking acetyl-CoA in the AlphaFold models to estimate the acetyltransferase's functionality in correlation with its structural features.