This research project will study the connection between the gut microbiome alterations and contributing proteins, such as Tau and beta-amyloid, alpha-synuclein, and Huntingtin, analyzing their specific structure and function in Alzheimer’s, Parkinson’s, and Huntington’s diseases respectively. Previous studies have shown a possible relationship between gut microbiome bacteria and the eventual aggregating and misfolding of proteins. Abnormal misfolded proteins interrupt intercellular communication and secrete toxins, and this action typically triggers the onset of those diseases. This project will utilize BLAST to inspect similarities between the molecular structures of these proteins. Results will provide a better understanding of each disease and potentially come up with an idea of how to combat all these neurodegenerative diseases.