A topological approach for analyzing the protein structure

Zakaria Lamine, Mohammed Wadia Mansouri, My Ismail Mamouni

Abstract


Persistent homology is a new tool from algebraic topology, showing until nowadays a lot of success when it comes to application in biology since this latest use metrics only for measuring similarities, Embedding the geometric details and focusing on the global shape is the key point making the success of persistent homology as an efficient topological data analysis tool. In this work we will be dealing with the following points to survey our hypothesis: the flexibility-rigidity index, a classic method used to simulate molecule movements and flexible behavior, when it comes to atomic rigidity functions. We will also analyze interesting patterns in the binding site of the beta sheet generated from the pdb file 2JOX. We will be detecting and giving a simple description of different patterns generated by using javaplex generating barcodes and linear statistical results as a summary statistics.

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Published: 2024-04-08

How to Cite this Article:

Zakaria Lamine, Mohammed Wadia Mansouri, My Ismail Mamouni, A topological approach for analyzing the protein structure, Commun. Math. Biol. Neurosci., 2024 (2024), Article ID 48

Copyright © 2024 Zakaria Lamine, Mohammed Wadia Mansouri, My Ismail Mamouni. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Commun. Math. Biol. Neurosci.

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